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Conserved domains on  [gi|217416415|ref|NP_002869|]
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DNA repair protein RAD51 homolog 4 isoform 1 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 94-298 2.86e-82

RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51D, together with the other RAD51 paralogs, RAD51B, RAD51C, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


:

Pssm-ID: 410897 [Multi-domain]  Cd Length: 209  Bit Score: 247.93  E-value: 2.86e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  94 DAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAHGLQQNVLYVDSNGGLTASRLLQLLQAKTQDEEEQAEALRRIQVVHAF 173
Cdd:cd19489    1 GGGLRTGEITELVGESSSGKTQLCLTAAANVASRSGQNVLYIDTKSSFSARRLAQILKSRAQDAEEIDKALQRIRVVRVF 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 174 DIFQMLDVLQELRGTVAQQVTGSSGTVKVVVVDSVTAVVSPLLGGQQR-EGLALMMQLARELKTLARDLGMAVVVTNHIT 252
Cdd:cd19489   81 DPYELLDLLEELRNTLSQQQENLYSRLKLVIIDSLSALISPLLGGSKHsEGHALLASLARLLKKLAAEYQIAVLVTNLTV 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 217416415 253 RDRDSG---RLKPALGRSWSFVPSTRILLDTIEGAGASGGRRMACLAKS 298
Cdd:cd19489  161 RGGDGGqqgSTKPALGEYWESVPSTRLLLSRDENDPEESGVCTATLLKS 209
PRK09302 super family cl35809
circadian clock protein KaiC; Reviewed
 61-114 2.58e-03

circadian clock protein KaiC; Reviewed


The actual alignment was detected with superfamily member PRK09302:

Pssm-ID: 236461 [Multi-domain]  Cd Length: 509  Bit Score: 39.48  E-value: 2.58e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 217416415  61 FSAFPVNGADLyeELKTSTAILSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKT 114
Cdd:PRK09302 236 ISVLPLTAMRL--TQRSSNERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKT 287
 
Name Accession Description Interval E-value
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 94-298 2.86e-82

RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51D, together with the other RAD51 paralogs, RAD51B, RAD51C, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410897 [Multi-domain]  Cd Length: 209  Bit Score: 247.93  E-value: 2.86e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  94 DAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAHGLQQNVLYVDSNGGLTASRLLQLLQAKTQDEEEQAEALRRIQVVHAF 173
Cdd:cd19489    1 GGGLRTGEITELVGESSSGKTQLCLTAAANVASRSGQNVLYIDTKSSFSARRLAQILKSRAQDAEEIDKALQRIRVVRVF 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 174 DIFQMLDVLQELRGTVAQQVTGSSGTVKVVVVDSVTAVVSPLLGGQQR-EGLALMMQLARELKTLARDLGMAVVVTNHIT 252
Cdd:cd19489   81 DPYELLDLLEELRNTLSQQQENLYSRLKLVIIDSLSALISPLLGGSKHsEGHALLASLARLLKKLAAEYQIAVLVTNLTV 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 217416415 253 RDRDSG---RLKPALGRSWSFVPSTRILLDTIEGAGASGGRRMACLAKS 298
Cdd:cd19489  161 RGGDGGqqgSTKPALGEYWESVPSTRLLLSRDENDPEESGVCTATLLKS 209
recomb_radA TIGR02236
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ...
 10-315 1.51e-19

DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 131290 [Multi-domain]  Cd Length: 310  Bit Score: 87.11  E-value: 1.51e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415   10 PGLTEEMIQLLRSHRIKTVVDLVSADLEEVAQKCGLS----YKALVALRRvlLAQFSAFpVNGADLYEELKTSTAIlSTG 85
Cdd:TIGR02236   5 PGVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISegtaAKIIQAARK--AADLGGF-ETADDVLERRKTIGKI-TTG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415   86 IGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAH-----GLQQNVLYVDSNGGLTASRLLQLLQAKTQDEEeq 160
Cdd:TIGR02236  81 SKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLpeekgGLGGKAVYIDTENTFRPERIMQMAEARGLDPD-- 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  161 aEALRRIQVVHAFDI-FQML------DVLQELRGTVAQQVTGSsgtvkvvvvdSVTAVVSPLLGgqqREGLALMMQ-LAR 232
Cdd:TIGR02236 159 -EVLKNIYVARAYNSnHQMLlvekaeDLIKELNNPVKLLIVDS----------LTSHFRAEYVG---RGALAERQQkLNK 224

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  233 ELKTLAR--DL-GMAVVVTNHITRDRDS---GRLKPALGRSWSFVPSTRILLDTiegagASGGRRMACLAKSSRQPTGfQ 306
Cdd:TIGR02236 225 HLHDLLRlaDLyNAAVVVTNQVMARPDAffgDPTRPIGGHILGHAATFRVYLRK-----GKGDKRIARLVDSPHLPEG-E 298


