NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|194306567|ref|NP_853556|]
View 

replication factor C subunit 5 isoform 2 [Homo sapiens]

Protein Classification

replication factor C small subunit( domain architecture ID 1001945)

replication factor C small subunit is part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
rfc super family cl35099
replication factor C small subunit; Reviewed
2-308 3.07e-122

replication factor C small subunit; Reviewed


The actual alignment was detected with superfamily member PRK00440:

Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 353.41  E-value: 3.07e-122
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   2 VEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQLYKDKEFGSMvLELNASDDRGIDIIR 81
Cdd:PRK00440   8 VEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENF-LELNASDERGIDVIR 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  82 GPILSFASTRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELM 161
Cdd:PRK00440  87 NKIKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAV 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 162 VPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILDWMLNQDFTTA 241
Cdd:PRK00440 167 AERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIREMIELALNGDFTEA 246
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 194306567 242 YRNITELKTLKGLALHDILTEIHLFVHRVDFPSSVRIHLLTKMADIEYRLSVGTNEKIQLSSLIAAF 308
Cdd:PRK00440 247 REKLRDLMIDYGLSGEDIIKQIHREVWSLDIPEELKVELIDAIGEADFRITEGANERIQLEALLAKL 313
 
Name Accession Description Interval E-value
rfc PRK00440
replication factor C small subunit; Reviewed
2-308 3.07e-122

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 353.41  E-value: 3.07e-122
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   2 VEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQLYKDKEFGSMvLELNASDDRGIDIIR 81
Cdd:PRK00440   8 VEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENF-LELNASDERGIDVIR 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  82 GPILSFASTRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELM 161
Cdd:PRK00440  87 NKIKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAV 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 162 VPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILDWMLNQDFTTA 241
Cdd:PRK00440 167 AERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIREMIELALNGDFTEA 246
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 194306567 242 YRNITELKTLKGLALHDILTEIHLFVHRVDFPSSVRIHLLTKMADIEYRLSVGTNEKIQLSSLIAAF 308
Cdd:PRK00440 247 REKLRDLMIDYGLSGEDIIKQIHREVWSLDIPEELKVELIDAIGEADFRITEGANERIQLEALLAKL 313
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
16-309 4.55e-58

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 188.65  E-value: 4.55e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  16 HQDILSTIQKFINEDRLPH-LLLYGPPGTGKTSTILACAKQLYKDKEFGSM-----------------VLELNA---SDD 74
Cdd:COG0470    1 QEEAWEQLLAAAESGRLPHaLLLHGPPGIGKTTLALALARDLLCENPEGGKacgqchsrlmaagnhpdLLELNPeekSDQ 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  75 RGIDIIRGpILSFASTRTIFKkGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFG 154
Cdd:COG0470   81 IGIDQIRE-LGEFLSLTPLEG-GRKVVIIDEADAMNEAAANALLKTLEEPPKNTPFILIANDPSRLLPTIRSRCQVIRFR 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 155 PLTPELMVPRLehvvEEEKVDisEDGMKALVTLSSGDMRRALNILQStnMAFGKVTEETVYTCTGHP---------LKSD 225
Cdd:COG0470  159 PPSEEEALAWL----REEGVD--EDALEAILRLAGGDPRAAINLLQA--LAGRKELLEDLAALLSRDralelldalLKAE 230
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 226 IANILDWMLNQdfttayrnitelktlkglaLHDILteihlfvhRVDFPSSVRIHLLTKMADIEYRLSVGTNEKIQLSSLI 305
Cdd:COG0470  231 ALELLDWLLKW-------------------LLDNL--------PLEYAGEDLARAYEALSEADRRLGRYANDRLLLEALL 283

                 ....
gi 194306567 306 AAFQ 309
Cdd:COG0470  284 AKLG 287
Rep_fac_C pfam08542
Replication factor C C-terminal domain; This is the C-terminal domain of RFC (replication ...
221-307 1.35e-30

Replication factor C C-terminal domain; This is the C-terminal domain of RFC (replication factor-C) protein of the clamp loader complex which binds to the DNA sliding clamp (proliferating cell nuclear antigen, PCNA). The five modules of RFC assemble into a right-handed spiral, which results in only three of the five RFC subunits (RFC-A, RFC-B and RFC-C) making contact with PCNA, leaving a wedge-shaped gap between RFC-E and the PCNA clamp-loader complex. The C-terminal is vital for the correct orientation of RFC-E with respect to RFC-A.


Pssm-ID: 462513 [Multi-domain]  Cd Length: 87  Bit Score: 110.64  E-value: 1.35e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  221 PLKSDIANILDWMLNQDFTTAYRNITELKTLKGLALHDILTEIHLFVHRVDFPSSVRIHLLTKMADIEYRLSVGTNEKIQ 300
Cdd:pfam08542   1 PHPEDIEEILNSCLNGDFDEAYKKVRELLVEKGYSLQDIITQLHRVVKSLDLPEEVKLELLEKLGEIEYRLSEGASEKLQ 80

                  ....*..
gi 194306567  301 LSSLIAA 307
Cdd:pfam08542  81 LSALLAA 87
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
14-155 6.35e-22

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 89.90  E-value: 6.35e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  14 ISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQLykdKEFGSMVLELNASDDRGIDIIRGPILSFASTRTI 93
Cdd:cd00009    1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANEL---FRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLF 77
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 194306567  94 FKK---GFKLVILDEADAMTQDAQNALRRVIEKF------TENTRFCLICNY--LSKIIPALQSRC-TRFRFGP 155
Cdd:cd00009   78 ELAekaKPGVLFIDEIDSLSRGAQNALLRVLETLndlridRENVRVIGATNRplLGDLDRALYDRLdIRIVIPL 151
holB TIGR00678
DNA polymerase III, delta' subunit; This model describes the N-terminal half of the delta' ...
23-167 5.42e-21

DNA polymerase III, delta' subunit; This model describes the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tighly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classisified as delta'. The noise cutoff is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273213 [Multi-domain]  Cd Length: 188  Bit Score: 88.45  E-value: 5.42e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   23 IQKFINEDRLPH-LLLYGPPGTGKTSTILACAKQLYKDKEFGS--------------------MVLELNAsDDRGIDIIR 81
Cdd:TIGR00678   4 LKRALEKGRLAHaYLFTGPEGVGKELLALALAKALLCEQRGGGepcgechscrlieagnhpdlHRLEPEG-QSIKVDQVR 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   82 GpILSFASTRTIfKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELM 161
Cdd:TIGR00678  83 E-LVEFLSRTPQ-ESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQRLPFPPLSEEAL 160

                  ....*.
gi 194306567  162 VPRLEH 167
Cdd:TIGR00678 161 LQWLIR 166
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
31-159 9.64e-10

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 56.23  E-value: 9.64e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567    31 RLPHLLLYGPPGTGKTSTILACAKQLYKDKEFgsmVLELNASDDRGIDIIRGPILSFASTRT--------------IFKK 96
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPGGG---VIYIDGEDILEEVLDQLLLIIVGGKKAsgsgelrlrlalalARKL 77
                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 194306567    97 GFKLVILDEADAMTQDAQNALRRVIEKFT--------ENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPE 159
Cdd:smart00382  78 KPDVLILDEITSLLDAEQEALLLLLEELRlllllkseKNLTVILTTNDEKDLGPALLRRRFDRRIVLLLIL 148
 
Name Accession Description Interval E-value
rfc PRK00440
replication factor C small subunit; Reviewed
2-308 3.07e-122

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 353.41  E-value: 3.07e-122
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   2 VEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQLYKDKEFGSMvLELNASDDRGIDIIR 81
Cdd:PRK00440   8 VEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENF-LELNASDERGIDVIR 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  82 GPILSFASTRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELM 161
Cdd:PRK00440  87 NKIKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAV 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 162 VPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILDWMLNQDFTTA 241
Cdd:PRK00440 167 AERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIREMIELALNGDFTEA 246
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 194306567 242 YRNITELKTLKGLALHDILTEIHLFVHRVDFPSSVRIHLLTKMADIEYRLSVGTNEKIQLSSLIAAF 308
Cdd:PRK00440 247 REKLRDLMIDYGLSGEDIIKQIHREVWSLDIPEELKVELIDAIGEADFRITEGANERIQLEALLAKL 313
PLN03025 PLN03025
replication factor C subunit; Provisional
2-313 4.49e-84

replication factor C subunit; Provisional


Pssm-ID: 178596 [Multi-domain]  Cd Length: 319  Bit Score: 256.19  E-value: 4.49e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   2 VEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQL----YKDKefgsmVLELNASDDRGI 77
Cdd:PLN03025   4 VEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELlgpnYKEA-----VLELNASDDRGI 78
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  78 DIIRGPILSFASTRTIFKKG-FKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPL 156
Cdd:PLN03025  79 DVVRNKIKMFAQKKVTLPPGrHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRL 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 157 TPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILDWMLNQ 236
Cdd:PLN03025 159 SDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQALNNLQATHSGFGFVNQENVFKVCDQPHPLHVKNIVRNCLKG 238
                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 194306567 237 DFTTAYRNITELKTLkGLALHDILTEIHLFVHRVDFPSSVRIHLLTKMADIEYRLSVGTNEKIQLSSLIAAFQVTRD 313
Cdd:PLN03025 239 KFDDACDGLKQLYDL-GYSPTDIITTLFRVVKNYDMPEFLKLEYLREIGFAHMRICDGVGSLLQLSGLLAKLCLVRE 314
PRK12402 PRK12402
replication factor C small subunit 2; Reviewed
3-308 1.65e-71

replication factor C small subunit 2; Reviewed


Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 224.87  E-value: 1.65e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   3 EKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQLYKDKeFGSMVLELNAS---------- 72
Cdd:PRK12402   7 EKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDP-WENNFTEFNVAdffdqgkkyl 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  73 --DDRGIDIIRGPILSFASTRTIFKK-------------GFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYL 137
Cdd:PRK12402  86 veDPRFAHFLGTDKRIRSSKIDNFKHvlkeyasyrplsaDYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQP 165
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 138 SKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTC 217
Cdd:PRK12402 166 SKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEITMEAAYEA 245
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 218 TGH-PLKSDIANILDWMLNQDFTTAYRNITELKTLKGLALHDILTEIHLFVHRVDFPSSV-RIHllTKMADIEYRLSVGT 295
Cdd:PRK12402 246 LGDvGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEELLRVARSRYRGDNLaRLH--RLAADADARLTDGA 323
                        330
                 ....*....|...
gi 194306567 296 NEKIQLSSLIAAF 308
Cdd:PRK12402 324 NDRIQLEALLAEL 336
PRK04132 PRK04132
replication factor C small subunit; Provisional
46-308 8.13e-65

replication factor C small subunit; Provisional


Pssm-ID: 235223 [Multi-domain]  Cd Length: 846  Bit Score: 218.56  E-value: 8.13e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  46 TSTILACAKQLYKDKeFGSMVLELNASDDRGIDIIRGPILSFASTRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFT 125
Cdd:PRK04132 580 TTAALALARELFGEN-WRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFS 658
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 126 ENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMA 205
Cdd:PRK04132 659 SNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAAL 738
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 206 FGKVTEETVYTCTGHPLKSDIANILDWMLNQDFTTAYRNITELKTLKGLALHDILTEIHLFVHRVDFPSSVRIHLLTKMA 285
Cdd:PRK04132 739 DDKITDENVFLVASRARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHREVFNLPIDEPKKVELADKIG 818
                        250       260
                 ....*....|....*....|...
gi 194306567 286 DIEYRLSVGTNEKIQLSSLIAAF 308
Cdd:PRK04132 819 EYNFRLVEGANEMIQLEALLAQF 841
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
16-309 4.55e-58

