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Conserved domains on  [gi|108773789|ref|NP_853536|]
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replication factor C subunit 3 isoform 2 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK12402 super family cl36124
replication factor C small subunit 2; Reviewed
 3-282 6.20e-45

replication factor C small subunit 2; Reviewed


The actual alignment was detected with superfamily member PRK12402:

Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 155.53  E-value: 6.20e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIEHQTITTPSKKKI 82
Cdd:PRK12402   4 LWTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKK 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  83 EISTIASNYHLEVNPSDAGNSDRVVIQEMLKTVAQSQQLETnsqrDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK12402  84 YLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSA----DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFI 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACRVQQYPFTa 242
Cdd:PRK12402 160 IATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEIT- 238

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|
gi 108773789 243 DQEIPETDWEVYLRETANAIVSQQTPQRLLEVRGRLYELL 282
Cdd:PRK12402 239 MEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLL 278
 
Name Accession Description Interval E-value
PRK12402 PRK12402
replication factor C small subunit 2; Reviewed
 3-282 6.20e-45

replication factor C small subunit 2; Reviewed


Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 155.53  E-value: 6.20e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIEHQTITTPSKKKI 82
Cdd:PRK12402   4 LWTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKK 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  83 EISTIASNYHLEVNPSDAGNSDRVVIQEMLKTVAQSQQLETnsqrDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK12402  84 YLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSA----DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFI 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACRVQQYPFTa 242
Cdd:PRK12402 160 IATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEIT- 238

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|
gi 108773789 243 DQEIPETDWEVYLRETANAIVSQQTPQRLLEVRGRLYELL 282
Cdd:PRK12402 239 MEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLL 278
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
19-294 2.44e-32

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


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 121.24  E-value: 2.44e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  19 HKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTRIMCILRELYGvgveklrieHQTITTPSKKKIEISTIASNYH---LE 94
Cdd:COG0470    1 QEEAWEQLLAAAESGRLPHaLLLHGPPGIGKTTLALALARDLLC---------ENPEGGKACGQCHSRLMAAGNHpdlLE 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  95 VNPSDAGNSDRV-VIQEMLKTVAQSqqletnSQRD-FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVI 172
Cdd:COG0470   72 LNPEEKSDQIGIdQIRELGEFLSLT------PLEGgRKVVIIDEADAMNEAAANALLKTLEEPPKNTPFILIANDPSRLL 145

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 173 PPIRSRCLAVRVPAPSIEDICHVLstvcKKEGlnLPSQLAHRLAEKSCRNLRKALLMCEAcrvqqypFTADQEIPETDWE 252
Cdd:COG0470  146 PTIRSRCQVIRFRPPSEEEALAWL----REEG--VDEDALEAILRLAGGDPRAAINLLQA-------LAGRKELLEDLAA 212

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*.
gi 108773789 253 VYLR----ETANAIVSQQTPQRLLEVRGRLYELLTHCIPPEIIMKA 294
Cdd:COG0470  213 LLSRdralELLDALLKAEALELLDWLLKWLLDNLPLEYAGEDLARA 258
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 21-179 5.27e-10

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: 57.16  E-value: 5.27e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  21 EQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGVGVEklriehqtittpskkkieistiasnyHLEVNPSDA 100
Cdd:cd00009    5 EAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAP--------------------------FLYLNASDL 58

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 101 GNSDRVVIQEmlKTVAQSQQLETNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMST------CRLILCCNSTS--KVI 172
Cdd:cd00009   59 LEGLVVAELF--GHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLridrenVRVIGATNRPLlgDLD 136


                 ....*..
gi 108773789 173 PPIRSRC 179
Cdd:cd00009  137 RALYDRL 143
DNA_pol3_delta2 pfam13177
DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required ...
 18-188 6.68e-07

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: 48.36  E-value: 6.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   18 YHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTRIMCILRELYGvgvEKLRIEHQTITTPSKKKIEistiaSNYHLEVN 96
Cdd:pfam13177   1 GQPEAIQLLQNSLENGRLSHaYLFSGPEGVGKLELALAFAKALFC---EEPGDDLPCGQCRSCRRIE-----SGNHPDLV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   97 P-SDAGNSDRV-VIQEMLKTVAQSQqLETNsqrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPP 174
Cdd:pfam13177  73 IiEPEGQSIKIdQIRELQKEFSKSP-YEGK----KKVYIIEDAEKMTASAANSLLKFLEEPPGNTVIILLTENPSRLLPT 147