                  ....*....
gi 217416415  307 EMVDIGTWG 315
Cdd:TIGR02236 299 AVFRITEKG 307
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 82-269 3.90e-19

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 84.53  E-value: 3.90e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVA-HGlqQNVLYVDSNgGLTASRLLQLLqaktqdEEEQ 160
Cdd:PRK09361   5 LPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAkNG--KKVIYIDTE-GLSPERFKQIA------GEDF 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 161 AEALRRIQVVHAFDIFQMLDVLQELRGTVAQQV--------TGssgtvkvvvvdsvtavVSPLLGGQQREGLALMMQLAR 232
Cdd:PRK09361  76 EELLSNIIIFEPSSFEEQSEAIRKAEKLAKENVglivldsaTS----------------LYRLELEDEEDNSKLNRELGR 139

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 217416415 233 ELKTL---ARDLGMAVVVTNHITRDRDSGRLKPALGRS---WS 269
Cdd:PRK09361 140 QLTHLlklARKHDLAVVITNQVYSDIDSDGLRPLGGHTlehWS 182
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 82-278 3.53e-14

Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ATPase RecA protein.


Pssm-ID: 462471 [Multi-domain]  Cd Length: 255  Bit Score: 71.18  E-value: 3.53e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415   82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVC--LCMAANVA---HGLQQNVLYVDSNGGLTASRLLQLLQAKTQD 156
Cdd:pfam08423  19 ITTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLChtLCVTCQLPlemGGGEGKALYIDTEGTFRPERLVAIAERYGLD 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  157 EEeqaEALRRIQVVHAFDIFQMLDVLQELRGTVAQQV--------------TGSSGtvkvvvvdsvtavVSPLLGGQQRE 222
Cdd:pfam08423  99 PE---DVLDNVAYARAYNSEHQMQLLQQAAAMMSESRfallivdsatalyrTDFSG-------------RGELAERQQHL 162

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 217416415  223 GlalmmQLARELKTLARDLGMAVVVTNHITRDRDSGRL-------KPALGRSWSFVPSTRILL 278
Cdd:pfam08423 163 A-----KFLRTLQRLADEFGVAVVITNQVVAQVDGAAGmfsgdpkKPIGGHIMAHASTTRLSL 220
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
82-135 2.14e-06

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 47.99  E-value: 2.14e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANvahGLQQN--VLYV 135
Cdd:COG0467    2 VPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTLALQFLAE---GLRRGekGLYV 54
PRK09302 PRK09302
circadian clock protein KaiC; Reviewed
 61-114 2.58e-03

circadian clock protein KaiC; Reviewed


Pssm-ID: 236461 [Multi-domain]  Cd Length: 509  Bit Score: 39.48  E-value: 2.58e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 217416415  61 FSAFPVNGADLyeELKTSTAILSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKT 114
Cdd:PRK09302 236 ISVLPLTAMRL--TQRSSNERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKT 287
 
Name Accession Description Interval E-value
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 94-298 2.86e-82

RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51D, together with the other RAD51 paralogs, RAD51B, RAD51C, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410897 [Multi-domain]  Cd Length: 209  Bit Score: 247.93  E-value: 2.86e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  94 DAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAHGLQQNVLYVDSNGGLTASRLLQLLQAKTQDEEEQAEALRRIQVVHAF 173
Cdd:cd19489    1 GGGLRTGEITELVGESSSGKTQLCLTAAANVASRSGQNVLYIDTKSSFSARRLAQILKSRAQDAEEIDKALQRIRVVRVF 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 174 DIFQMLDVLQELRGTVAQQVTGSSGTVKVVVVDSVTAVVSPLLGGQQR-EGLALMMQLARELKTLARDLGMAVVVTNHIT 252
Cdd:cd19489   81 DPYELLDLLEELRNTLSQQQENLYSRLKLVIIDSLSALISPLLGGSKHsEGHALLASLARLLKKLAAEYQIAVLVTNLTV 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 217416415 253 RDRDSG---RLKPALGRSWSFVPSTRILLDTIEGAGASGGRRMACLAKS 298
Cdd:cd19489  161 RGGDGGqqgSTKPALGEYWESVPSTRLLLSRDENDPEESGVCTATLLKS 209
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 100-280 1.54e-43

RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs RadA and RadB.