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 188.65  E-value: 4.55e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  16 HQDILSTIQKFINEDRLPH-LLLYGPPGTGKTSTILACAKQLYKDKEFGSM-----------------VLELNA---SDD 74
Cdd:COG0470    1 QEEAWEQLLAAAESGRLPHaLLLHGPPGIGKTTLALALARDLLCENPEGGKacgqchsrlmaagnhpdLLELNPeekSDQ 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  75 RGIDIIRGpILSFASTRTIFKkGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFG 154
Cdd:COG0470   81 IGIDQIRE-LGEFLSLTPLEG-GRKVVIIDEADAMNEAAANALLKTLEEPPKNTPFILIANDPSRLLPTIRSRCQVIRFR 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 155 PLTPELMVPRLehvvEEEKVDisEDGMKALVTLSSGDMRRALNILQStnMAFGKVTEETVYTCTGHP---------LKSD 225
Cdd:COG0470  159 PPSEEEALAWL----REEGVD--EDALEAILRLAGGDPRAAINLLQA--LAGRKELLEDLAALLSRDralelldalLKAE 230
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 226 IANILDWMLNQdfttayrnitelktlkglaLHDILteihlfvhRVDFPSSVRIHLLTKMADIEYRLSVGTNEKIQLSSLI 305
Cdd:COG0470  231 ALELLDWLLKW-------------------LLDNL--------PLEYAGEDLARAYEALSEADRRLGRYANDRLLLEALL 283

                 ....
gi 194306567 306 AAFQ 309
Cdd:COG0470  284 AKLG 287
44 PHA02544
clamp loader, small subunit; Provisional
2-240 2.27e-47

clamp loader, small subunit; Provisional


Pssm-ID: 222866 [Multi-domain]  Cd Length: 316  Bit Score: 161.70  E-value: 2.27e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   2 VEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLYGP-PGTGKTSTILA-CAkqlykdkEFGSMVLELNASDDRgIDI 79
Cdd:PHA02544  12 EQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPsPGTGKTTVAKAlCN-------EVGAEVLFVNGSDCR-IDF 83
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  80 IRGPILSFASTRTiFKKGFKLVILDEAD-AMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTP 158
Cdd:PHA02544  84 VRNRLTRFASTVS-LTGGGKVIIIDEFDrLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTK 162
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 159 E-------LMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQStNMAFGKVTEETVYTCTGhplkSDIANILD 231
Cdd:PHA02544 163 EeqiemmkQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQR-YASTGKIDAGILSEVTN----SDIDDVVE 237

                 ....*....
gi 194306567 232 WMLNQDFTT 240
Cdd:PHA02544 238 ALKAKDFKA 246
PRK04195 PRK04195
replication factor C large subunit; Provisional
2-231 4.67e-41

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 148.92  E-value: 4.67e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   2 VEKYRPQTLNDLISHQDILSTIQKFINE--DRLPH--LLLYGPPGTGKTSTILACAKqlykdkEFGSMVLELNASDDRGI 77
Cdd:PRK04195   5 VEKYRPKTLSDVVGNEKAKEQLREWIESwlKGKPKkaLLLYGPPGVGKTSLAHALAN------DYGWEVIELNASDQRTA 78
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  78 DIIRGPILSFASTRTIFKKGFKLVILDEADAM--TQDAQNAlrRVIEKFTENTRFCLIC---NYLSKIIPALQSRCTRFR 152
Cdd:PRK04195  79 DVIERVAGEAATSGSLFGARRKLILLDEVDGIhgNEDRGGA--RAILELIKKAKQPIILtanDPYDPSLRELRNACLMIE 156
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 194306567 153 FGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILD 231
Cdd:PRK04195 157 FKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGRRDREESIFDALD 235
PRK14953 PRK14953
DNA polymerase III subunits gamma and tau; Provisional
4-276 3.43e-34

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237867 [Multi-domain]  Cd Length: 486  Bit Score: 130.33  E-value: 3.43e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTST--ILA----------------CAKQLYKDK-EFG 63
Cdd:PRK14953   9 KYRPKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFaGPRGTGKTTIarILAkvlnclnpqegepcgkCENCVEIDKgSFP 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  64 SMVlELNASDDRGIDIIRGpiLSFASTRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPA 143
Cdd:PRK14953  89 DLI-EIDAASNRGIDDIRA--LRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPT 165
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 144 LQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTGHPL 222
Cdd:PRK14953 166 ILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLdQASTYGEGKVTIKVVEEFLGIVS 245
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 223 KSDIANILDWMLNQDFTTAYRNITELKTlKGLALH----DILTEIH--LFVHRVDFPSSV 276
Cdd:PRK14953 246 QESVRKFLNLLLESDVDEAIKFLRTLEE-KGYNLNkfwkQLEEEIRniLLNKSLKNPEEV 304
DnaX COG2812
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];
7-305 3.35e-32

DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];


Pssm-ID: 442061 [Multi-domain]  Cd Length: 340  Bit Score: 122.22  E-value: 3.35e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   7 PQTLNDLISHQDILSTIQKFINEDRLPH-LLLYGPPGTGKTST--ILA----CAKQLYKD-----------KEFGSM-VL 67
Cdd:COG2812    6 PQTFDDVVGQEHVVRTLKNALASGRLAHaYLFTGPRGVGKTTLarILAkalnCENGPTGEpcgecescraiAAGSHPdVI 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  68 EL--NASDdRGIDIIRGPI--LSFASTRTifkkGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPA 143
Cdd:COG2812   86 EIdaEASN-IGVDDIRELIekVSYAPVEG----RYKVYIIDEAHMLTTEAFNALLKTLEEPPPHVVFILATTEPQKLLPT 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 144 LQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQStNMAFGKV-TEETVYTCTGHPL 222
Cdd:COG2812  161 ILSRCQRFDFRRLPPEEIAEHLAKIAEREGIEIEPEALALIARAADGSMRDALSLLDQ-AIAFGLLdRRELLLDLLEALL 239
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 223 KSDIANILDW------------MLNQDFTTAYRNITELKTLKGLALH---DILTEIHLFVHRVDFPSSVRIhlLTKMADI 287
Cdd:COG2812  240 AGDVAALLALaeelakrgrdlkRFLDDLLSLLRDLLLLKLGPDAELLvneDERERLQELARRLSPERLLRA--IQILLEA 317
                        330
                 ....*....|....*...
gi 194306567 288 EYRLSVGTNEKIQLSSLI 305
Cdd:COG2812  318 RRELERNVNPRLALEMLL 335
Rep_fac_C pfam08542
Replication factor C C-terminal domain; This is the C-terminal domain of RFC (replication ...
221-307 1.35e-30

Replication factor C C-terminal domain; This is the C-terminal domain of RFC (replication factor-C) protein of the clamp loader complex which binds to the DNA sliding clamp (proliferating cell nuclear antigen, PCNA). The five modules of RFC assemble into a right-handed spiral, which results in only three of the five RFC subunits (RFC-A, RFC-B and RFC-C) making contact with PCNA, leaving a wedge-shaped gap between RFC-E and the PCNA clamp-loader complex. The C-terminal is vital for the correct orientation of RFC-E with respect to RFC-A.


Pssm-ID: 462513 [Multi-domain]  Cd Length: 87  Bit Score: 110.64  E-value: 1.35e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  221 PLKSDIANILDWMLNQDFTTAYRNITELKTLKGLALHDILTEIHLFVHRVDFPSSVRIHLLTKMADIEYRLSVGTNEKIQ 300
Cdd:pfam08542   1 PHPEDIEEILNSCLNGDFDEAYKKVRELLVEKGYSLQDIITQLHRVVKSLDLPEEVKLELLEKLGEIEYRLSEGASEKLQ 80

                  ....*..
gi 194306567  301 LSSLIAA 307
Cdd:pfam08542  81 LSALLAA 87
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
3-220 5.92e-30

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 117.49  E-value: 5.92e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   3 EKYRPQTLNDLISHQDIL---STIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQLykDKEFgsmvLELNASDDrGIDI 79
Cdd:PRK13342   4 ERMRPKTLDEVVGQEHLLgpgKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT--DAPF----EALSAVTS-GVKD 76
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  80 IRGpILSFASTRTIFKKGFkLVILDEADAMTQDAQNALRRVIEKF--------TENTRFclicnylsKIIPALQSRCTRF 151
Cdd:PRK13342  77 LRE-VIEEARQRRSAGRRT-ILFIDEIHRFNKAQQDALLPHVEDGtitligatTENPSF--------EVNPALLSRAQVF 146
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 194306567 152 RFGPLTPELMVPRLEHVVEEEK---VDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGH 220
Cdd:PRK13342 147 ELKPLSEEDIEQLLKRALEDKErglVELDDEALDALARLANGDARRALNLLELAALGVDSITLELLEEALQK 218
PRK07133 PRK07133
DNA polymerase III subunits gamma and tau; Validated
4-249 4.48e-27

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 235943 [Multi-domain]  Cd Length: 725  Bit Score: 111.45  E-value: 4.48e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTST--ILACA------KQLYK---------DKEFGsm 65
Cdd:PRK07133  11 KYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFsGPRGTGKTSVakIFANAlncshkTDLLEpcqecienvNNSLD-- 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 VLELNASDDRGIDIIRGPILSFASTRTIFKkgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQ 145
Cdd:PRK07133  89 IIEMDAASNNGVDEIRELIENVKNLPTQSK--YKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTIL 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 146 SRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTGHPLKS 224
Cdd:PRK07133 167 SRVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAeQVSIFGNNKITLKNVEELFGLVSNE 246
                        250       260
                 ....*....|....*....|....*
gi 194306567 225 DIANILDWMLNQDFTTAYRNITELK 249
Cdd:PRK07133 247 NLINLLNLLYSKDIKEVLNILNQIK 271
PRK14950 PRK14950
DNA polymerase III subunits gamma and tau; Provisional
4-245 1.20e-26

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237864 [Multi-domain]  Cd Length: 585  Bit Score: 109.90  E-value: 1.20e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTST--ILA----CAKQLYKDKEFG--SM--------- 65
Cdd:PRK14950   9 KWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFtGPRGVGKTSTarILAkavnCTTNDPKGRPCGtcEMcraiaegsa 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 --VLELNASDDRGIDIIRGPILSFASTRTIFKKgfKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPA 143
Cdd:PRK14950  89 vdVIEMDAASHTSVDDAREIIERVQFRPALARY--KVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPAT 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 144 LQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTnMAF--GKVTEETVYTCTGHP 221
Cdd:PRK14950 167 ILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQL-ATTygGEISLSQVQSLLGIS 245
                        250       260
                 ....*....|....*....|....
gi 194306567 222 LKSDIANILDWMLNQDFTTAYRNI 245
Cdd:PRK14950 246 GDEEVKALAEALLAKDLKAALRTL 269
PRK14962 PRK14962
DNA polymerase III subunits gamma and tau; Provisional
4-219 5.12e-26