                         170
                  ....*....|....
gi 108773789  175 IRSRCLAVRVPAPS 188
Cdd:pfam13177 148 IRSRCQIIRFKPLS 161
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 37-190 2.30e-06

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: 46.60  E-value: 2.30e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789    37 HLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIEHQTITTPSKKKIeistiasnyHLEVNPSDAGNSDRVVIQEMLKTVA 116
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQL---------LLIIVGGKKASGSGELRLRLALALA 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   117 QsqqletnsQRDFKVVLLTEVDKLTKDAQHALRR--------TMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPS 188
Cdd:smart00382  75 R--------KLKPDVLILDEITSLLDAEQEALLLlleelrllLLLKSEKNLTVILTTNDEKDLGPALLRRRFDRRIVLLL 146


                   ..
gi 108773789   189 IE 190
Cdd:smart00382 147 IL 148
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
 3-164 9.72e-04

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: 40.71  E-value: 9.72e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789    3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-----LLVYGPSGAGKKTRIMCILRELygvgVEKLR--IEHQTIT 75
Cdd:TIGR00602  73 PWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENapkriLLITGPSGCGKSTTIKILSKEL----GIQVQewSNPTLPD 148

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   76 TPSKKKIEISTIASNYHLEVnpsdagnSDRVVIQEMLKTVAQS-QQLETNSQRDFKVVLLTEVDK---LTKDAQHALRRT 151
Cdd:TIGR00602 149 FQKNDHKVTLSLESCFSNFQ-------SQIEVFSEFLLRATNKlQMLGDDLMTDKKIILVEDLPNqfyRDTRALHEILRW 221

                         170
                  ....*....|...
gi 108773789  152 MEKYMSTCRLILC 164
Cdd:TIGR00602 222 KYVSIGRCPLVFI 234
 
Name Accession Description Interval E-value
PRK12402 PRK12402
replication factor C small subunit 2; Reviewed
 3-282 6.20e-45

replication factor C small subunit 2; Reviewed


Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 155.53  E-value: 6.20e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIEHQTITTPSKKKI 82
Cdd:PRK12402   4 LWTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKK 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  83 EISTIASNYHLEVNPSDAGNSDRVVIQEMLKTVAQSQQLETnsqrDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK12402  84 YLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSA----DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFI 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACRVQQYPFTa 242
Cdd:PRK12402 160 IATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEIT- 238

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|
gi 108773789 243 DQEIPETDWEVYLRETANAIVSQQTPQRLLEVRGRLYELL 282
Cdd:PRK12402 239 MEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLL 278
rfc PRK00440
replication factor C small subunit; Reviewed
 3-207 8.89e-45

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 154.65  E-value: 8.89e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGvgvEKLRiehqtittpskkki 82
Cdd:PRK00440   6 IWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYG---EDWR-------------- 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  83 eistiasNYHLEVNPSDAGNSDrvVIQEMLKTVAQSQQLETnsqRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK00440  69 -------ENFLELNASDERGID--VIRNKIKEFARTAPVGG---APFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFI 136

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 108773789 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNL 207
Cdd:PRK00440 137 LSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGIEI 181
PLN03025 PLN03025
replication factor C subunit; Provisional
 4-205 5.35e-33

replication factor C subunit; Provisional


Pssm-ID: 178596 [Multi-domain]  Cd Length: 319  Bit Score: 123.69  E-value: 5.35e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   4 WVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGvgveklriehqtittPSKKkie 83
Cdd:PLN03025   3 WVEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG---------------PNYK--- 64

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  84 istiasNYHLEVNPSDAGNSDrvVIQEMLKTVAQSQQleTNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLIL 163
Cdd:PLN03025  65 ------EAVLELNASDDRGID--VVRNKIKMFAQKKV--TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFAL 134

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 108773789 164 CCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGL 205
Cdd:PLN03025 135 ACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEAEKV 176
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
19-294 2.44e-32