Pssm-ID: 410881 [Multi-domain]  Cd Length: 185  Bit Score: 147.88  E-value: 1.54e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 100 GEVTEIVGGPGSGKTQVCLCMAANVAHgLQQNVLYVDSNGGLTASRLLQLLQAKTQDEEEQAEALRRIQVVHAFDifqml 179
Cdd:cd01393    1 GKITEIYGPPGSGKTQLALQLAANALL-LGGGVVWIDTEGAFPPSRLVQILEASPSSELELAEALSRLLYFRPPD----- 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 180 DVLQELRGTVAQQVTGSSGTVKVVVVDSVTAVVSPLLGGQ------QREGLALMMQLARELKTLARDLGMAVVVTNHITR 253
Cdd:cd01393   75 TLAHLLALDSLPESLFPPPNTSLVVVDSVSALFRKAFPRGgdgdssSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTT 154

                        170       180       190
                 ....*....|....*....|....*....|.
gi 217416415 254 DRDSG----RLKPALGRSWSFVPSTRILLDT 280
Cdd:cd01393  155 KIRGGsgasLVPPALGNTWEHSVSTRLLLYR 185
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 90-299 1.78e-23

RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51B, together with the other RAD51 paralogs, RAD51C, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410901 [Multi-domain]  Cd Length: 222  Bit Score: 96.23  E-value: 1.78e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  90 DKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVA-----HGLQQNVLYVDSNGGLTASRLLQLLQAKT--------QD 156
Cdd:cd19493    1 DTALAGGLPLGAITEITGASGSGKTQFALTLASSAAmparkGGLDGGVLYIDTESKFSAERLAEIAEARFpeafsgfmEE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 157 EEEQAEALRRIQVVHAFDIFQMLDVLQELRGTVAQQVTGSSGTVKVVVVDSVTAVVSPLLGGQQREGLAlmmQLARELKT 236
Cdd:cd19493   81 NERAEEMLKRVAVVRVTTLAQLLERLPNLEEHILSSGVRLVVIDSIAALVRREFGGSDGEVTERHNALA---REASSLKR 157

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 217416415 237 LARDLGMAVVVTNHITR-----DRDSGRLKPALGRSWSFVPSTRILLDtiegAGASGGRRMACLAKSS 299
Cdd:cd19493  158 LAEEFRIAVLVTNQATThfgdaGDGSSGVTAALGDAWAHAVNTRLRLE----RCLLQLRRVLEIVKSP 221
Rad51C cd19492
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 100-299 1.35e-19

RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51C, together with the other RAD51 paralogs, RAD51B, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site. Additionally, RAD51C acts as a mediator in the early steps of DNA damage signaling.


Pssm-ID: 410900 [Multi-domain]  Cd Length: 172  Bit Score: 84.20  E-value: 1.35e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 100 GEVTEIVGGPGSGKTQVCLCMAANV-----AHGLQQNVLYVDSNGG-------------LTAsrLLQLLQAKTQDEEEQa 161
Cdd:cd19492    1 GKITEICGVPGVGKTQLCMQLAVNVqipkcFGGLAGEAIYIDTEGSfnihyfrvhdyveLLA--LINSLPKFLEDHPKV- 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 162 ealrRIQVVH--AFDIFQMLDVLqelrgtvaqqvtgssgtvkvvvvdsvtavvspllgGQQREglaLMMQLARELKTLAR 239
Cdd:cd19492   78 ----KLIVVDsiAFPFRHDFDDL-----------------------------------AQRTR---LLNGLAQLLHSLAR 115

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 217416415 240 DLGMAVVVTNHIT---RDRDSGRLKPALGRSWSFVPSTRILLdtiegaGASGGRRMACLAKSS 299
Cdd:cd19492  116 QHNLAVVLTNQVTtkiSEDGQSQLVPALGESWSHACTTRLFL------TWDEKQRFAHLYKSP 172
recomb_radA TIGR02236
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ...
 10-315 1.51e-19

DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 131290 [Multi-domain]  Cd Length: 310  Bit Score: 87.11  E-value: 1.51e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415   10 PGLTEEMIQLLRSHRIKTVVDLVSADLEEVAQKCGLS----YKALVALRRvlLAQFSAFpVNGADLYEELKTSTAIlSTG 85
Cdd:TIGR02236   5 PGVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISegtaAKIIQAARK--AADLGGF-ETADDVLERRKTIGKI-TTG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415   86 IGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAH-----GLQQNVLYVDSNGGLTASRLLQLLQAKTQDEEeq 160
Cdd:TIGR02236  81 SKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLpeekgGLGGKAVYIDTENTFRPERIMQMAEARGLDPD-- 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  161 aEALRRIQVVHAFDI-FQML------DVLQELRGTVAQQVTGSsgtvkvvvvdSVTAVVSPLLGgqqREGLALMMQ-LAR 232
Cdd:TIGR02236 159 -EVLKNIYVARAYNSnHQMLlvekaeDLIKELNNPVKLLIVDS----------LTSHFRAEYVG---RGALAERQQkLNK 224