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237869 [Multi-domain]  Cd Length: 472  Bit Score: 107.16  E-value: 5.12e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLYKDKEFGSM----------------- 65
Cdd:PRK14962   7 KYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFaGPRGTGKTTVARILAKSLNCENRKGVEpcnecracrsidegtfm 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 -VLELNASDDRGIDIIRgPILSFASTRTIFKKgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPAL 144
Cdd:PRK14962  87 dVIELDAASNRGIDEIR-KIRDAVGYRPMEGK-YKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTI 164
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 194306567 145 QSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTG 219
Cdd:PRK14962 165 ISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLeQVWKFSEGKITLETVHEALG 240
PRK08691 PRK08691
DNA polymerase III subunits gamma and tau; Validated
1-317 6.34e-25

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236333 [Multi-domain]  Cd Length: 709  Bit Score: 105.18  E-value: 6.34e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   1 MVEKYRPQTLNDLISHQDILSTIQKFINEDRLPH-LLLYGPPGTGKTSTILACAKQLYKDK----------------EFG 63
Cdd:PRK08691   6 LARKWRPKTFADLVGQEHVVKALQNALDEGRLHHaYLLTGTRGVGKTTIARILAKSLNCENaqhgepcgvcqsctqiDAG 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  64 SMV--LELNASDDRGIDIIRgPILSFASTRTIFKKgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKII 141
Cdd:PRK08691  86 RYVdlLEIDAASNTGIDNIR-EVLENAQYAPTAGK-YKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVP 163
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 142 PALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTGH 220
Cdd:PRK08691 164 VTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLdQAIALGSGKVAENDVRQMIGA 243
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 221 PLKSDIANILDWMLNQDFTTAYRNITELKTlKGLALHDILTEIHLFVHRVDFPSSVRIHLLTK--MADIEYRLSVG-TNE 297
Cdd:PRK08691 244 VDKQYLYELLTGIINQDGAALLAKAQEMAA-CAVGFDNALGELAILLQQLALIQAVPSALAHDdpDSDILHRLAQTiSGE 322
                        330       340
                 ....*....|....*....|
gi 194306567 298 KIQLSSLIAAfQVTRDLIVA 317
Cdd:PRK08691 323 QIQLYYQIAV-HGKRDLSLA 341
PRK05563 PRK05563
DNA polymerase III subunits gamma and tau; Validated
4-248 1.33e-22

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 235505 [Multi-domain]  Cd Length: 559  Bit Score: 98.02  E-value: 1.33e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTST--ILA----CAKQlyKDKEF------------GS 64
Cdd:PRK05563   9 KWRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFsGPRGTGKTSAakIFAkavnCLNP--PDGEPcneceickaitnGS 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  65 M--VLELNASDDRGIDIIRgPILS---FASTRTIFKkgfklV-ILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLS 138
Cdd:PRK05563  87 LmdVIEIDAASNNGVDEIR-DIRDkvkYAPSEAKYK-----VyIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPH 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 139 KIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTC 217
Cdd:PRK05563 161 KIPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILdQAISFGDGKVTYEDALEV 240
                        250       260       270
                 ....*....|....*....|....*....|.
gi 194306567 218 TGHPLKSDIANILDWMLNQDFTTAYRNITEL 248
Cdd:PRK05563 241 TGSVSQEALDDLVDAIVEGDVAKALKILEEL 271
PRK05896 PRK05896
DNA polymerase III subunits gamma and tau; Validated
3-263 1.52e-22

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 235638 [Multi-domain]  Cd Length: 605  Bit Score: 97.99  E-value: 1.52e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   3 EKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQL----YKD--------------KEFG 63
Cdd:PRK05896   8 RKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFsGPRGIGKTSIAKIFAKAInclnPKDgdccnscsvcesinTNQS 87
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  64 SMVLELNASDDRGIDIIRGPILSFASTRTIFKKgfKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPA 143
Cdd:PRK05896  88 VDIVELDAASNNGVDEIRNIIDNINYLPTTFKY--KVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLT 165
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 144 LQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTGHPL 222
Cdd:PRK05896 166 IISRCQRYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILdQLSTFKNSEIDIEDINKTFGLVD 245
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|.
gi 194306567 223 KSDIANILDWMLNQDFTTAYRNITELKTlKGLALHDILTEI 263
Cdd:PRK05896 246 NNKKINLIELIQKNDIEELRNLINELES-KGINFEAFCRDL 285
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
6-199 2.51e-22

Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 96.66  E-value: 2.51e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   6 RPQTLNDLISHQDIL---STIQKFINEDRLPHLLLYGPPGTGKTStiLA--CAKQLykDKEFgsmvLELNASDDrGIDII 80
Cdd:COG2256   20 RPRTLDEVVGQEHLLgpgKPLRRAIEAGRLSSMILWGPPGTGKTT--LArlIANAT--DAEF----VALSAVTS-GVKDI 90
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  81 RGpILSFASTRTIFKKGFkLVILDEADAMTQDAQNALRRVIEK----F----TENTRFclicnylsKIIPALQSRCTRFR 152
Cdd:COG2256   91 RE-VIEEARERRAYGRRT-ILFVDEIHRFNKAQQDALLPHVEDgtitLigatTENPSF--------EVNSALLSRCRVFV 160
                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 194306567 153 FGPLTPELMVPRLEHVVEEE-------KVDISEDGMKALVTLSSGDMRRALNIL 199
Cdd:COG2256  161 LKPLSEEDLEQLLERALADDerglggyKLELDDEALEALARLADGDARRALNAL 214
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
14-155 6.35e-22

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 89.90  E-value: 6.35e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  14 ISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQLykdKEFGSMVLELNASDDRGIDIIRGPILSFASTRTI 93
Cdd:cd00009    1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANEL---FRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLF 77
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 194306567  94 FKK---GFKLVILDEADAMTQDAQNALRRVIEKF------TENTRFCLICNY--LSKIIPALQSRC-TRFRFGP 155
Cdd:cd00009   78 ELAekaKPGVLFIDEIDSLSRGAQNALLRVLETLndlridRENVRVIGATNRplLGDLDRALYDRLdIRIVIPL 151
PRK14965 PRK14965
DNA polymerase III subunits gamma and tau; Provisional
4-219 1.57e-21

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237871 [Multi-domain]  Cd Length: 576  Bit Score: 94.81  E-value: 1.57e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLykDKEFGSM----------------- 65
Cdd:PRK14965   9 KYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFtGARGVGKTSTARILAKAL--NCEQGLTaepcnvcppcveitegr 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 ---VLELNASDDRGIDIIRGpiLSFASTRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIP 142
Cdd:PRK14965  87 svdVFEIDGASNTGVDDIRE--LRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPI 164
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 194306567 143 ALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGK-VTEETVYTCTG 219
Cdd:PRK14965 165 TILSRCQRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAFCGDaVGDDDVAELLG 242
holB TIGR00678
DNA polymerase III, delta' subunit; This model describes the N-terminal half of the delta' ...
23-167 5.42e-21

DNA polymerase III, delta' subunit; This model describes the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tighly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classisified as delta'. The noise cutoff is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273213 [Multi-domain]  Cd Length: 188  Bit Score: 88.45  E-value: 5.42e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   23 IQKFINEDRLPH-LLLYGPPGTGKTSTILACAKQLYKDKEFGS--------------------MVLELNAsDDRGIDIIR 81
Cdd:TIGR00678   4 LKRALEKGRLAHaYLFTGPEGVGKELLALALAKALLCEQRGGGepcgechscrlieagnhpdlHRLEPEG-QSIKVDQVR 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   82 GpILSFASTRTIfKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELM 161
Cdd:TIGR00678  83 E-LVEFLSRTPQ-ESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQRLPFPPLSEEAL 160

                  ....*.
gi 194306567  162 VPRLEH 167
Cdd:TIGR00678 161 LQWLIR 166
PRK14961 PRK14961
DNA polymerase III subunits gamma and tau; Provisional
1-270 6.11e-21

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184925 [Multi-domain]  Cd Length: 363  Bit Score: 91.80  E-value: 6.11e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   1 MVEKYRPQTLNDLISHQDILSTIQKFINEDRLPHL-LLYGPPGTGKTSTILACAKQLY----------------KDKEFG 63
Cdd:PRK14961   6 LARKWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAwLLSGTRGVGKTTIARLLAKSLNcqngitsnpcrkciicKEIEKG 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  64 SM--VLELNASDDRGIDIIRGPILSFASTRTifKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKII 141
Cdd:PRK14961  86 LCldLIEIDAASRTKVEEMREILDNIYYSPS--KSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIP 163
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 142 PALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTGH 220
Cdd:PRK14961 164 KTILSRCLQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLeHAINLGKGNINIKNVTDMLGL 243
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 194306567 221 PLKSDIANILDWMLNQDFTTAYRNITELKTLkGLALHDILTEIHLFVHRV 270
Cdd:PRK14961 244 LNEKQSFLLTDALLKKDSKKTMLLLNKISSI-GIEWENILIEMLRFLHHI 292
HLD_clamp_RFC cd18140
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein ...
156-218 2.03e-20

helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein clamp loader complex that forms a stable ATP-dependent complex with the sliding clamp, PCNA, which binds specifically to primed DNA. RFC subunits belong to the clamp loader clade of the AAA+ superfamily.


Pssm-ID: 350842 [Multi-domain]  Cd Length: 63  Bit Score: 82.96  E-value: 2.03e-20
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 194306567 156 LTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCT 218
Cdd:cd18140    1 LSKEQIVKRLREICKKEGVKIDEEALEAIAEKSEGDMRKAINDLQAAAAGGGVITEEDVYEVA 63
PRK14964 PRK14964
DNA polymerase III subunits gamma and tau; Provisional
4-241 5.74e-20

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237870 [Multi-domain]  Cd Length: 491  Bit Score: 89.84  E-value: 5.74e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLIShQDILSTI-QKFINEDRLPH-LLLYGPPGTGKTST------ILACAKQLYKD-----------KEFGS 64
Cdd:PRK14964   6 KYRPSSFKDLVG-QDVLVRIlRNAFTLNKIPQsILLVGASGVGKTTCariislCLNCSNGPTSDpcgtchncisiKNSNH 84
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  65 M-VLELNASDDRGIDIIRgPILSFASTRTIFKKgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPA 143
Cdd:PRK14964  85 PdVIEIDAASNTSVDDIK-VILENSCYLPISSK-FKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVT 162
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 144 LQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTGHPL 222
Cdd:PRK14964 163 IISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLeQAAIYSNNKISEKSVRDLLGCVD 242
                        250
                 ....*....|....*....
gi 194306567 223 KSDIANILDWMLNQDFTTA 241
Cdd:PRK14964 243 KHILEDLVEAILLGDAQSA 261
PRK14970 PRK14970
DNA polymerase III subunits gamma and tau; Provisional
4-230 6.91e-20

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184934 [Multi-domain]  Cd Length: 367  Bit Score: 88.78  E-value: 6.91e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQL----YKDKE--FGSMVLELNASDDRG 76
Cdd:PRK14970  10 KYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFcGPRGVGKTTCARILARKInqpgYDDPNedFSFNIFELDAASNNS 89
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  77 IDIIRGPIlsfASTRTIFKKG-FKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGP 155
Cdd:PRK14970  90 VDDIRNLI---DQVRIPPQTGkYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKR 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 156 LTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQ------STNMAFGKVTE-------ETVYTCTGHPL 222
Cdd:PRK14970 167 ITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDrvvtfcGKNITRQAVTEnlnildyDTYINVTDLIL 246

                 ....*...
gi 194306567 223 KSDIANIL 230
Cdd:PRK14970 247 ENKIPELL 254
PRK14963 PRK14963
DNA polymerase III subunits gamma and tau; Provisional
3-221 6.02e-19