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


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 121.24  E-value: 2.44e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  19 HKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTRIMCILRELYGvgveklrieHQTITTPSKKKIEISTIASNYH---LE 94
Cdd:COG0470    1 QEEAWEQLLAAAESGRLPHaLLLHGPPGIGKTTLALALARDLLC---------ENPEGGKACGQCHSRLMAAGNHpdlLE 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  95 VNPSDAGNSDRV-VIQEMLKTVAQSqqletnSQRD-FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVI 172
Cdd:COG0470   72 LNPEEKSDQIGIdQIRELGEFLSLT------PLEGgRKVVIIDEADAMNEAAANALLKTLEEPPKNTPFILIANDPSRLL 145

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 173 PPIRSRCLAVRVPAPSIEDICHVLstvcKKEGlnLPSQLAHRLAEKSCRNLRKALLMCEAcrvqqypFTADQEIPETDWE 252
Cdd:COG0470  146 PTIRSRCQVIRFRPPSEEEALAWL----REEG--VDEDALEAILRLAGGDPRAAINLLQA-------LAGRKELLEDLAA 212

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*.
gi 108773789 253 VYLR----ETANAIVSQQTPQRLLEVRGRLYELLTHCIPPEIIMKA 294
Cdd:COG0470  213 LLSRdralELLDALLKAEALELLDWLLKWLLDNLPLEYAGEDLARA 258
PRK04132 PRK04132
replication factor C small subunit; Provisional
 93-282 1.32e-25

replication factor C small subunit; Provisional


Pssm-ID: 235223 [Multi-domain]  Cd Length: 846  Bit Score: 106.85  E-value: 1.32e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  93 LEVNPSDAGNSDrvVIQEMLKTVAQSQQLETNSqrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVI 172
Cdd:PRK04132 600 LELNASDERGIN--VIREKVKEFARTKPIGGAS---FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKII 674

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 173 PPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALlmceacRVQQYPFTADQEIpeTDWE 252
Cdd:PRK04132 675 EPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAI------NILQAAAALDDKI--TDEN 746

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 108773789 253 VYLretanaIVSQQTPQ------------RLLEVRGRLYELL 282
Cdd:PRK04132 747 VFL------VASRARPEdiremmllalkgNFLKAREKLREIL 782
44 PHA02544
clamp loader, small subunit; Provisional
 3-204 6.72e-18

clamp loader, small subunit; Provisional


Pssm-ID: 222866 [Multi-domain]  Cd Length: 316  Bit Score: 82.34  E-value: 6.72e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPS-GAGKKTRIMCILRElygVGVEklriehqtittpskkk 81
Cdd:PHA02544  10 MWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSpGTGKTTVAKALCNE---VGAE---------------- 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  82 ieistiasnyHLEVNPSDaGNSDrvVIQEMLKTVAQSQQLETNsqrdFKVVLLTEVDKL-TKDAQHALRRTMEKYMSTCR 160
Cdd:PHA02544  71 ----------VLFVNGSD-CRID--FVRNRLTRFASTVSLTGG----GKVIIIDEFDRLgLADAQRHLRSFMEAYSKNCS 133

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 108773789 161 LILCCNSTSKVIPPIRSRCLAVRVPAPSIED-------ICHVLSTVCKKEG 204
Cdd:PHA02544 134 FIITANNKNGIIEPLRSRCRVIDFGVPTKEEqiemmkqMIVRCKGILEAEG 184
DnaX COG2812
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];
19-275 1.17e-13

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


Pssm-ID: 442061 [Multi-domain]  Cd Length: 340  Bit Score: 70.22  E-value: 1.17e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  19 HKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKT--RIM-----CilrelygvgveklriEHQTITTP-----SKKKIeis 85
Cdd:COG2812   15 QEHVVRTLKNALASGRLAHaYLFTGPRGVGKTTlaRILakalnC---------------ENGPTGEPcgeceSCRAI--- 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  86 tiASNYHLEVNPSDAGNSDRVV--IQEMLKTVAQSqqletNSQRDFKVVLLTEVDKLTKDAQHALRRTME------Kyms 157
Cdd:COG2812   77 --AAGSHPDVIEIDAEASNIGVddIRELIEKVSYA-----PVEGRYKVYIIDEAHMLTTEAFNALLKTLEeppphvV--- 146