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  233 ELKTLAR--DL-GMAVVVTNHITRDRDS---GRLKPALGRSWSFVPSTRILLDTiegagASGGRRMACLAKSSRQPTGfQ 306
Cdd:TIGR02236 225 HLHDLLRlaDLyNAAVVVTNQVMARPDAffgDPTRPIGGHILGHAATFRVYLRK-----GKGDKRIARLVDSPHLPEG-E 298


                  ....*....
gi 217416415  307 EMVDIGTWG 315
Cdd:TIGR02236 299 AVFRITEKG 307
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 82-269 3.90e-19

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 84.53  E-value: 3.90e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVA-HGlqQNVLYVDSNgGLTASRLLQLLqaktqdEEEQ 160
Cdd:PRK09361   5 LPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAkNG--KKVIYIDTE-GLSPERFKQIA------GEDF 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 161 AEALRRIQVVHAFDIFQMLDVLQELRGTVAQQV--------TGssgtvkvvvvdsvtavVSPLLGGQQREGLALMMQLAR 232
Cdd:PRK09361  76 EELLSNIIIFEPSSFEEQSEAIRKAEKLAKENVglivldsaTS----------------LYRLELEDEEDNSKLNRELGR 139

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 217416415 233 ELKTL---ARDLGMAVVVTNHITRDRDSGRLKPALGRS---WS 269
Cdd:PRK09361 140 QLTHLlklARKHDLAVVITNQVYSDIDSDGLRPLGGHTlehWS 182
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
 82-311 9.07e-18

archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional homologue to the bacterial RecA. The precise function of RadB is unclear.


Pssm-ID: 410882 [Multi-domain]  Cd Length: 216  Bit Score: 80.44  E-value: 9.07e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVA-HGLqqNVLYVDSNgGLTASRLLQLLqaktqdEEEQ 160
Cdd:cd01394    1 LSTGSKSLDSLLGGGVERGTITQIYGPPGSGKTNICLQLAVEAAkQGK--KVVYIDTE-GLSPERFQQIA------GERF 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 161 AEALRRIQVVHAFDIFQMLDVLQELRGTVAQQVTG----SSGTVKVVVVDSVTAVVSPLLGGQqregLALMMQLARElkt 236
Cdd:cd01394   72 ESIASNIIVFEPYSFDEQGVAIQEAEKLLKSDKVDlvvvDSATALYRLELGDDSEANRELSRQ----MSKLLSIARK--- 144

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 217416415 237 laRDLgmAVVVTNHITRDRDSGRLKPALGRSWSFVPSTRILLDTIEgagasGGRRMACLAKSSRQPTGFQEMVDI 311
Cdd:cd01394  145 --YDI--PVVITNQVYSDIDDDRLKPVGGTLLEHWSKAIIRLEKSP-----PGLRRATLEKHRSRPEGQSAGFRI 210
radA PRK04301
DNA repair and recombination protein RadA; Validated
 10-185 5.31e-17

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 80.31  E-value: 5.31e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  10 PGLTEEMIQLLRSHRIKTVVDLVSADLEEVAQKCGLSYKA----LVALRRVL-LAQFsafpVNGADLYEELKtSTAILST 84
Cdd:PRK04301  12 PGVGPATAEKLREAGYDTVEAIAVASPKELSEAAGIGESTaakiIEAAREAAdIGGF----ETALEVLERRK-NVGKITT 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  85 GIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANV-----AHGLQQNVLYVDSNGGLTASRLLQLLQAKTQDEEe 159
Cdd:PRK04301  87 GSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVqlpeeKGGLEGKAVYIDTEGTFRPERIEQMAEALGLDPD- 165

                        170       180
                 ....*....|....*....|....*....
gi 217416415 160 qaEALRRIQVVHAFDI-FQML--DVLQEL 185
Cdd:PRK04301 166 --EVLDNIHVARAYNSdHQMLlaEKAEEL 192
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
 82-315 1.22e-15

archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a homolog of Rad51. RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR)


Pssm-ID: 410923 [Multi-domain]  Cd Length: 233  Bit Score: 75.09  E-value: 1.22e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVA-----HGLQQNVLYVDSNGGLTASRLLQLLQAKTQD 156
Cdd:cd19515    1 ISTGSKELDKLLGGGIETQAITEVFGEFGSGKTQLCHQLAVNVQlppeeGGLNGKAVYIDTENTFRPERIMQMAKALGLD 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 157 EEeqaEALRRIQVVHAFDI-FQML------DVLQELRGT---VAQQVTGssgtvkvvvvdsvtAVVSPLLGgqqREGLAL 226
Cdd:cd19515   81 PD---EVLDNIYVARAYNSnHQMLlvekaeDLIKEGNNIkllIVDSLTS--------------HFRAEYVG---RGTLAE 140