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184927 [Multi-domain]  Cd Length: 504  Bit Score: 87.20  E-value: 6.02e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   3 EKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTST--ILA----CAKQLykDKEFGSM---------- 65
Cdd:PRK14963   6 QRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFsGPRGVGKTTTarLIAmavnCSGED--PKPCGECesclavrrga 83
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 ---VLELNASDDRGIDIIRG--PILSFASTRTifkkGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKI 140
Cdd:PRK14963  84 hpdVLEIDAASNNSVEDVRDlrEKVLLAPLRG----GRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKM 159
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 141 IPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGH 220
Cdd:PRK14963 160 PPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLALGTPVTRKQVEEALGL 239

                 .
gi 194306567 221 P 221
Cdd:PRK14963 240 P 240
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
35-156 1.28e-18

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 80.33  E-value: 1.28e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   35 LLLYGPPGTGKTSTILACAkqlykdKEFGSMVLELNASDDRGIDIIRGPilsfASTRTIFKKGFKL----VILDEADAM- 109
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVA------KELGAPFIEISGSELVSKYVGESE----KRLRELFEAAKKLapcvIFIDEIDALa 70
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  110 ----------TQDAQNALRRVIEKFT---ENTRFCLICNYLSKIIPALQSRCTRFRFGPL 156
Cdd:pfam00004  71 gsrgsggdseSRRVVNQLLTELDGFTssnSKVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
PRK13341 PRK13341
AAA family ATPase;
3-200 4.53e-18

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 84.72  E-value: 4.53e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   3 EKYRPQTLNDLISHQDILST---IQKFINEDRLPHLLLYGPPGTGKTStiLACAKQLYKDKEFGSM------VLELNASD 73
Cdd:PRK13341  20 DRLRPRTLEEFVGQDHILGEgrlLRRAIKADRVGSLILYGPPGVGKTT--LARIIANHTRAHFSSLnavlagVKDLRAEV 97
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  74 DRGIDiirgpILSFASTRTIfkkgfklVILDEADAMTQDAQNALRRVIEK--------FTENTRFclicnylsKIIPALQ 145
Cdd:PRK13341  98 DRAKE-----RLERHGKRTI-------LFIDEVHRFNKAQQDALLPWVENgtitligaTTENPYF--------EVNKALV 157
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 194306567 146 SRCTRFRFGPLTPELMVPRLEHVVEEE-------KVDISEDGMKALVTLSSGDMRRALNILQ 200
Cdd:PRK13341 158 SRSRLFRLKSLSDEDLHQLLKRALQDKergygdrKVDLEPEAEKHLVDVANGDARSLLNALE 219
PRK06305 PRK06305
DNA polymerase III subunits gamma and tau; Validated
4-216 2.45e-16

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 180523 [Multi-domain]  Cd Length: 451  Bit Score: 79.05  E-value: 2.45e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLY-----------------KDKEFGSM 65
Cdd:PRK06305  10 KYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFsGIRGTGKTTLARIFAKALNcqnptedqepcnqcascKEISSGTS 89
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 --VLELNASDDRGIDIIR--GPILSFASTrtifKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKII 141
Cdd:PRK06305  90 ldVLEIDGASHRGIEDIRqiNETVLFTPS----KSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIP 165
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 142 PALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-------------QSTNMAFGK 208
Cdd:PRK06305 166 GTILSRCQKMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLYdyvvglfpksldpDSVAKALGL 245

                 ....*...
gi 194306567 209 VTEETVYT 216
Cdd:PRK06305 246 LSQDSLYT 253
PRK14969 PRK14969
DNA polymerase III subunits gamma and tau; Provisional
4-237 7.80e-16

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237873 [Multi-domain]  Cd Length: 527  Bit Score: 77.87  E-value: 7.80e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKT--STILA----------------CAKQLYKDKefGS 64
Cdd:PRK14969   9 KWRPKSFSELVGQEHVVRALTNALEQQRLHHAYLFtGTRGVGKTtlARILAkslncetgvtatpcgvCSACLEIDS--GR 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  65 MV--LELNASDDRGIDIIRgPILS---FASTRTifkkGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSK 139
Cdd:PRK14969  87 FVdlIEVDAASNTQVDAMR-ELLDnaqYAPTRG----RFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQK 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 140 IIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTnMAFG--KVTEETVYTC 217
Cdd:PRK14969 162 IPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLLDQA-IAYGggTVNESEVRAM 240
                        250       260
                 ....*....|....*....|
gi 194306567 218 TGHPLKSDIANILDWMLNQD 237
Cdd:PRK14969 241 LGAIDQDYLFALLEALLAQD 260
PRK07471 PRK07471
DNA polymerase III subunit delta'; Validated
30-199 1.76e-15

DNA polymerase III subunit delta'; Validated


Pssm-ID: 236022 [Multi-domain]  Cd Length: 365  Bit Score: 76.22  E-value: 1.76e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  30 DRLPH-LLLYGPPGTGKTST-------ILA-----------------------CAKQLYKDKEFGSMVLELNASDDRG-- 76
Cdd:PRK07471  38 GRLHHaWLIGGPQGIGKATLayrmarfLLAtpppggdgavppptslaidpdhpVARRIAAGAHGGLLTLERSWNEKGKrl 117
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  77 -----IDIIRGPILSFASTRTIfkKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRF 151
Cdd:PRK07471 118 rtvitVDEVRELISFFGLTAAE--GGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKL 195
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 194306567 152 RFGPLTPELMVPRLehvvEEEKVDISEDGMKALVTLSSGDMRRALNIL 199
Cdd:PRK07471 196 RLRPLAPEDVIDAL----AAAGPDLPDDPRAALAALAEGSVGRALRLA 239
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
4-214 3.50e-15

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 76.07  E-value: 3.50e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKT--STILACAKQLYKDKEFGSMV-------------- 66
Cdd:PRK12323   9 KWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFtGTRGVGKTtlSRILAKSLNCTGADGEGGITaqpcgqcracteid 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  67 -------LELNASDDRGIDIIrGPILSfastRTIFKKG---FKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNY 136
Cdd:PRK12323  89 agrfvdyIEMDAASNRGVDEM-AQLLD----KAVYAPTagrFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTD 163
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 194306567 137 LSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETV 214
Cdd:PRK12323 164 PQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALSLTdQAIAYSAGNVSEEAV 242
PRK14952 PRK14952
DNA polymerase III subunits gamma/tau;
4-199 4.73e-15

DNA polymerase III subunits gamma/tau;


Pssm-ID: 237866 [Multi-domain]  Cd Length: 584  Bit Score: 75.69  E-value: 4.73e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTST--ILA----CAK--------------QLYKDKEf 62
Cdd:PRK14952   6 KYRPATFAEVVGQEHVTEPLSSALDAGRINHAYLFsGPRGCGKTSSarILArslnCAQgptatpcgvcescvALAPNGP- 84
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  63 GSM-VLELNASDDRGIDIIRG----PILSFASTRtifkkgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYL 137
Cdd:PRK14952  85 GSIdVVELDAASHGGVDDTRElrdrAFYAPAQSR------YRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEP 158
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 194306567 138 SKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDIsEDGMKALVTLS-SGDMRRALNIL 199
Cdd:PRK14952 159 EKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVV-DDAVYPLVIRAgGGSPRDTLSVL 220
PRK08451 PRK08451
DNA polymerase III subunits gamma and tau; Validated
4-248 5.54e-15

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236267 [Multi-domain]  Cd Length: 535  Bit Score: 75.46  E-value: 5.54e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLYKDKEFGSM----------------- 65
Cdd:PRK08451   7 KYRPKHFDELIGQESVSKTLSLALDNNRLAHAYLFsGLRGSGKTSSARIFARALVCEQGPSSTpcdtciqcqsalenrhi 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 -VLELNASDDRGIDIIRGPI------LSFAStrtifkkgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLS 138
Cdd:PRK08451  87 dIIEMDAASNRGIDDIRELIeqtkykPSMAR--------FKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPL 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 139 KIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTC 217
Cdd:PRK08451 159 KLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLLdQAIIYCKNAITESKVADM 238
                        250       260       270
                 ....*....|....*....|....*....|.
gi 194306567 218 TGHPLKSDIANILDWMLNQDFTTAYRNITEL 248
Cdd:PRK08451 239 LGLLDPSKLEDFFQAILNQDKEKLFELLKEL 269
PRK09112 PRK09112
DNA polymerase III subunit delta'; Validated
7-200 8.20e-15

DNA polymerase III subunit delta'; Validated


Pssm-ID: 169667 [Multi-domain]  Cd Length: 351  Bit Score: 73.92  E-value: 8.20e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   7 PQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTS-------TIL-----ACAKQLYKDKEFGSMVLELNAS- 72
Cdd:PRK09112  19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFeGPEGIGKATlafhlanHILshpdpAEAPETLADPDPASPVWRQIAQg 98
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  73 ------------DDRG--------IDIIRGpILSFAStRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCL 132
Cdd:PRK09112  99 ahpnllhitrpfDEKTgkfktaitVDEIRR-VGHFLS-QTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFIL 176
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 194306567 133 ICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVveEEKVDISEDGMKALVTLSSGDMRRALNILQ 200
Cdd:PRK09112 177 ISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHL--GSSQGSDGEITEALLQRSKGSVRKALLLLN 242
PRK05564 PRK05564
DNA polymerase III subunit delta'; Validated
12-190 9.59e-15

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180132 [Multi-domain]  Cd Length: 313  Bit Score: 73.53  E-value: 9.59e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  12 DLISHQDILSTIQKFINEDRLPHL-LLYGPPGTGKTstILAcakqlykdKEFGSMVLELNaSDDRGIDIIRGPILSFAS- 89
Cdd:PRK05564   5 TIIGHENIKNRIKNSIIKNRFSHAhIIVGEDGIGKS--LLA--------KEIALKILGKS-QQREYVDIIEFKPINKKSi 73
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  90 ----TRTIF----KKGF----KLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLT 157
Cdd:PRK05564  74 gvddIRNIIeevnKKPYegdkKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLS 153
                        170       180       190
                 ....*....|....*....|....*....|...
gi 194306567 158 PELMvprlEHVVEEEKVDISEDGMKALVTLSSG 190
Cdd:PRK05564 154 KEEI----EKFISYKYNDIKEEEKKSAIAFSDG 182
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
4-270 1.37e-14

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 74.37  E-value: 1.37e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKT--STILA---------------------CakQLYKD 59
Cdd:PRK14951   9 KYRPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFtGTRGVGKTtvSRILAkslncqgpdgqggitatpcgvC--QACRD 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  60 KEFGSMV--LELNASDDRGIDIIRGpILSFAstrtIFK--KG-FKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLIC 134
Cdd:PRK14951  87 IDSGRFVdyTELDAASNRGVDEVQQ-LLEQA----VYKpvQGrFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLAT 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 135 NYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEET 213
Cdd:PRK14951 162 TDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDALSLTdQAIAFGSGQLQEAA 241
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 194306567 214 VYTCTGHPLKSDIANILDWMLNQDFTTAYRNITELKTlKGLALHDILTEIHLFVHRV 270
Cdd:PRK14951 242 VRQMLGSVDRSHVFRLIDALAQGDGRTVVETADELRL-NGLSAASTLEEMAAVLQRM 297
PRK14971 PRK14971
DNA polymerase III subunit gamma/tau;
4-232 1.63e-13