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 158 tcrLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMceacrvqq 237
Cdd:COG2812  147 ---FILATTEPQKLLPTILSRCQRFDFRRLPPEEIAEHLAKIAEREGIEIEPEALALIARAADGSMRDALSL-------- 215

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|
gi 108773789 238 ypftADQEIP--ETDWEVYLRETANAIVSQQTPQRLLEVR 275
Cdd:COG2812  216 ----LDQAIAfgLLDRRELLLDLLEALLAGDVAALLALAE 251
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 21-179 5.27e-10

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: 57.16  E-value: 5.27e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  21 EQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGVGVEklriehqtittpskkkieistiasnyHLEVNPSDA 100
Cdd:cd00009    5 EAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAP--------------------------FLYLNASDL 58

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 101 GNSDRVVIQEmlKTVAQSQQLETNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMST------CRLILCCNSTS--KVI 172
Cdd:cd00009   59 LEGLVVAELF--GHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLridrenVRVIGATNRPLlgDLD 136


                 ....*..
gi 108773789 173 PPIRSRC 179
Cdd:cd00009  137 RALYDRL 143
PRK14962 PRK14962
DNA polymerase III subunits gamma and tau; Provisional
 7-231 7.31e-10

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237869 [Multi-domain]  Cd Length: 472  Bit Score: 59.39  E-value: 7.31e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKT--RIMcilrelygvgVEKLRIEHQTITTPSKKKIE 83
Cdd:PRK14962   7 KYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFaGPRGTGKTTvaRIL----------AKSLNCENRKGVEPCNECRA 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  84 ISTIASNYHLEVNPSDAGnSDRVV--IQEMLKTVAQsqqleTNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRL 161
Cdd:PRK14962  77 CRSIDEGTFMDVIELDAA-SNRGIdeIRKIRDAVGY-----RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVF 150

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 162 ILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCE 231
Cdd:PRK14962 151 VLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLE 220
PRK14961 PRK14961
DNA polymerase III subunits gamma and tau; Provisional
 7-231 1.14e-09

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184925 [Multi-domain]  Cd Length: 363  Bit Score: 58.67  E-value: 1.14e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHL-LVYGPSGAGKKTrimcILRELygvgVEKLRIEHQTITTPSKKKIEIS 85
Cdd:PRK14961   9 KWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAwLLSGTRGVGKTT----IARLL----AKSLNCQNGITSNPCRKCIICK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  86 TIASNYHLEVNPSDAgnSDRVVIQEMLKTVAQSQQLETNSQrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCC 165
Cdd:PRK14961  81 EIEKGLCLDLIEIDA--ASRTKVEEMREILDNIYYSPSKSR--FKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILAT 156

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 108773789 166 NSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCE 231
Cdd:PRK14961 157 TDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLE 222
PRK14970 PRK14970
DNA polymerase III subunits gamma and tau; Provisional
 7-272 7.62e-09

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184934 [Multi-domain]  Cd Length: 367  Bit Score: 56.04  E-value: 7.62e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKTrimCIlrelygvgveklRIEHQTITTPSkkkieIS 85
Cdd:PRK14970  10 KYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFcGPRGVGKTT---CA------------RILARKINQPG-----YD 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  86 TIASNYHLEVNPSDAGNSDRVV-IQEMLKTVAQSQQLEtnsqrDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILC 164
Cdd:PRK14970  70 DPNEDFSFNIFELDAASNNSVDdIRNLIDQVRIPPQTG-----KYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILA 144

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 165 CNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEacRVQQYPFT--- 241
Cdd:PRK14970 145 TTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFD--RVVTFCGKnit 222

                        250       260       270
                 ....*....|....*....|....*....|....
gi 108773789 242 ---ADQEIPETDWEVYLRETaNAIVSQQTPQRLL 272
Cdd:PRK14970 223 rqaVTENLNILDYDTYINVT-DLILENKIPELLL 255
PRK07940 PRK07940
DNA polymerase III subunit delta'; Validated
 108-216 1.55e-08

DNA polymerase III subunit delta'; Validated


Pssm-ID: 236134 [Multi-domain]  Cd Length: 394  Bit Score: 55.30  E-value: 1.55e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 108 IQEMLKTVAQSQQLETNSQrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAP 187
Cdd:PRK07940  99 VDEVRELVTIAARRPSTGR--WRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTP 176