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 227 MMQ-LARELKTLAR--DL-GMAVVVTNHITRDRDS---GRLKPALGRSWSFVPSTRILLDTiegagASGGRRMACLAKSS 299
Cdd:cd19515  141 RQQkLNKHLHDLHRlaDLyNIAVLVTNQVMAKPDAffgDPTQAIGGHILGHAATFRVYLRK-----GKGGKRIARLVDSP 215

                        250
                 ....*....|....*.
gi 217416415 300 RQPTGfQEMVDIGTWG 315
Cdd:cd19515  216 HLPEG-EAVFRITEKG 230
XRCC3 cd19491
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ...
 89-278 8.55e-15

XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells 3) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC3, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410899 [Multi-domain]  Cd Length: 250  Bit Score: 72.71  E-value: 8.55e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  89 LDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANV-----AHGLQQNVLYVDSNGGLTASRLLQLLQ--AKTQDEEEQA 161
Cdd:cd19491    1 LDELLGGGIPVGGITEIAGESGAGKTQLCLQLALTVqlpreLGGLGGGAVYICTESSFPSKRLQQLASslPKRYHLEKAK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 162 EALRRIQVVHAFDIFQMLDVLQelrgtvaQQVtgssgtvkvvvvdsvtavvsPLLGGQQREGL----------------- 224
Cdd:cd19491   81 NFLDNIFVEHVADLETLEHCLN-------YQL--------------------PALLERGPIRLvvidsiaalfrsefdts 133

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 225 --------ALMMQLARELKTLARDLGMAVVVTNHIT-------------------------RDRDSGRLKPALGRSWSFV 271
Cdd:cd19491  134 rsdlveraKYLRRLADHLKRLADKYNLAVVVVNQVTdrfdsssdasglgvldylsqfssfsGGVSGNRKVPALGLTWANL 213


                 ....*..
gi 217416415 272 PSTRILL 278
Cdd:cd19491  214 VNTRLML 220
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 82-278 3.53e-14

Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ATPase RecA protein.


Pssm-ID: 462471 [Multi-domain]  Cd Length: 255  Bit Score: 71.18  E-value: 3.53e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415   82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVC--LCMAANVA---HGLQQNVLYVDSNGGLTASRLLQLLQAKTQD 156
Cdd:pfam08423  19 ITTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLChtLCVTCQLPlemGGGEGKALYIDTEGTFRPERLVAIAERYGLD 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  157 EEeqaEALRRIQVVHAFDIFQMLDVLQELRGTVAQQV--------------TGSSGtvkvvvvdsvtavVSPLLGGQQRE 222
Cdd:pfam08423  99 PE---DVLDNVAYARAYNSEHQMQLLQQAAAMMSESRfallivdsatalyrTDFSG-------------RGELAERQQHL 162

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 217416415  223 GlalmmQLARELKTLARDLGMAVVVTNHITRDRDSGRL-------KPALGRSWSFVPSTRILL 278
Cdd:pfam08423 163 A-----KFLRTLQRLADEFGVAVVITNQVVAQVDGAAGmfsgdpkKPIGGHIMAHASTTRLSL 220
Rad51_DMC1_archRadA cd01123
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ...
 82-304 2.40e-12

recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal protein RadA. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .


Pssm-ID: 410868 [Multi-domain]  Cd Length: 234  Bit Score: 65.63  E-value: 2.40e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANV-----AHGLQQNVLYVDSNGGLTASRLLQLLQAKTQD 156
Cdd:cd01123    1 ITTGSKELDKLLGGGIETGSITEMFGEFRTGKTQLCHTLAVTCqlpidRGGGEGKAIYIDTEGTFRPERLRAIAQRFGLD 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 157 EEeqaEALRRIQVVHAFDIFQMLDVLQElrgtvAQQVTGSSGTVKVVVVDSVTAVVSPLLG-GQQREGLALMMQLARELK 235
Cdd:cd01123   81 PD---DVLDNVAYARAFNSDHQTQLLDQ-----AAAMMVESRFKLLIVDSATALYRTDYSGrGELSARQMHLAKFLRMLQ 152

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 217416415 236 TLARDLGMAVVVTNHITRDRDSGRL------KPALGRSWSFVPSTRILLDTiegagASGGRRMACLAKSSRQPTG 304
Cdd:cd01123  153 RLADEFGVAVVVTNQVVAQVDGAMMfaadpkKPIGGNILAHASTTRLYLRK-----GRGETRICKIYDSPCLPEA 222
PLN03186 PLN03186
DNA repair protein RAD51 homolog; Provisional
 17-278 2.39e-10