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237874 [Multi-domain]  Cd Length: 614  Bit Score: 70.96  E-value: 1.63e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTStilaCAKQLYK---------DKE----------FG 63
Cdd:PRK14971  10 KYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFcGPRGVGKTT----CARIFAKtincqnltaDGEacnecescvaFN 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  64 ---SM-VLELNASDDRGIDIIRGPILSFASTRTIFKkgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSK 139
Cdd:PRK14971  86 eqrSYnIHELDAASNNSVDDIRNLIEQVRIPPQIGK--YKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHK 163
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 140 IIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYtct 218
Cdd:PRK14971 164 ILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFdQVVSFTGGNITYKSVI--- 240
                        250
                 ....*....|....
gi 194306567 219 ghplksDIANILDW 232
Cdd:PRK14971 241 ------ENLNILDY 248
PRK06647 PRK06647
DNA polymerase III subunits gamma and tau; Validated
4-195 6.92e-13

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 235845 [Multi-domain]  Cd Length: 563  Bit Score: 69.03  E-value: 6.92e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLY----------------KDKEFGSM- 65
Cdd:PRK06647   9 KRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFsGPRGVGKTSSARAFARCLNcvngptpmpcgecsscKSIDNDNSl 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 -VLELNASDDRGI-DI--IRGPILsF--ASTRtifkkgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSK 139
Cdd:PRK06647  89 dVIEIDGASNTSVqDVrqIKEEIM-FppASSR------YRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHK 161
                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 194306567 140 IIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRA 195
Cdd:PRK06647 162 LPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDA 217
PRK14959 PRK14959
DNA polymerase III subunits gamma and tau; Provisional
1-199 7.49e-13

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184923 [Multi-domain]  Cd Length: 624  Bit Score: 68.94  E-value: 7.49e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   1 MVEKYRPQTLNDLISHQDILSTIQKFINEDRL-PHLLLYGPPGTGKTST--ILA----CAK-----------QLYKDKEF 62
Cdd:PRK14959   6 LTARYRPQTFAEVAGQETVKAILSRAAQENRVaPAYLFSGTRGVGKTTIarIFAkalnCETaptgepcntceQCRKVTQG 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  63 GSM-VLELNASDDRGIDIIRGpiLSFASTRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKII 141
Cdd:PRK14959  86 MHVdVVEIDGASNRGIDDAKR--LKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFP 163
                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 194306567 142 PALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL 199
Cdd:PRK14959 164 VTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLL 221
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
2-200 1.04e-12

checkpoint protein rad24; All proteins in this family for which functions are known are involved in DNA damage tolerance (likely cell cycle checkpoints).This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129690 [Multi-domain]  Cd Length: 637  Bit Score: 68.44  E-value: 1.04e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567    2 VEKYRPQTLNDLISHQDILSTIQKFINEDRLPH-----LLLYGPPGTGKTSTILACAKQL-YKDKEFGSMVLELNASDDR 75
Cdd:TIGR00602  75 VEKYKPETQHELAVHKKKIEEVETWLKAQVLENapkriLLITGPSGCGKSTTIKILSKELgIQVQEWSNPTLPDFQKNDH 154
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   76 GIDIIRG-------------PILSFASTRTIFKKG------FKLVILDEADAMTQDAQNALRRVIE-KFTENTRFCLIC- 134
Cdd:TIGR00602 155 KVTLSLEscfsnfqsqievfSEFLLRATNKLQMLGddlmtdKKIILVEDLPNQFYRDTRALHEILRwKYVSIGRCPLVFi 234
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  135 ---------NYLSKIIPALQS---------RCTRFRFGPLTPELMVPRLEHVVEEEKVDISED---GMKALVTL----SS 189
Cdd:TIGR00602 235 iteslegdnNQRRLLFPAETImnkeileepRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKikvPKKTSVELlcqgCS 314
                         250
                  ....*....|.
gi 194306567  190 GDMRRALNILQ 200
Cdd:TIGR00602 315 GDIRSAINSLQ 325
PRK05707 PRK05707
DNA polymerase III subunit delta'; Validated
24-273 1.05e-12

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180215 [Multi-domain]  Cd Length: 328  Bit Score: 67.81  E-value: 1.05e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  24 QKFINEDRLPH-LLLYGPPGTGKTS-------TIL--------ACAK----QLYKDkefGS----MVLE-LNASDDRGID 78
Cdd:PRK05707  13 QQLAGRGRHPHaYLLHGPAGIGKRAlaerlaaALLceapqgggACGSckgcQLLRA---GShpdnFVLEpEEADKTIKVD 89
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  79 IIRgPILSFAsTRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTP 158
Cdd:PRK05707  90 QVR-ELVSFV-VQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSN 167
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 159 ELMVPRLEHVVEEEkvdiSEDGMKALVTLSSGDMRRALNiLQSTNMAF---------GKVTE------ETVYTCTGHPLK 223
Cdd:PRK05707 168 EESLQWLQQALPES----DERERIELLTLAGGSPLRALQ-LHEQGVREqrarvldgvKKLLKqqqsasQLAESWLKVPLL 242
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|...
gi 194306567 224 SDIANILDW---MLNQDFTTAYRnitelktlkGLALHDILTEIHLFVHRVDFP 273
Cdd:PRK05707 243 LLFDWFCDWahdILRYQLTQDEE---------GLGLADMRKVLQYLAQKSPQA 286
PRK14960 PRK14960
DNA polymerase III subunit gamma/tau;
1-208 1.23e-12

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237868 [Multi-domain]  Cd Length: 702  Bit Score: 68.54  E-value: 1.23e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   1 MVEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLYKDKEFGSMVLELNAS-----DD 74
Cdd:PRK14960   5 LARKYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFtGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATckavnEG 84
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  75 RGIDIIRGPILS---FASTRTIF--------KKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPA 143
Cdd:PRK14960  85 RFIDLIEIDAASrtkVEDTRELLdnvpyaptQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPIT 164
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 194306567 144 LQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNiLQSTNMAFGK 208
Cdd:PRK14960 165 VISRCLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALS-LTDQAIAYGQ 228
PRK14956 PRK14956
DNA polymerase III subunits gamma and tau; Provisional
4-200 1.40e-12

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184920 [Multi-domain]  Cd Length: 484  Bit Score: 68.05  E-value: 1.40e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLIsHQDI-LSTIQKFINEDRLPH-LLLYGPPGTGKTST--ILA----------------CAKQLYKDKEFG 63
Cdd:PRK14956  11 KYRPQFFRDVI-HQDLaIGALQNALKSGKIGHaYIFFGPRGVGKTTIarILAkrlncenpignepcneCTSCLEITKGIS 89
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  64 SMVLELNASDDRGIDIIRG--PILSFAStrtiFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKII 141
Cdd:PRK14956  90 SDVLEIDAASNRGIENIRElrDNVKFAP----MGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIP 165
                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 194306567 142 PALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQ 200
Cdd:PRK14956 166 ETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFME 224
DNA_pol3_delta2 pfam13177
DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required ...
22-157 1.61e-12

DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalyzed reaction. The delta subunit is also known as HolA.


Pssm-ID: 433013 [Multi-domain]  Cd Length: 161  Bit Score: 64.54  E-value: 1.61e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   22 TIQKFINE---DRLPH-LLLYGPPGTGKTSTILACAKQLYKDKEFGSM----------VLELNASDDR---------GID 78
Cdd:pfam13177   5 AIQLLQNSlenGRLSHaYLFSGPEGVGKLELALAFAKALFCEEPGDDLpcgqcrscrrIESGNHPDLViiepegqsiKID 84
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 194306567   79 IIRGpILSFASTRTIFKKgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLT 157
Cdd:pfam13177  85 QIRE-LQKEFSKSPYEGK-KKVYIIEDAEKMTASAANSLLKFLEEPPGNTVIILLTENPSRLLPTIRSRCQIIRFKPLS 161
PRK14955 PRK14955
DNA polymerase III subunits gamma and tau; Provisional
4-199 6.07e-12

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184919 [Multi-domain]  Cd Length: 397  Bit Score: 65.68  E-value: 6.07e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAK-----QLYKDKEFGSMVLE--------- 68
Cdd:PRK14955   9 KYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFsGLRGVGKTTAARVFAKavncqRMIDDADYLQEVTEpcgecescr 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  69 ------------LNASDDRGIDIIRgpiLSFASTRTIFKKG-FKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICN 135
Cdd:PRK14955  89 dfdagtslniseFDAASNNSVDDIR---LLRENVRYGPQKGrYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATT 165
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 194306567 136 YLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL 199
Cdd:PRK14955 166 ELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSIL 229
PRK14954 PRK14954
DNA polymerase III subunits gamma and tau; Provisional
4-211 6.43e-12

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184918 [Multi-domain]  Cd Length: 620  Bit Score: 66.12  E-value: 6.43e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLY------------------------K 58
Cdd:PRK14954   9 KYRPSKFADITAQEHITHTIQNSLRMDRVGHGYIFsGLRGVGKTTAARVFAKAVNcqrmiddpvylqevtepcgecescR 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  59 DKEFG-SM-VLELNASDDRGIDIIRgpiLSFASTRTIFKKG-FKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICN 135
Cdd:PRK14954  89 DFDAGtSLnISEFDAASNNSVDDIR---QLRENVRYGPQKGrYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATT 165
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 194306567 136 YLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTnMAFGKVTE 211
Cdd:PRK14954 166 ELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSILDQV-IAFSVGSE 240
PRK14958 PRK14958
DNA polymerase III subunits gamma and tau; Provisional
1-231 8.65e-12

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184922 [Multi-domain]  Cd Length: 509  Bit Score: 65.52  E-value: 8.65e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   1 MVEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLYKDKEFGSmvlelNASDD----R 75
Cdd:PRK14958   6 LARKWRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFtGTRGVGKTTISRILAKCLNCEKGVSA-----NPCNDcencR 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  76 GIDIIRGPIL---------SFASTRTIF--------KKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLS 138
Cdd:PRK14958  81 EIDEGRFPDLfevdaasrtKVEDTRELLdnipyaptKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHH 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 139 KIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTnMAFGkvteetvytcT 218
Cdd:PRK14958 161 KLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQS-IAYG----------N 229
                        250
                 ....*....|...
gi 194306567 219 GHPLKSDIANILD 231
Cdd:PRK14958 230 GKVLIADVKTMLG 242
PRK09111 PRK09111
DNA polymerase III subunits gamma and tau; Validated
4-214 1.01e-11

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236382 [Multi-domain]  Cd Length: 598  Bit Score: 65.31  E-value: 1.01e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPH-LLLYGPPGTGKTST--ILAcaKQL-YKDKEfGSM-------------- 65
Cdd:PRK09111  17 KYRPQTFDDLIGQEAMVRTLTNAFETGRIAQaFMLTGVRGVGKTTTarILA--RALnYEGPD-GDGgptidlcgvgehcq 93
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 ---------VLELNASDDRGIDIIRGPILSF----ASTRtifkkgFKLVILDEADAMTQDAQNALRRVIE------KF-- 124
Cdd:PRK09111  94 aimegrhvdVLEMDAASHTGVDDIREIIESVryrpVSAR------YKVYIIDEVHMLSTAAFNALLKTLEeppphvKFif 167
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 125 --TEntrfclicnyLSKI-IPALqSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMkALVTLSS-GDMRRALNIL- 199
Cdd:PRK09111 168 atTE----------IRKVpVTVL-SRCQRFDLRRIEADVLAAHLSRIAAKEGVEVEDEAL-ALIARAAeGSVRDGLSLLd 235
                        250
                 ....*....|....*
gi 194306567 200 QSTNMAFGKVTEETV 214
Cdd:PRK09111 236 QAIAHGAGEVTAEAV 250
PRK14948 PRK14948
DNA polymerase III subunit gamma/tau;
4-214 1.06e-11