                         90       100
                 ....*....|....*....|....*....
gi 108773789 188 SIEDICHVLStvckkEGLNLPSQLAHRLA 216
Cdd:PRK07940 177 SVEAVAEVLV-----RRDGVDPETARRAA 200
PRK14957 PRK14957
DNA polymerase III subunits gamma and tau; Provisional
 7-227 2.26e-07

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184921 [Multi-domain]  Cd Length: 546  Bit Score: 52.01  E-value: 2.26e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKT--RIMC-ILRELYGVGVEklriehqtittPSKKKI 82
Cdd:PRK14957   9 KYRPQSFAEVAGQQHALNSLVHALETQKVHHAYLFtGTRGVGKTTlgRLLAkCLNCKTGVTAE-----------PCNKCE 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  83 EISTIASNYHLEVNPSDAgnSDRVVIQEMLKTVAQSQQLEtnSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK14957  78 NCVAINNNSFIDLIEIDA--ASRTGVEETKEILDNIQYMP--SQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFI 153

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 108773789 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14957 154 LATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDAL 218
PRK14953 PRK14953
DNA polymerase III subunits gamma and tau; Provisional
 129-227 3.38e-07

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237867 [Multi-domain]  Cd Length: 486  Bit Score: 51.36  E-value: 3.38e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 129 FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLP 208
Cdd:PRK14953 120 YKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYE 199

                         90
                 ....*....|....*....
gi 108773789 209 SQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14953 200 EKALDLLAQASEGGMRDAA 218
PRK14971 PRK14971
DNA polymerase III subunit gamma/tau;
129-272 3.54e-07

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237874 [Multi-domain]  Cd Length: 614  Bit Score: 51.31  E-value: 3.54e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 129 FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLP 208
Cdd:PRK14971 122 YKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAE 201

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 108773789 209 SQLAHRLAEKSCRNLRKALLMCEacrvQQYPFTAD----QEIPET----DWEVYLRETaNAIVSQQTPQRLL 272
Cdd:PRK14971 202 PEALNVIAQKADGGMRDALSIFD----QVVSFTGGnityKSVIENlnilDYDYYFRLT-DALLAGKVSDSLL 268
DNA_pol3_delta2 pfam13177
DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required ...
 18-188 6.68e-07

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: 48.36  E-value: 6.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   18 YHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTRIMCILRELYGvgvEKLRIEHQTITTPSKKKIEistiaSNYHLEVN 96
Cdd:pfam13177   1 GQPEAIQLLQNSLENGRLSHaYLFSGPEGVGKLELALAFAKALFC---EEPGDDLPCGQCRSCRRIE-----SGNHPDLV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   97 P-SDAGNSDRV-VIQEMLKTVAQSQqLETNsqrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPP 174
Cdd:pfam13177  73 IiEPEGQSIKIdQIRELQKEFSKSP-YEGK----KKVYIIEDAEKMTASAANSLLKFLEEPPGNTVIILLTENPSRLLPT 147

                         170
                  ....*....|....
gi 108773789  175 IRSRCLAVRVPAPS 188
Cdd:pfam13177 148 IRSRCQIIRFKPLS 161
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 37-190 2.30e-06

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: 46.60  E-value: 2.30e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789    37 HLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIEHQTITTPSKKKIeistiasnyHLEVNPSDAGNSDRVVIQEMLKTVA 116
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQL---------LLIIVGGKKASGSGELRLRLALALA 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   117 QsqqletnsQRDFKVVLLTEVDKLTKDAQHALRR--------TMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPS 188
Cdd:smart00382  75 R--------KLKPDVLILDEITSLLDAEQEALLLlleelrllLLLKSEKNLTVILTTNDEKDLGPALLRRRFDRRIVLLL 146


                   ..
gi 108773789   189 IE 190
Cdd:smart00382 147 IL 148
PRK14956 PRK14956
DNA polymerase III subunits gamma and tau; Provisional
 7-231 3.95e-06