DNA repair protein RAD51 homolog; Provisional


Pssm-ID: 178728 [Multi-domain]  Cd Length: 342  Bit Score: 60.90  E-value: 2.39e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  17 IQLLRSHRIKTVVDLVSADLEEVAQKCGLS-YKALvalrRVLLAQFSAFPV---NGADLYEElKTSTAILSTGIGSLDKL 92
Cdd:PLN03186  41 IKKLKDAGIHTVESLAYAPKKDLLQIKGISeAKVE----KILEAASKLVPLgftTASQLHAQ-RQEIIQITTGSRELDKI 115

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  93 LDAGLYTGEVTEIVGGPGSGKTQVC--LCMAANVAH---GLQQNVLYVDSNGGLTASRLLQLLQ---------------A 152
Cdd:PLN03186 116 LEGGIETGSITEIYGEFRTGKTQLChtLCVTCQLPLdqgGGEGKAMYIDTEGTFRPQRLIQIAErfglngadvlenvayA 195

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 153 KTQDEEEQAEALRRIQVVHAFDIFQMLDVlqelRGTVAQQVTGSSGtvkvvvvdsvtavvspllggqQREGLALMMQLAR 232
Cdd:PLN03186 196 RAYNTDHQSELLLEAASMMAETRFALMIV----DSATALYRTEFSG---------------------RGELSARQMHLGK 250

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 217416415 233 ELKTLAR---DLGMAVVVTNHITRDRDSG------RLKPALGRSWSFVPSTRILL 278
Cdd:PLN03186 251 FLRSLQRladEFGVAVVITNQVVAQVDGSaffagpQLKPIGGNIMAHASTTRLAL 305
XRCC2 cd19490
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ...
 100-185 6.35e-10

XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells 2) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC2, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC3, helps recruit RAD51 to the break site.


Pssm-ID: 410898 [Multi-domain]  Cd Length: 226  Bit Score: 58.51  E-value: 6.35e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 100 GEVTEIVGGPGSGKTQVCLCMAAN----------VAHGLQQNVLYVDSNGGLTASRLLQLLQAK--------------TQ 155
Cdd:cd19490    1 GDVIEITGPSGSGKTELLYHLAARcilpsswggvPLGGLEAAVVFIDTDGRFDILRLRSILEARiraaiqaanssddeED 80

                         90       100       110
                 ....*....|....*....|....*....|
gi 217416415 156 DEEEQAEALRRIQVVHAFDIFQMLDVLQEL 185
Cdd:cd19490   81 VEEIARECLQRLHIFRCHSSLQLLATLLSL 110
PTZ00035 PTZ00035
Rad51 protein; Provisional
 11-258 9.85e-10

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 58.86  E-value: 9.85e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  11 GLTEEMIQLLRSHRIKTVVDLVSADLEEVAQKCGLSY----KALVALRRVLLAQFsafpVNGADLYEeLKTSTAILSTGI 86
Cdd:PTZ00035  30 GINAADIKKLKEAGICTVESVAYATKKDLCNIKGISEakveKIKEAASKLVPMGF----ISATEYLE-ARKNIIRITTGS 104

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  87 GSLDKLLDAGLYTGEVTEIVGGPGSGKTQVC--LCMAA--NVAH-GLQQNVLYVDSNGGLTASRLLQLLQAKTQDEEeqa 161
Cdd:PTZ00035 105 TQLDKLLGGGIETGSITELFGEFRTGKTQLChtLCVTCqlPIEQgGGEGKVLYIDTEGTFRPERIVQIAERFGLDPE--- 181

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 162 EALRRIQVVHAFDIFQMLDVLQELRGTVAQQ-----VTGS---------SGtvkvvvvdsvtavVSPLLGGQQRegLALM 227
Cdd:PTZ00035 182 DVLDNIAYARAYNHEHQMQLLSQAAAKMAEErfallIVDSatalfrvdySG-------------RGELAERQQH--LGKF 246

                        250       260       270
                 ....*....|....*....|....*....|.
gi 217416415 228 MqlaRELKTLARDLGMAVVVTNHITRDRDSG 258
Cdd:PTZ00035 247 L---RALQKLADEFNVAVVITNQVMADVDGA 274
recomb_RAD51 TIGR02239
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ...
 82-256 2.01e-09

DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).