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237862 [Multi-domain]  Cd Length: 620  Bit Score: 65.37  E-value: 1.06e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRL-PHLLLYGPPGTGKTST--ILA---------------CAK-QLYKDKEFGS 64
Cdd:PRK14948   9 KYRPQRFDELVGQEAIATTLKNALISNRIaPAYLFTGPRGTGKTSSarILAkslnclnsdkptpepCGKcELCRAIAAGN 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  65 M--VLELNASDDRGIDIIRGPI--LSFAST--RtifkkgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLS 138
Cdd:PRK14948  89 AldVIEIDAASNTGVDNIRELIerAQFAPVqaR------WKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQ 162
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 194306567 139 KIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETV 214
Cdd:PRK14948 163 RVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGGLRDAESLLDQLSLLPGPITPEAV 238
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
4-199 1.98e-10

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 61.54  E-value: 1.98e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLI--SH-QDILSTIqkfINEDRLPHLLLY-GPPGTGKTST--ILA----CAK--------------QLYKD 59
Cdd:PRK07764   8 RYRPATFAEVIgqEHvTEPLSTA---LDSGRINHAYLFsGPRGCGKTSSarILArslnCVEgptstpcgecdscvALAPG 84
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  60 KEfGSM-VLELNASDDRGIDIIR--------GPilsfASTRtifkkgFKLVILDEADAMTQDAQNALRRVIE------KF 124
Cdd:PRK07764  85 GP-GSLdVTEIDAASHGGVDDARelreraffAP----AESR------YKIFIIDEAHMVTPQGFNALLKIVEeppehlKF 153
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 125 ----TENtrfclicnylSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDIsEDGMKALVTLS-SGDMRRALNIL 199
Cdd:PRK07764 154 ifatTEP----------DKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPV-EPGVLPLVIRAgGGSVRDSLSVL 222
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
31-159 9.64e-10

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 56.23  E-value: 9.64e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567    31 RLPHLLLYGPPGTGKTSTILACAKQLYKDKEFgsmVLELNASDDRGIDIIRGPILSFASTRT--------------IFKK 96
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPGGG---VIYIDGEDILEEVLDQLLLIIVGGKKAsgsgelrlrlalalARKL 77
                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 194306567    97 GFKLVILDEADAMTQDAQNALRRVIEKFT--------ENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPE 159
Cdd:smart00382  78 KPDVLILDEITSLLDAEQEALLLLLEELRlllllkseKNLTVILTTNDEKDLGPALLRRRFDRRIVLLLIL 148
PRK06645 PRK06645
DNA polymerase III subunits gamma and tau; Validated
4-205 1.05e-09

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 180643 [Multi-domain]  Cd Length: 507  Bit Score: 59.10  E-value: 1.05e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPH-LLLYGPPGTGKTST--ILA----CAKQLYKDKEFGSM----------- 65
Cdd:PRK06645  14 KYRPSNFAELQGQEVLVKVLSYTILNDRLAGgYLLTGIRGVGKTTSarIIAkavnCSALITENTTIKTCeqctncisfnn 93
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  66 -----VLELNASDDRGIDIIRgPILSFASTRTIFKKgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKI 140
Cdd:PRK06645  94 hnhpdIIEIDAASKTSVDDIR-RIIESAEYKPLQGK-HKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKI 171
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 194306567 141 IPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMA 205
Cdd:PRK06645 172 PATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILdQAASMS 237
PRK07003 PRK07003
DNA polymerase III subunit gamma/tau;
4-276 1.29e-09

DNA polymerase III subunit gamma/tau;


Pssm-ID: 235906 [Multi-domain]  Cd Length: 830  Bit Score: 59.09  E-value: 1.29e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   4 KYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQLY----------------KDKEFGSMV 66
Cdd:PRK07003   9 KWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFtGTRGVGKTTLSRIFAKALNcetgvtsqpcgvcracREIDEGRFV 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  67 --LELNASDDRGIDIIrGPILSFASTRTIFKKgFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPAL 144
Cdd:PRK07003  89 dyVEMDAASNRGVDEM-AALLERAVYAPVDAR-FKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTV 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 145 QSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTGHPLK 223
Cdd:PRK07003 167 LSRCLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSLTdQAIAYSANEVTETAVSGMLGALDQ 246
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 194306567 224 SDIANILDWMLNQDfTTAYRNITELKTLKGLALHDILTEIHLFVHRVDF----PSSV 276
Cdd:PRK07003 247 TYMVRLLDALAAGD-GPEILAVADEMALRSLSFSTALQDLASLLHRIAWaqfaPASV 302
HLD_clamp cd18133
helical lid domain of clamp loader-like AAA+ proteins; Clamp loader complexes are multisubunit ...
159-218 1.44e-09

helical lid domain of clamp loader-like AAA+ proteins; Clamp loader complexes are multisubunit complexes that play an important role in DNA replication. They open sliding clamps for assembly and close them around DNA, specifically targeting them to sites where DNA synthesis is initiated and orienting them correctly for replication. The subunits belong to the clamp loader clade of AAA+ superfamily.


Pssm-ID: 350838 [Multi-domain]  Cd Length: 65  Bit Score: 53.63  E-value: 1.44e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 194306567 159 ELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNILQSTNMAF--GKVTEETVYTCT 218
Cdd:cd18133    4 EQLKRRLAAIAEQEKLKLDDAALQALAYISEGDLRKALNALQRAAALGddGKISLDRVYQAV 65
PRK14957 PRK14957
DNA polymerase III subunits gamma and tau; Provisional
1-302 2.53e-09

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184921 [Multi-domain]  Cd Length: 546  Bit Score: 58.17  E-value: 2.53e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   1 MVEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLY-GPPGTGKTSTILACAKQL-------------------YKDK 60
Cdd:PRK14957   6 LARKYRPQSFAEVAGQQHALNSLVHALETQKVHHAYLFtGTRGVGKTTLGRLLAKCLncktgvtaepcnkcencvaINNN 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  61 EFGSMVlELNASDDRGIDIIRgPILSfaSTRTIFKKG-FKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSK 139
Cdd:PRK14957  86 SFIDLI-EIDAASRTGVEETK-EILD--NIQYMPSQGrYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHK 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 140 IIPALQSRCTRFRFGPLTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCT 218
Cdd:PRK14957 162 IPVTILSRCIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLLdQAISFCGGELKQAQIKQML 241
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 219 GHPLKSDIANILDWMLNQD---FTTAYRNITeLKTLKGLALHDILTE------IHLFVHRVDFPSSVRIHLLTKMAD--- 286
Cdd:PRK14957 242 GIIDSEEVYSIINAIIDNDpkaILPAIKNLA-LTESSADAVLDRIAEiwfaccIYSFTQSLDAVNDIDVDIINNILAkis 320
                        330       340
                 ....*....|....*....|.
gi 194306567 287 IE-----YRLSVGTNEKIQLS 302
Cdd:PRK14957 321 IEqahflYQLTITAKKDIALA 341
PRK04132 PRK04132
replication factor C small subunit; Provisional
2-48 9.40e-09

replication factor C small subunit; Provisional


Pssm-ID: 235223 [Multi-domain]  Cd Length: 846  Bit Score: 56.39  E-value: 9.40e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 194306567   2 VEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTST 48
Cdd:PRK04132  10 VEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKCLT 56
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
2-159 2.24e-08

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 54.92  E-value: 2.24e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   2 VEKYRPQTLNDLISHQDILSTIQKFINE----DRLP---------HLLLYGPPGTGKTSTILACAKQLykdkefGSMVLE 68
Cdd:COG0464  148 LLELREAILDDLGGLEEVKEELRELVALplkrPELReeyglppprGLLLYGPPGTGKTLLARALAGEL------GLPLIE 221
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  69 LNASDdrgidiIRGPIL--SFASTRTIFKK--GFKLVIL--DEADAM----TQDAQNALRRVIE---KFTENTRF--CLI 133
Cdd:COG0464  222 VDLSD------LVSKYVgeTEKNLREVFDKarGLAPCVLfiDEADALagkrGEVGDGVGRRVVNtllTEMEELRSdvVVI 295
                        170       180
                 ....*....|....*....|....*....
gi 194306567 134 C--NYLSKIIPALQSRCTR-FRFGPLTPE 159
Cdd:COG0464  296 AatNRPDLLDPALLRRFDEiIFFPLPDAE 324
PRK06964 PRK06964
DNA polymerase III subunit delta'; Validated
30-166 5.99e-08

DNA polymerase III subunit delta'; Validated


Pssm-ID: 235898 [Multi-domain]  Cd Length: 342  Bit Score: 53.23  E-value: 5.99e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  30 DRLPH-LLLYGPPGTGKTSTILACAKQL----------------------------YK--------DKEFGSMVLELNAS 72
Cdd:PRK06964  18 ARLPHaLLLHGQAGIGKLDFAQHLAQGLlcetpqpdgepcgtcaacnwfaqgnhpdYRivrpealaAEAPGAADEAKEAD 97
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  73 DDRG------------IDIIRGpILSFASTRTiFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKI 140
Cdd:PRK06964  98 ADEGgkktkapskeikIEQVRA-LLDFCGVGT-HRGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRL 175
                        170       180
                 ....*....|....*....|....*.
gi 194306567 141 IPALQSRCTRFRFGPLTPELMVPRLE 166
Cdd:PRK06964 176 LPTILSRCRQFPMTVPAPEAAAAWLA 201
PRK07399 PRK07399
DNA polymerase III subunit delta'; Validated
77-201 1.28e-07

DNA polymerase III subunit delta'; Validated


Pssm-ID: 236011 [Multi-domain]  Cd Length: 314  Bit Score: 52.21  E-value: 1.28e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  77 IDIIRGpILSFASTRTIFKKGfKLVILDEADAMTQDAQNALRRVIEKfTENTRFCLICNYLSKIIPALQSRCTRFRFGPL 156
Cdd:PRK07399 106 LEQIRE-IKRFLSRPPLEAPR-KVVVIEDAETMNEAAANALLKTLEE-PGNGTLILIAPSPESLLPTIVSRCQIIPFYRL 182
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 194306567 157 TPELMVPRLEHVVEEEKVDISedgMKALVTLSSGDMRRAL---NILQS 201
Cdd:PRK07399 183 SDEQLEQVLKRLGDEEILNIN---FPELLALAQGSPGAAIaniEQLQS 227
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
6-51 2.92e-07

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 51.28  E-value: 2.92e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 194306567   6 RPQTLNDLISHQDILSTIQKFIN-----EDRLPHLLLYGPPGTGKTS--TILA 51
Cdd:PRK00080  20 RPKSLDEFIGQEKVKENLKIFIEaakkrGEALDHVLLYGPPGLGKTTlaNIIA 72
PRK06090 PRK06090
DNA polymerase III subunit delta'; Validated
97-162 3.04e-07

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180394 [Multi-domain]  Cd Length: 319  Bit Score: 50.96  E-value: 3.04e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 194306567  97 GFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMV 162
Cdd:PRK06090 108 GYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAM 173
HLD_clamp_pol_III_gamma_tau cd18137
helical lid domain of DNA polymerase III subunits gamma and tau; DNA polymerase III subunit ...
156-219 3.36e-07

helical lid domain of DNA polymerase III subunits gamma and tau; DNA polymerase III subunit gamma/tau is part of the DNA polymerase III holoenzyme. Gamma and tau subunits are isoforms, both containing the helical lid domain. Gamma interacts with the delta subunit to transfer the beta subunit on the DNA while tau serves as a scaffold to help in the dimerization of the core complex. Both are members of the clamp-loader clade of the AAA+ superfamily.