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184920 [Multi-domain]  Cd Length: 484  Bit Score: 48.02  E-value: 3.95e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKTrimcILRELygvgVEKLRIEHQTITTPSKKK---I 82
Cdd:PRK14956  11 KYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFfGPRGVGKTT----IARIL----AKRLNCENPIGNEPCNECtscL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  83 EISTIASNYHLEVNPsdAGNSDRVVIQEMLKTVAQSQQletnsQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK14956  83 EITKGISSDVLEIDA--ASNRGIENIRELRDNVKFAPM-----GGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFI 155

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 108773789 163 LCCNSTSKVIPPIRSRC---LAVRVPAPSIEDichVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCE 231
Cdd:PRK14956 156 LATTEFHKIPETILSRCqdfIFKKVPLSVLQD---YSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFME 224
PRK14960 PRK14960
DNA polymerase III subunit gamma/tau;
7-227 4.66e-06

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237868 [Multi-domain]  Cd Length: 702  Bit Score: 48.12  E-value: 4.66e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKTrimcILRELygvgVEKLRIEHQTITTPSKKKIEIS 85
Cdd:PRK14960   8 KYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFtGTRGVGKTT----IARIL----AKCLNCETGVTSTPCEVCATCK 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  86 TIASNYHLEVNPSDAGNSDRVV-IQEMLKTVAQSQqletnSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILC 164
Cdd:PRK14960  80 AVNEGRFIDLIEIDAASRTKVEdTRELLDNVPYAP-----TQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFA 154

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 108773789 165 CNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14960 155 TTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDAL 217
PRK05707 PRK05707
DNA polymerase III subunit delta'; Validated
 22-191 1.49e-05

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180215 [Multi-domain]  Cd Length: 328  Bit Score: 45.85  E-value: 1.49e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  22 QAAQLRNLVQCGDFPH-LLVYGPSGAGKK---TRIMCIL-----RELYGVGveklriehqtittpSKKKIEISTIAS--- 89
Cdd:PRK05707   8 QQSLWQQLAGRGRHPHaYLLHGPAGIGKRalaERLAAALlceapQGGGACG--------------SCKGCQLLRAGShpd 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  90 NYHLEvnPSDAGNSDRV-VIQEMLKTVAQSQQletnsQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNST 168
Cdd:PRK05707  74 NFVLE--PEEADKTIKVdQVRELVSFVVQTAQ-----LGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQP 146

                        170       180
                 ....*....|....*....|...
gi 108773789 169 SKVIPPIRSRCLAVRVPAPSIED 191
Cdd:PRK05707 147 SRLLPTIKSRCQQQACPLPSNEE 169
PRK05564 PRK05564
DNA polymerase III subunit delta'; Validated
 128-192 1.90e-05

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180132 [Multi-domain]  Cd Length: 313  Bit Score: 45.41  E-value: 1.90e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 108773789 128 DFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDI 192
Cdd:PRK05564  93 DKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEI 157
PRK14964 PRK14964
DNA polymerase III subunits gamma and tau; Provisional
 7-231 2.87e-05

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237870 [Multi-domain]  Cd Length: 491  Bit Score: 45.16  E-value: 2.87e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKT--RI--MCilrelygvgvekLRIEHQTITTPSKKK 81
Cdd:PRK14964   6 KYRPSSFKDLVGQDVLVRILRNAFTLNKIPQsILLVGASGVGKTTcaRIisLC------------LNCSNGPTSDPCGTC 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  82 IEISTIASNYHLEVNPSDAGNSDRV----VIQEmlktvaQSQQLETNSQrdFKVVLLTEVDKLTKDAQHALRRTMEKYMS 157
Cdd:PRK14964  74 HNCISIKNSNHPDVIEIDAASNTSVddikVILE------NSCYLPISSK--FKVYIIDEVHMLSNSAFNALLKTLEEPAP 145

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 108773789 158 TCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCE 231
Cdd:PRK14964 146 HVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLE 219
PRK08691 PRK08691
DNA polymerase III subunits gamma and tau; Validated
 7-222 8.15e-05

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236333 [Multi-domain]  Cd Length: 709  Bit Score: 43.93  E-value: 8.15e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTrimcILRELygvgVEKLRIEHQTITTPSKKKIEIS 85
Cdd:PRK08691   9 KWRPKTFADLVGQEHVVKALQNALDEGRLHHaYLLTGTRGVGKTT----IARIL----AKSLNCENAQHGEPCGVCQSCT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  86 TIASNYHLEVNPSDAGNSDRVviqEMLKTVAQSQQLETNSQRdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCC 165
Cdd:PRK08691  81 QIDAGRYVDLLEIDAASNTGI---DNIREVLENAQYAPTAGK-YKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILAT 156