Pssm-ID: 274048 [Multi-domain]  Cd Length: 316  Bit Score: 57.81  E-value: 2.01e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415   82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAHGLQQ-----NVLYVDSNGGLTASRLLQLLQAKTQD 156
Cdd:TIGR02239  78 LTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQgggegKALYIDTEGTFRPERLLAIAERYGLN 157

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  157 EEeqaEALRRIQVVHAFDIFQMLDVLQELRGTVAQQ----VTGSSGTVKVVVVDSVTAVVSpllggqqreglALMMQLAR 232
Cdd:TIGR02239 158 PE---DVLDNVAYARAYNTDHQLQLLQQAAAMMSESrfalLIVDSATALYRTDFSGRGELS-----------ARQMHLAR 223

                         170       180
                  ....*....|....*....|....*..
gi 217416415  233 ELKTLAR---DLGMAVVVTNHITRDRD 256
Cdd:TIGR02239 224 FLRSLQRladEFGVAVVITNQVVAQVD 250
Rad51 cd19513
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ...
 82-258 2.87e-09

RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51 is recruited to the break site with the help of its paralogs, RAD51D, RAD51B, RAD51C, XRCC3, and XRCC2, where it forms long helical polymers which wrap around the ssDNA tail at the break which leads to pairing and strand invasion.


Pssm-ID: 410921 [Multi-domain]  Cd Length: 235  Bit Score: 56.56  E-value: 2.87e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVC--LCMAANVA---HGLQQNVLYVDSNGGLTASRLLQLLQAKTQD 156
Cdd:cd19513    1 ITTGSKELDKLLGGGIETGSITELFGEFRTGKTQLChtLAVTCQLPidqGGGEGKALYIDTEGTFRPERLLAIAERYGLN 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 157 EEeqaEALRRIQVVHAFDIFQMLDVLQELRGTVAQQ----VTGSSGTVKVVVVDSVTAVVSpllggqqreglALMMQLAR 232
Cdd:cd19513   81 GE---DVLDNVAYARAYNTDHQMQLLIQASAMMAESryalLIVDSATALYRTDYSGRGELS-----------ARQMHLAK 146

                        170       180
                 ....*....|....*....|....*....
gi 217416415 233 ELKTLAR---DLGMAVVVTNHITRDRDSG 258
Cdd:cd19513  147 FLRMLQRladEFGVAVVITNQVVAQVDGA 175
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
82-135 2.14e-06

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 47.99  E-value: 2.14e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANvahGLQQN--VLYV 135
Cdd:COG0467    2 VPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTLALQFLAE---GLRRGekGLYV 54
RadA_SMS_N cd01121
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ...
 82-254 4.02e-06

bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a role in recombination and recombinational repair of DNA damaged by UV radiation, X-rays, and chemical agent and is responsible for the stabilization or processing of branched DNA molecules.


Pssm-ID: 410866 [Multi-domain]  Cd Length: 268  Bit Score: 47.53  E-value: 4.02e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAhGLQQNVLYV---DSNG--GLTASRllqlLQAKTQD 156
Cdd:cd01121   64 ISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLA-QRGGKVLYVsgeESLSqiKLRAER----LGLGSDN 138

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 157 eeeqaealrrIQVVHAFDIFQMLDVLQELRGTVA----------QQVTGSSGTVKvvvvdsvtavvspllggQQREGLAL 226
Cdd:cd01121  139 ----------LYLLAETNLEAILAEIEELKPSLVvidsiqtvysPELTSSPGSVS-----------------QVRECAAE 191

                        170       180
                 ....*....|....*....|....*...
gi 217416415 227 MMQLARElktlardLGMAVVVTNHITRD 254
Cdd:cd01121  192 LLRLAKE-------TGIPVFLVGHVTKD 212
DMC1 cd19514
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ...
 82-278 4.57e-06

homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in meiosis. It assembles at the sites of programmed DNA double-strand breaks and carries out a search for allelic DNA sequences located on homologous chromatids. It forms octameric rings.


Pssm-ID: 410922 [Multi-domain]  Cd Length: 236  Bit Score: 46.97  E-value: 4.57e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVC--LCMAANVAH---GLQQNVLYVDSNGGLTASRLLQLLQAKTQD 156
Cdd:cd19514    1 ISTGSTELDKLLGGGIESMSITEVFGEFRTGKTQLShtLCVTAQLPGsmgGGGGKVAYIDTEGTFRPDRIRPIAERFGVD 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415 157 eeeQAEALRRIQVVHAFDIFQMLDVLQELRGTVAQQVTGS---------------SGtvkvvvvdsvtavVSPLLGGQQR 221
Cdd:cd19514   81 ---HDAVLDNILYARAYTSEHQMELLDYVAAKFHEEAVFRlliidsimalfrvdfSG-------------RGELAERQQK 144

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 217416415 222 egLALMMQlarELKTLARDLGMAVVVTNHITRDRDSGRL------KPALGRSWSFVPSTRILL 278
Cdd:cd19514  145 --LAQMLS---RLQKISEEYNVAVFITNQVTADPGAAMTfqadpkKPIGGHILAHASTTRISL 202
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
83-124 2.15e-05

RecA/RadA recombinase [Replication, recombination and repair];


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 45.55  E-value: 2.15e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 217416415  83 STGIGSLDKLL-DAGLYTGEVTEIVGGPGSGKTQVCLCMAANV 124
Cdd:COG0468   45 STGSLALDIALgVGGLPRGRIVEIYGPESSGKTTLALHAIAEA 87
recomb_DMC1 TIGR02238
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ...
 82-278 2.78e-05

meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.


Pssm-ID: 131292 [Multi-domain]  Cd Length: 313  Bit Score: 45.15  E-value: 2.78e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415   82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVC--LCMAANVAH---GLQQNVLYVDSNGGLTASRLLQL------- 149
Cdd:TIGR02238  78 ITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLShtLCVTAQLPRemgGGNGKVAYIDTEGTFRPDRIRAIaerfgvd 157

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  150 --------LQAKTQDEEEQAEALRRIQVVHAFDIFQML--DVLQEL-------RGTVAQQvtgssgtvkvvvvdsvtavv 212
Cdd:TIGR02238 158 pdavldniLYARAYTSEHQMELLDYLAAKFSEEPFRLLivDSIMALfrvdfsgRGELSER-------------------- 217

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 217416415  213 spllggQQRegLALMMQlarELKTLARDLGMAVVVTNHITRDRD------SGRLKPALGRSWSFVPSTRILL 278
Cdd:TIGR02238 218 ------QQK--LAQMLS---RLNKISEEFNVAVFVTNQVQADPGatmtfiADPKKPIGGHVLAHASTTRILL 278
ATPase pfam06745
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ...
 82-135 8.50e-05

KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and eukaryotes. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria.


Pssm-ID: 429095 [Multi-domain]  Cd Length: 231  Bit Score: 43.00  E-value: 8.50e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 217416415   82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAHGLQQNVLYV 135
Cdd:pfam06745   1 VKTGIPGLDEILKGGFPEGRVVLITGGPGTGKTIFGLQFLYNGALKYGEPGVFV 54
PLN03187 PLN03187
meiotic recombination protein DMC1 homolog; Provisional
 66-192 2.19e-04

meiotic recombination protein DMC1 homolog; Provisional


Pssm-ID: 215620 [Multi-domain]  Cd Length: 344  Bit Score: 42.46  E-value: 2.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 217416415  66 VNGADLYEELKTSTAIlSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVC--LCMAANVA---HGLQQNVLYVDSNGG 140
Cdd:PLN03187  93 ITGSDALLKRKSVVRI-TTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAhtLCVTTQLPtemGGGNGKVAYIDTEGT 171

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 217416415 141 LTASRLLQLLQAKTQDEEeqaEALRRIQVVHAFDIFQMLDVLQELRGTVAQQ 192
Cdd:PLN03187 172 FRPDRIVPIAERFGMDAD---AVLDNIIYARAYTYEHQYNLLLGLAAKMAEE 220
KaiC-like cd01124
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ...
 82-135 2.89e-04

Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410869 [Multi-domain]  Cd Length: 222  Bit Score: 41.48  E-value: 2.89e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCLCMAANVAHgLQQNVLYV 135
Cdd:cd01124    1 VKTGIPGLDELLGGGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAK-NGEPGLFF 53
DnaB_C pfam03796
DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at ...
 82-135 7.81e-04

DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.


Pssm-ID: 427509 [Multi-domain]  Cd Length: 254  Bit Score: 40.48  E-value: 7.81e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 217416415   82 LSTGIGSLDKLLdAGLYTGEVTeIVGG-PGSGKTQVCLCMAANVAHGLQQNVLYV 135
Cdd:pfam03796   2 LPTGFTDLDRLT-GGLQPGDLI-IIAArPSMGKTAFALNIARNAAVKHKKPVAIF 54
PRK09302 PRK09302
circadian clock protein KaiC; Reviewed
 61-114 2.58e-03

circadian clock protein KaiC; Reviewed


Pssm-ID: 236461 [Multi-domain]  Cd Length: 509  Bit Score: 39.48  E-value: 2.58e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 217416415  61 FSAFPVNGADLyeELKTSTAILSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKT 114
Cdd:PRK09302 236 ISVLPLTAMRL--TQRSSNERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKT 287
KaiC-like_N cd19488
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 82-135 7.26e-03

N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410896 [Multi-domain]  Cd Length: 225  Bit Score: 37.33  E-value: 7.26e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 217416415  82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQVCL-CMAANVAHGlqQNVLYV 135
Cdd:cd19488    1 ISTGIPGLDDILRGGLPPRRLYLVEGAPGTGKTTLALqFLLEGAANG--ETGLYI 53
 
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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