Pssm-ID: 350839 [Multi-domain]  Cd Length: 65  Bit Score: 46.73  E-value: 3.36e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 194306567 156 LTPELMVPRLEHVVEEEKVDISEDGMKALVTLSSGDMRRALNIL-QSTNMAFGKVTEETVYTCTG 219
Cdd:cd18137    1 ISVEDIVGRLAHILEKEGIEIEDEALELIARAAEGSMRDALSLLdQAIAFGGGRVTLDDVREMLG 65
Rad17 pfam03215
Rad17 P-loop domain;
2-56 4.81e-07

Rad17 P-loop domain;


Pssm-ID: 367398 [Multi-domain]  Cd Length: 186  Bit Score: 49.19  E-value: 4.81e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567    2 VEKYRPQTLNDLISHQDILSTIQKFINEDRLPH-----LLLYGPPGTGKTSTILACAKQL 56
Cdd:pfam03215  10 YEKYKPNCLEQLAVHKRKIKDVQEWLDAMFLENakhriLLISGPSGCGKSTVIKELSKEL 69
DEXXQc_Helz-like cd18038
DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and ...
31-58 1.03e-06

DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and similar proteins. Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. All are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350796 [Multi-domain]  Cd Length: 229  Bit Score: 48.77  E-value: 1.03e-06
                         10        20
                 ....*....|....*....|....*...
gi 194306567  31 RLPHLLLYGPPGTGKTSTILACAKQLYK 58
Cdd:cd18038   19 RPPPYIIFGPPGTGKTVTLVEAILQVLR 46
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
35-151 1.27e-06

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 47.66  E-value: 1.27e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  35 LLLYGPPGTGKTSTILACAKQLykDKEFgsmvleLNASDDRGIDIIRGPilSFASTRTIF----KKGFKLVILDEADAM- 109
Cdd:cd19481   29 ILLYGPPGTGKTLLAKALAGEL--GLPL------IVVKLSSLLSKYVGE--SEKNLRKIFerarRLAPCILFIDEIDAIg 98
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 194306567 110 -----------TQDAQNALRRVIEKFTENTRFCLIC--NYLSKIIPALQsRCTRF 151
Cdd:cd19481   99 rkrdssgesgeLRRVLNQLLTELDGVNSRSKVLVIAatNRPDLLDPALL-RPGRF 152
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
6-51 1.88e-06

Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 47.11  E-value: 1.88e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 194306567    6 RPQTLNDLISHQDILSTIQKFIN-----EDRLPHLLLYGPPGTGKT--STILA 51
Cdd:pfam05496   2 RPRTLDEYIGQEKVKENLKIFIEaakqrGEALDHVLLYGPPGLGKTtlANIIA 54
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
6-51 2.17e-06

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 48.54  E-value: 2.17e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 194306567   6 RPQTLNDLISHQDILSTIQKFIN-----EDRLPHLLLYGPPGTGKT--STILA 51
Cdd:COG2255   23 RPKRLDEYIGQEKVKENLKIFIEaakkrGEALDHVLLYGPPGLGKTtlAHIIA 75
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
8-199 3.16e-06

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 48.07  E-value: 3.16e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567    8 QTLNDLISHQDILSTIQKFI-----NEDRLPHLLLYGPPGTGKTS--TILACakqlykdkefgsmvlELNASddrgIDII 80
Cdd:TIGR00635   1 KLLAEFIGQEKVKEQLQLFIeaakmRQEALDHLLLYGPPGLGKTTlaHIIAN---------------EMGVN----LKIT 61
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   81 RGPIL----SFASTRTIFKKGFKLVIlDEADAMTQDAQNALRRVIEKFT----------------ENTRFCLI--CNYLS 138
Cdd:TIGR00635  62 SGPALekpgDLAAILTNLEEGDVLFI-DEIHRLSPAVEELLYPAMEDFRldivigkgpsarsvrlDLPPFTLVgaTTRAG 140
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 194306567  139 KIIPALQSrctrfRFGpltpelMVPRLEHVVEEE------------KVDISEDGMKALVTLSSGDMRRALNIL 199
Cdd:TIGR00635 141 MLTSPLRD-----RFG------IILRLEFYTVEElaeivsrsagllNVEIEPEAALEIARRSRGTPRIANRLL 202
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
10-196 5.00e-06

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 46.80  E-value: 5.00e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  10 LNDLISHQDILSTIQKFINE----DRL--------PHLLLYGPPGTGKTSTILACAKQLykdkefGSMVLELNASddrgi 77
Cdd:COG1223    1 LDDVVGQEEAKKKLKLIIKElrrrENLrkfglwppRKILFYGPPGTGKTMLAEALAGEL------KLPLLTVRLD----- 69
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  78 diirGPILSF-----ASTRTIFK--KGFKLVI-LDEADAMTQD--AQNA---LRRVIEKF-----TENTRFCLIC--NYL 137
Cdd:COG1223   70 ----SLIGSYlgetaRNLRKLFDfaRRAPCVIfFDEFDAIAKDrgDQNDvgeVKRVVNALlqeldGLPSGSVVIAatNHP 145
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 194306567 138 SKIIPALQSRC-TRFRFGPLTPELMVPRLEHVVEEEKVDISEDGM---KALVTLSSGDMRRAL 196
Cdd:COG1223  146 ELLDSALWRRFdEVIEFPLPDKEERKEILELNLKKFPLPFELDLKklaKKLEGLSGADIEKVL 208
AAA_24 pfam13479
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.
35-130 6.97e-06

AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.


Pssm-ID: 433243  Cd Length: 199  Bit Score: 46.17  E-value: 6.97e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   35 LLLYGPPGTGKTSTILACAKQLYKDKEFGSMVLElnasDDRGIDI-IRGPILSF----ASTRTIFKKGFKLVILDEADAM 109
Cdd:pfam13479   5 ILIYGPSGIGKTTFAKTLPKPLFLDTEKGSKALD----GDRFPDIvIRDSWQDFldaiDELTAAELADYKTIVIDTVDWL 80
                          90       100
                  ....*....|....*....|.
gi 194306567  110 TQDAQNALRRVIEKFTENTRF 130
Cdd:pfam13479  81 ERLCLAYICKQNGKGSSIEDG 101
PRK07994 PRK07994
DNA polymerase III subunits gamma and tau; Validated
146-214 7.82e-06

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236138 [Multi-domain]  Cd Length: 647  Bit Score: 47.17  E-value: 7.82e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 194306567 146 SRCTRFRFGPLTPELMVPRLEHVVEEEKVDiSEDgmKALVTLS---SGDMRRALNIL-QSTNMAFGKVTEETV 214
Cdd:PRK07994 168 SRCLQFHLKALDVEQIRQQLEHILQAEQIP-FEP--RALQLLAraaDGSMRDALSLTdQAIASGNGQVTTDDV 237
CDC6 COG1474
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
17-199 1.11e-05

Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];


Pssm-ID: 441083 [Multi-domain]  Cd Length: 389  Bit Score: 46.38  E-value: 1.11e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  17 QDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQLYKD-KEFGSMV--LELNASDDR---GI------DIIRGPI 84
Cdd:COG1474   36 EELASALRPALRGERPSNVLIYGPTGTGKTAVAKYVLEELEEEaEERGVDVrvVYVNCRQAStryRVlsrileELGSGED 115
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  85 LSF--ASTRTIFKKGFK---------LVILDEADAMTQDAQN----ALRRVIEKFtENTRFCLIC-----NYLSKIIPAL 144
Cdd:COG1474  116 IPStgLSTDELFDRLYEalderdgvlVVVLDEIDYLVDDEGDdllyQLLRANEEL-EGARVGVIGisndlEFLENLDPRV 194
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 194306567 145 QSR--CTRFRFGPLT-PEL---MVPRLEH-----VVEEEKVD-ISedgmkALVTLSSGDMRRALNIL 199
Cdd:COG1474  195 KSSlgEEEIVFPPYDaDELrdiLEDRAELafydgVLSDEVIPlIA-----ALAAQEHGDARKAIDLL 256
PRK07993 PRK07993
DNA polymerase III subunit delta'; Validated
97-201 1.24e-05

DNA polymerase III subunit delta'; Validated


Pssm-ID: 181190 [Multi-domain]  Cd Length: 334  Bit Score: 46.21  E-value: 1.24e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  97 GFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHvveeeKVDI 176
Cdd:PRK07993 108 GAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSR-----EVTM 182
                         90       100
                 ....*....|....*....|....*
gi 194306567 177 SEDGMKALVTLSSGDMRRALNILQS 201
Cdd:PRK07993 183 SQDALLAALRLSAGAPGAALALLQP 207
AAA_assoc_2 pfam16193
AAA C-terminal domain; AAA_assoc_2 is found at the C-terminus of a relatively small set of AAA ...
170-214 1.46e-05

AAA C-terminal domain; AAA_assoc_2 is found at the C-terminus of a relatively small set of AAA domains in proteins ranging from archaeal to fungi, plants and mammals.


Pssm-ID: 465057  Cd Length: 81  Bit Score: 42.46  E-value: 1.46e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 194306567  170 EEEKVDISEDGMKALVTLSSGDMRRALNIL----QSTNMAFGK--VTEETV 214
Cdd:pfam16193   1 GGLKIELDDEALEALAELADGDARRALNALelavLSTPPDDGGihITLEIL 51
PRK08699 PRK08699
DNA polymerase III subunit delta'; Validated
30-151 1.68e-05

DNA polymerase III subunit delta'; Validated


Pssm-ID: 181538 [Multi-domain]  Cd Length: 325  Bit Score: 46.02  E-value: 1.68e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  30 DRLPH-LLLYGPPGTGKTSTILACAKQLYKDKE---------------FGS-------MVLELNASDDRG-------IDI 79
Cdd:PRK08699  18 ERRPNaWLFAGKKGIGKTAFARFAAQALLCETPapghkpcgecmschlFGQgshpdfyEITPLSDEPENGrkllqikIDA 97
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 194306567  80 IRgPILSFASTrTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRF 151
Cdd:PRK08699  98 VR-EIIDNVYL-TSVRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKM 167
HLD_clamp_RarA cd18139
helical lid domain of recombination factor protein RarA; Recombination factor RarA ...
156-200 1.65e-04

helical lid domain of recombination factor protein RarA; Recombination factor RarA (Replication associated recombination gene/protein A, also known as MgsA (Maintenance of genome stability A) or Mgs1 in yeast and WRNIP1 in mammals) is a member of the clamp-loader clade of the AAA+ superfamily. It functions as a tetramer. RarA co-localize with the replication fork throughout the cell cycle and may play a role in the rescue of stalled replication forks.