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 166 NSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPS---QLAHRLAEKSCRN 222
Cdd:PRK08691 157 TDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYEPpalQLLGRAAAGSMRD 216
PRK04132 PRK04132
replication factor C small subunit; Provisional
 4-48 1.24e-04

replication factor C small subunit; Provisional


Pssm-ID: 235223 [Multi-domain]  Cd Length: 846  Bit Score: 43.67  E-value: 1.24e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 108773789   4 WVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGK 48
Cdd:PRK04132   9 WVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGK 53
PRK14963 PRK14963
DNA polymerase III subunits gamma and tau; Provisional
 130-222 1.29e-04

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184927 [Multi-domain]  Cd Length: 504  Bit Score: 43.29  E-value: 1.29e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 130 KVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPS 209
Cdd:PRK14963 118 KVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREAEP 197

                         90
                 ....*....|....*.
gi 108773789 210 ---QLAHRLAEKSCRN 222
Cdd:PRK14963 198 ealQLVARLADGAMRD 213
PRK06305 PRK06305
DNA polymerase III subunits gamma and tau; Validated
 87-226 1.73e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 180523 [Multi-domain]  Cd Length: 451  Bit Score: 42.84  E-value: 1.73e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  87 IASNYHLEVNPSDaGNSDRVV--IQEMLKTVaqsqqLETNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILC 164
Cdd:PRK06305  84 ISSGTSLDVLEID-GASHRGIedIRQINETV-----LFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLA 157

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 108773789 165 CNSTSKVIPPIRSRC---LAVRVPAPSIEDichVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKA 226
Cdd:PRK06305 158 TTEIHKIPGTILSRCqkmHLKRIPEETIID---KLALIAKQEGIETSREALLPIARAAQGSLRDA 219
PRK06645 PRK06645
DNA polymerase III subunits gamma and tau; Validated
 39-234 2.08e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 180643 [Multi-domain]  Cd Length: 507  Bit Score: 42.54  E-value: 2.08e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  39 LVYGPSGAGKKTRIMCILRelyGVGVEKLRIEHQTITTPSKKKIEIStIASNYHLEVNPSDAGNSDRVviqEMLKTVAQS 118
Cdd:PRK06645  47 LLTGIRGVGKTTSARIIAK---AVNCSALITENTTIKTCEQCTNCIS-FNNHNHPDIIEIDAASKTSV---DDIRRIIES 119

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 119 QQLETnSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLST 198
Cdd:PRK06645 120 AEYKP-LQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEY 198

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 108773789 199 VCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACR 234
Cdd:PRK06645 199 ITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAA 234
PRK07132 PRK07132
DNA polymerase III subunit delta'; Validated
 121-192 2.41e-04

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180855 [Multi-domain]  Cd Length: 299  Bit Score: 42.02  E-value: 2.41e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 108773789 121 LETNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDI 192
Cdd:PRK07132  83 FSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKI 154
HLD_clamp_RFC cd18140
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein ...
 187-252 2.77e-04

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: 38.28  E-value: 2.77e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 108773789 187 PSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACRVQqypftaDQEIPETDWE 252
Cdd:cd18140    1 LSKEQIVKRLREICKKEGVKIDEEALEAIAEKSEGDMRKAINDLQAAAAG------GGVITEEDVY 60
PRK14969 PRK14969
DNA polymerase III subunits gamma and tau; Provisional
 129-227 3.07e-04

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237873 [Multi-domain]  Cd Length: 527  Bit Score: 42.04  E-value: 3.07e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 129 FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAV---RVPAPSI-EDICHVLStvckKEG 204
Cdd:PRK14969 120 FKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFnlkQMPPPLIvSHLQHILE----QEN 195

                         90       100
                 ....*....|....*....|...
gi 108773789 205 LNLPSQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14969 196 IPFDATALQLLARAAAGSMRDAL 218
PRK09112 PRK09112
DNA polymerase III subunit delta'; Validated
 123-229 6.60e-04

DNA polymerase III subunit delta'; Validated


Pssm-ID: 169667 [Multi-domain]  Cd Length: 351  Bit Score: 40.79  E-value: 6.60e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789 123 TNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVckk 202
Cdd:PRK09112 136 TSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHL--- 212

                         90       100
                 ....*....|....*....|....*....
gi 108773789 203 eGLNLPSQLAHR--LAEKSCRNLRKALLM 229
Cdd:PRK09112 213 -GSSQGSDGEITeaLLQRSKGSVRKALLL 240
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
 3-164 9.72e-04

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: 40.71  E-value: 9.72e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789    3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-----LLVYGPSGAGKKTRIMCILRELygvgVEKLR--IEHQTIT 75
Cdd:TIGR00602  73 PWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENapkriLLITGPSGCGKSTTIKILSKEL----GIQVQewSNPTLPD 148

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   76 TPSKKKIEISTIASNYHLEVnpsdagnSDRVVIQEMLKTVAQS-QQLETNSQRDFKVVLLTEVDK---LTKDAQHALRRT 151
Cdd:TIGR00602 149 FQKNDHKVTLSLESCFSNFQ-------SQIEVFSEFLLRATNKlQMLGDDLMTDKKIILVEDLPNqfyRDTRALHEILRW 221

                         170
                  ....*....|...
gi 108773789  152 MEKYMSTCRLILC 164
Cdd:TIGR00602 222 KYVSIGRCPLVFI 234
Rad17 pfam03215
Rad17 P-loop domain;
3-169 1.16e-03

Rad17 P-loop domain;


Pssm-ID: 367398 [Multi-domain]  Cd Length: 186  Bit Score: 39.17  E-value: 1.16e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789    3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-----LLVYGPSGAGKKTRIMCILRELygvgVEKLR--IEHQTIT 75
Cdd:pfam03215   8 QWYEKYKPNCLEQLAVHKRKIKDVQEWLDAMFLENakhriLLISGPSGCGKSTVIKELSKEL----GPKYRewSNPTSFR 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   76 TPSKKKieistiaSNYHLEVNPSDAGNSDRVVIQEMLKTVAQS---QQLETNSQRDFKVVLLTEVDKLTKDAQHALRRTM 152
Cdd:pfam03215  84 SPPNQV-------TDFRGDCIVNSRFLSQMESFSEFELKGARYlvmQKRGKNAQGNKKLILIEDLPNVFHIDTRRFQQVI 156

                         170       180
                  ....*....|....*....|...
gi 108773789  153 EKYMSTCR---LILC---CNSTS 169
Cdd:pfam03215 157 RQWLYSSEplpLIICiteCEILE 179
PRK14950 PRK14950
DNA polymerase III subunits gamma and tau; Provisional
 7-227 3.61e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237864 [Multi-domain]  Cd Length: 585  Bit Score: 39.02  E-value: 3.61e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTrimcilrelygvgVEKLRIEHQTITTPSKKKIEIS 85
Cdd:PRK14950   9 KWRSQTFAELVGQEHVVQTLRNAIAEGRVAHaYLFTGPRGVGKTS-------------TARILAKAVNCTTNDPKGRPCG 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789  86 T------IASNYHLEVNPSDAGNSDRVV-IQEMLKTVAQSQqletnSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMST 158
Cdd:PRK14950  76 TcemcraIAEGSAVDVIEMDAASHTSVDdAREIIERVQFRP-----ALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPH 150

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 108773789 159 CRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14950 151 AIFILATTEVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAE 219
AAA_22 pfam13401
AAA domain;
37-164 6.63e-03

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 36.17  E-value: 6.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 108773789   37 HLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIehqTITTPSKKKIEISTIASNYHLEVNpsdagnsDRVVIQEMLKTVA 116
Cdd:pfam13401   7 ILVLTGESGTGKTTLLRRLLEQLPEVRDSVVFV---DLPSGTSPKDLLRALLRALGLPLS-------GRLSKEELLAALQ 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 108773789  117 qsQQLetNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILC 164
Cdd:pfam13401  77 --QLL--LALAVAVVLIIDEAQHLSLEALEELRDLLNLSSKLLQLILV 120
 
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.
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