Pssm-ID: 350841 [Multi-domain]  Cd Length: 75  Bit Score: 39.54  E-value: 1.65e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 194306567 156 LTPELMVPRLEHVVEEE------KVDISEDGMKALVTLSSGDMRRALNILQ 200
Cdd:cd18139    1 LSEEDLEKLLKRALEDKerggdrKVTIDDEALELLAEAADGDARSALNLLE 51
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
19-56 4.53e-04

Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of mitochondrial respiratory chain complex III and plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex. RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 40.03  E-value: 4.53e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 194306567  19 ILSTIQKFIN-----EDRLPH----LLLYGPPGTGKTSTILACAKQL 56
Cdd:cd19510    1 IIDDLKDFIKnedwyNDRGIPyrrgYLLYGPPGTGKSSFIAALAGEL 47
COG2842 COG2842
Bacteriophage DNA transposition protein, AAA+ family ATPase [Mobilome: prophages, transposons]; ...
36-214 5.08e-04

Bacteriophage DNA transposition protein, AAA+ family ATPase [Mobilome: prophages, transposons];


Pssm-ID: 442090 [Multi-domain]  Cd Length: 254  Bit Score: 41.09  E-value: 5.08e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  36 LLYGPPGTGKTSTILACAKQ-----------LYKDKEF-GSMVLELNASDDRG--IDIIRGPILSFASTRTifkkgfkLV 101
Cdd:COG2842   54 VVYGESGVGKTTAAREYANRnpnviyvtaspSWTSKELlEELAEELGIPAPPGtiADLRDRILERLAGTGR-------LL 126
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567 102 ILDEADAMTQDAQNALRRVIEKftENTRFCLICN--YLSKI--IPALQSRCT-RFRFGPLTPE---LMVPRLEHVVEEEK 173
Cdd:COG2842  127 IIDEADHLKPKALEELRDIHDE--TGVGVVLIGMerLPAKLkrYEQLYSRIGfWVEFKPLSLEdvrALAEAWGELTDPDL 204
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 194306567 174 VdisedgmKALVTLSSGDMRRALNIL-----QSTNMAFGKVTEETV 214
Cdd:COG2842  205 L-------ELLHRITRGNLRRLDRTLrlaarAAKRNGLTKITLDHV 243
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
34-200 5.43e-04

type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 41.37  E-value: 5.43e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   34 HLLLYGPPGTGKTSTILACAKQLYkdkefgsmvlelnasddrGIDIIRGPIL---------------SFASTRTIFKKGF 98
Cdd:TIGR03922 314 HMLFAGPPGTGKTTIARVVAKIYC------------------GLGVLRKPLVrevsradligqyigeSEAKTNEIIDSAL 375
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   99 KLVI-LDEADAMTQ-----------DAQNALRRVIEkfTENTRFCLICNYLSKII-------PALQSRCTR-FRFGPLTP 158
Cdd:TIGR03922 376 GGVLfLDEAYTLVEtgygqkdpfglEAIDTLLARME--NDRDRLVVIGAGYRKDLdkflevnEGLRSRFTRvIEFPSYSP 453
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 194306567  159 ELMVpRLEHVVEEEKVDISEDG-----MKALVTLS-------SGDMRRALNILQ 200
Cdd:TIGR03922 454 DELV-EIARRMATERDSVLDDAaadalLEAATTLAqdttpdaNGDLRRGLDIAG 506
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
35-109 1.21e-03

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 39.01  E-value: 1.21e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  35 LLLYGPPGTGKTstilACAKQLykdkefGSMvleLNASDDRgidIIRGP-IL------SFASTRTIFK------------ 95
Cdd:cd19504   38 ILLYGPPGTGKT----LMARQI------GKM---LNAREPK---IVNGPeILnkyvgeSEANIRKLFAdaeeeqrrlgan 101
                         90
                 ....*....|....
gi 194306567  96 KGFKLVILDEADAM 109
Cdd:cd19504  102 SGLHIIIFDEIDAI 115
PRK06871 PRK06871
DNA polymerase III subunit delta'; Validated
74-148 2.28e-03

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180738 [Multi-domain]  Cd Length: 325  Bit Score: 39.33  E-value: 2.28e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 194306567  74 DRGIDIIR---GPILSFAStrtifKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRC 148
Cdd:PRK06871  86 DIGVDQVReinEKVSQHAQ-----QGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRC 158
AAA_11 pfam13086
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
23-58 2.48e-03

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


Pssm-ID: 404072 [Multi-domain]  Cd Length: 248  Bit Score: 38.86  E-value: 2.48e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 194306567   23 IQKFINEDRLphLLLYGPPGTGKTSTILACAKQLYK 58
Cdd:pfam13086   6 IRSALSSSHF--TLIQGPPGTGKTTTIVELIRQLLS 39
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
35-110 3.58e-03

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 37.66  E-value: 3.58e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  35 LLLYGPPGTGKTSTILACAKQLykdkefGSMVLELNasddrGIDIIRG-PILSFASTRTIFKKGFK----LVILDEADAM 109
Cdd:cd19503   37 VLLHGPPGTGKTLLARAVANEA------GANFLSIS-----GPSIVSKyLGESEKNLREIFEEARShapsIIFIDEIDAL 105

                 .
gi 194306567 110 T 110
Cdd:cd19503  106 A 106
PRK07132 PRK07132
DNA polymerase III subunit delta'; Validated
99-153 3.74e-03

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180855 [Multi-domain]  Cd Length: 299  Bit Score: 38.55  E-value: 3.74e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 194306567  99 KLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRF 153
Cdd:PRK07132  92 KILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNV 146
AAA_16 pfam13191
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ...
27-60 4.34e-03

AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily.


Pssm-ID: 433025 [Multi-domain]  Cd Length: 167  Bit Score: 37.48  E-value: 4.34e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 194306567   27 INEDRLPHLLLYGPPGTGKTSTILACAKQLYKDK 60
Cdd:pfam13191  19 VRSGRPPSVLLTGEAGTGKTTLLRELLRALERDG 52
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
13-71 4.42e-03

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion


Pssm-ID: 410916 [Multi-domain]  Cd Length: 199  Bit Score: 37.81  E-value: 4.42e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 194306567  13 LISHQDILSTIqkfINEDRLphLLLYGPPGTGKTSTILACAKQL---YKDKEFGSMVLELNA 71
Cdd:cd19508   38 LFSDKNVNTNL---ITWNRL--VLLHGPPGTGKTSLCKALAQKLsirLSSRYRYGQLIEINS 94
NACHT COG5635
Predicted NTPase, NACHT family domain [Signal transduction mechanisms];
3-159 4.61e-03

Predicted NTPase, NACHT family domain [Signal transduction mechanisms];


Pssm-ID: 444362 [Multi-domain]  Cd Length: 935  Bit Score: 38.63  E-value: 4.61e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   3 EKYRPQTLNDLISHQDILSTIqkfinEDRLPHLLLYGPPGTGKTSTILACAKQLYKDKEFGS----MVLELN--ASDDRG 76
Cdd:COG5635  156 DLYVPLNLLERIESLKRLELL-----EAKKKRLLILGEPGSGKTTLLRYLALELAERYLDAEdpipILIELRdlAEEASL 230
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567  77 IDIIRGPILSFAST-----RTIFKKGFKLVILD-----EADAMTQDAQNALRRVIEKFtENTRFCLICNYLSKIIPALQs 146
Cdd:COG5635  231 EDLLAEALEKRGGEpedalERLLRNGRLLLLLDgldevPDEADRDEVLNQLRRFLERY-PKARVIITSRPEGYDSSELE- 308
                        170
                 ....*....|...
gi 194306567 147 RCTRFRFGPLTPE 159
Cdd:COG5635  309 GFEVLELAPLSDE 321
PRK06581 PRK06581
DNA polymerase III subunit delta'; Validated
72-148 5.55e-03

DNA polymerase III subunit delta'; Validated


Pssm-ID: 235833 [Multi-domain]  Cd Length: 263  Bit Score: 37.90  E-value: 5.55e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 194306567  72 SDDRGIDIIRGPILSFASTRTIFKKGFKLVILDEADAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRC 148
Cdd:PRK06581  64 SNAKNISIEQIRKLQDFLSKTSAISGYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLITSRAASIISTIRSRC 140
DEXXQc_Upf1-like cd17934
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ...
35-56 6.12e-03

DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438708 [Multi-domain]  Cd Length: 121  Bit Score: 36.06  E-value: 6.12e-03
                         10        20
                 ....*....|....*....|..
gi 194306567  35 LLLYGPPGTGKTSTILACAKQL 56
Cdd:cd17934    2 SLIQGPPGTGKTTTIAAIVLQL 23
DEXXQc_SETX cd18042
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in ...
36-51 6.73e-03

DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in transcription, neurogenesis, and antiviral response. SEXT is an R-loop-associated protein that is thought to function as an RNA/DNA helicase. R-loops consist of RNA/DNA hybrids, formed during transcription when nascent RNA hybridizes to the DNA template strand, displacing the non-template DNA strand. Mutations in SETX are linked to two neurodegenerative disorders: ataxia with oculomotor apraxia type 2 (AOA2) and amyotrophic lateral sclerosis type 4 (ALS4). S. cerevisiae homolog splicing endonuclease 1 (Sen1) is an exclusively nuclear protein, important for nucleolar organization. S. cerevisiae Sen1 and its ortholog, the Schizosaccharomyces pombe Sen1, share conserved domains and belong to the family I class of helicases. Both proteins translocate 5' to 3' and unwind both DNA and RNA duplexes and also RNA/DNA hybrids in vitro. SETX is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438712 [Multi-domain]  Cd Length: 218  Bit Score: 37.19  E-value: 6.73e-03
                         10
                 ....*....|....*.
gi 194306567  36 LLYGPPGTGKTSTILA 51
Cdd:cd18042   21 LIQGPPGTGKTKTIVG 36
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
34-122 6.80e-03

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 36.12  E-value: 6.80e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 194306567   34 HLLLYGPPGTGKTSTILACAKQLYKDKEFgsMVL---ELNASDDRGIDIIRGPILSF--ASTRTIFKKGfKLVILDEADA 108
Cdd:pfam07728   1 GVLLVGPPGTGKTELAERLAAALSNRPVF--YVQltrDTTEEDLFGRRNIDPGGASWvdGPLVRAAREG-EIAVLDEINR 77
                          90
                  ....*....|....
gi 194306567  109 MTQDAQNALRRVIE 122
Cdd:pfam07728  78 ANPDVLNSLLSLLD 91
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
35-56 7.20e-03

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 37.68  E-value: 7.20e-03
                         10        20
                 ....*....|....*....|..
gi 194306567  35 LLLYGPPGTGKTSTILACAKQL 56
Cdd:COG1222  115 VLLYGPPGTGKTLLAKAVAGEL 136
AAA_7 pfam12775
P-loop containing dynein motor region; This domain is found in human cytoplasmic dynein-2 ...
34-71 9.98e-03

P-loop containing dynein motor region; This domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliopathies. Dyneins share a conserved motor domain that couples cycles of ATP hydrolysis with conformational changes to produce movement. Structural analysis reveal that the motor's ring consists of six AAA+ domains (ATPases associated with various cellular activities (AAA1-AAA6). This is the third nucleotide binding sites in the dynein motor. However, AAA3 has lost the catalytic residues necessary for ATP hydrolysis (the Walker B glutamate, the arginine finger, sensor-I and sensor-II motifs).


Pssm-ID: 463698 [Multi-domain]  Cd Length: 179  Bit Score: 36.22  E-value: 9.98e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 194306567   34 HLLLYGPPGTGKTSTILACAKQLYKDKeFGSMVLELNA 71
Cdd:pfam12775  33 PVLLVGPTGTGKTVIIQNLLRKLDKEK-YLPLFINFSA 69
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH