|
Name |
Accession |
Description |
Interval |
E-value |
| recA |
PRK09354 |
recombinase A; Provisional |
82-337 |
2.67e-159 |
|
recombinase A; Provisional
Pssm-ID: 236476 [Multi-domain] Cd Length: 349 Bit Score: 449.63 E-value: 2.67e-159
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 82 DRQKALEAAMNDINSSFGKGSVTRLGSAGGALVETFSSGILTLDLALG-GGLPKGRVVEIYGPESSGKTTLALHAIAEVQ 160
Cdd:PRK09354 6 EKQKALEAALKQIEKQFGKGSIMRLGDDAAMDVEVISTGSLALDIALGiGGLPRGRIVEIYGPESSGKTTLALHAIAEAQ 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 161 KLGGNAMLVDAEHAFDPAYSKALGVDVENLIVCQPDNGEMALETADRMCRSGAVDLICVDSVSALTPRAEIEGEIGMQQM 240
Cdd:PRK09354 86 KAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHV 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 241 GLQARLMSQALRKMSGNASKAGCTLIFLNQIRYKIGVYYGNPEVTSGGIALKFFASVRLEIRSAGKIKssKGDEDIGLRA 320
Cdd:PRK09354 166 GLQARLMSQALRKLTGNISKSNTTVIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIK--DGDEVIGNRT 243
|
250
....*....|....*..
gi 145327737 321 RVRVQKSKVSRPYKQEE 337
Cdd:PRK09354 244 KVKVVKNKVAPPFKQAE 260
|
|
| RecA |
COG0468 |
RecA/RadA recombinase [Replication, recombination and repair]; |
82-337 |
2.07e-157 |
|
RecA/RadA recombinase [Replication, recombination and repair];
Pssm-ID: 440236 [Multi-domain] Cd Length: 351 Bit Score: 444.61 E-value: 2.07e-157
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 82 DRQKALEAAMNDINSSFGKGSVTRLGSAGGALVETFSSGILTLDLALG-GGLPKGRVVEIYGPESSGKTTLALHAIAEVQ 160
Cdd:COG0468 9 EKEKALEAALSQIEKQFGKGSIMRLGDKARQDVEVISTGSLALDIALGvGGLPRGRIVEIYGPESSGKTTLALHAIAEAQ 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 161 KLGGNAMLVDAEHAFDPAYSKALGVDVENLIVCQPDNGEMALETADRMCRSGAVDLICVDSVSALTPRAEIEGEIGMQQM 240
Cdd:COG0468 89 KAGGIAAFIDAEHALDPEYAKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHV 168
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 241 GLQARLMSQALRKMSGNASKAGCTLIFLNQIRYKIGVYYGNPEVTSGGIALKFFASVRLEIRSAGKIKssKGDEDIGLRA 320
Cdd:COG0468 169 GLQARLMSQALRKLTGAISKSNTTVIFINQLREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIK--DGDEVIGNRT 246
|
250
....*....|....*..
gi 145327737 321 RVRVQKSKVSRPYKQEE 337
Cdd:COG0468 247 RVKVVKNKVAPPFKEAE 263
|
|
| tigrfam_recA |
TIGR02012 |
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ... |
82-337 |
5.56e-147 |
|
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 162659 [Multi-domain] Cd Length: 321 Bit Score: 417.16 E-value: 5.56e-147
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 82 DRQKALEAAMNDINSSFGKGSVTRLGSAGGALVETFSSGILTLDLALG-GGLPKGRVVEIYGPESSGKTTLALHAIAEVQ 160
Cdd:TIGR02012 1 DKQKALEAALAQIEKQFGKGSIMRLGEKTVMDVETISTGSLALDLALGvGGLPKGRIIEIYGPESSGKTTLALHAIAEAQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 161 KLGGNAMLVDAEHAFDPAYSKALGVDVENLIVCQPDNGEMALETADRMCRSGAVDLICVDSVSALTPRAEIEGEIGMQQM 240
Cdd:TIGR02012 81 KAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 241 GLQARLMSQALRKMSGNASKAGCTLIFLNQIRYKIGVYYGNPEVTSGGIALKFFASVRLEIRSAGKIKssKGDEDIGLRA 320
Cdd:TIGR02012 161 GLQARLMSQALRKLTGALSKSNTTAIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTVK--QGEEVVGNRT 238
|
250
....*....|....*..
gi 145327737 321 RVRVQKSKVSRPYKQEE 337
Cdd:TIGR02012 239 KVKVVKNKVAPPFREAE 255
|
|
| RecA |
cd00983 |
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
114-337 |
1.35e-146 |
|
recombinase A; 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.
Pssm-ID: 410863 [Multi-domain] Cd Length: 235 Bit Score: 412.72 E-value: 1.35e-146
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 114 VETFSSGILTLDLALG-GGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEHAFDPAYSKALGVDVENLIV 192
Cdd:cd00983 2 VEVIPTGSLSLDIALGiGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLLV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 193 CQPDNGEMALETADRMCRSGAVDLICVDSVSALTPRAEIEGEIGMQQMGLQARLMSQALRKMSGNASKAGCTLIFLNQIR 272
Cdd:cd00983 82 SQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSLSKSKTTVIFINQLR 161
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 145327737 273 YKIGVYYGNPEVTSGGIALKFFASVRLEIRSAGKIKssKGDEDIGLRARVRVQKSKVSRPYKQEE 337
Cdd:cd00983 162 EKIGVMFGNPETTTGGNALKFYASVRLDIRRIELIK--EGEDVIGNRTKVKVVKNKVAPPFKQAE 224
|
|
| RecA |
pfam00154 |
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ... |
85-337 |
5.24e-142 |
|
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyzes an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination.
Pssm-ID: 425488 [Multi-domain] Cd Length: 262 Bit Score: 402.16 E-value: 5.24e-142
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 85 KALEAAMNDINSSFGKGSVTRLGSAGGALVETFSSGILTLDLALG-GGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLG 163
Cdd:pfam00154 1 KALEAALKQIEKQFGKGSIMKLGDEKKLDVETISTGSLALDIALGiGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 164 GNAMLVDAEHAFDPAYSKALGVDVENLIVCQPDNGEMALETADRMCRSGAVDLICVDSVSALTPRAEIEGEIGMQQMGLQ 243
Cdd:pfam00154 81 GTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 244 ARLMSQALRKMSGNASKAGCTLIFLNQIRYKIGVYYGNPEVTSGGIALKFFASVRLEIRSAGKIKssKGDEDIGLRARVR 323
Cdd:pfam00154 161 ARLMSQALRKLTGSISKSNTTVIFINQIREKIGVMFGNPETTTGGRALKFYASVRLDIRRIGQIK--QGEEVIGNKTKVK 238
|
250
....*....|....
gi 145327737 324 VQKSKVSRPYKQEE 337
Cdd:pfam00154 239 VVKNKVAPPFKEAE 252
|
|
| recA |
PRK09519 |
intein-containing recombinase RecA; |
82-328 |
7.31e-94 |
|
intein-containing recombinase RecA;
Pssm-ID: 77219 [Multi-domain] Cd Length: 790 Bit Score: 296.23 E-value: 7.31e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 82 DRQKALEAAMNDINSSFGKGSVTRLGSAGGALVETFSSGILTLDLALG-GGLPKGRVVEIYGPESSGKTTLALHAIAEVQ 160
Cdd:PRK09519 6 DREKALELAVAQIEKSYGKGSVMRLGDEARQPISVIPTGSIALDVALGiGGLPRGRVIEIYGPESSGKTTVALHAVANAQ 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 161 KLGGNAMLVDAEHAFDPAYSKALGVDVENLIVCQPDNGEMALETADRMCRSGAVDLICVDSVSALTPRAEIEGEIGMQQM 240
Cdd:PRK09519 86 AAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHV 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 241 GLQARLMSQALRKMSGNASKAGCTLIFLNQIRYKIGVYYGNPEVTSGGIALKFFASVRLEIRSAGKIKSskGDEDIGLRA 320
Cdd:PRK09519 166 GLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVMFGSPETTTGGKALKFYASVRMDVRRVETLKD--GTNAVGNRT 243
|
....*...
gi 145327737 321 RVRVQKSK 328
Cdd:PRK09519 244 RVKVVKNK 251
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
135-302 |
3.78e-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: 147.50 E-value: 3.78e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 135 GRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEHAFDPAY-----------SKALGVDVENLIVCQPDNGEMALE 203
Cdd:cd01393 1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIDTEGAFPPSRlvqileaspssELELAEALSRLLYFRPPDTLAHLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 204 TAD----RMCRSGAVDLICVDSVSALTPRAEIEGEIGMQQMGLQARLMSQALRKMSGNASKAGCTLIFLNQIRYKIGVYY 279
Cdd:cd01393 81 ALDslpeSLFPPPNTSLVVVDSVSALFRKAFPRGGDGDSSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTKIRGGS 160
|
170 180
....*....|....*....|....
gi 145327737 280 G-NPEVTSGGIALKFFASVRLEIR 302
Cdd:cd01393 161 GaSLVPPALGNTWEHSVSTRLLLY 184
|
|
| archRadB |
cd01394 |
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ... |
118-271 |
4.04e-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: 81.59 E-value: 4.04e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEhAFDPAYSKAL-----GVDVENLIV 192
Cdd:cd01394 2 STGSKSLDSLLGGGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTE-GLSPERFQQIagerfESIASNIIV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 193 CQP---DNGEMALETADRMCRSGAVDLICVDSVSALTpRAEIEGEIgmqqmGLQARLMSQaLRKMSGNASKAGCTLIFLN 269
Cdd:cd01394 81 FEPysfDEQGVAIQEAEKLLKSDKVDLVVVDSATALY-RLELGDDS-----EANRELSRQ-MSKLLSIARKYDIPVVITN 153
|
..
gi 145327737 270 QI 271
Cdd:cd01394 154 QV 155
|
|
| recomb_radB |
TIGR02237 |
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ... |
124-300 |
1.68e-16 |
|
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Pssm-ID: 274047 [Multi-domain] Cd Length: 209 Bit Score: 77.07 E-value: 1.68e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 124 LDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEhAFDPAYSKALGVD-----VENLIVCQP--- 195
Cdd:TIGR02237 1 IDELLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE-GLSPERFKQIAEDrperaLSNFIVFEVfdf 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 196 DNGEMALETADRMCRSGAVDLICVDSVSALTpRAEIEGEIGMQQMGLQARLmsQALRKMsgnASKAGCTLIFLNQIRYKI 275
Cdd:TIGR02237 80 DEQGVAIQKTSKFIDRDSASLVVVDSFTALY-RLELSDDRISRNRELARQL--TLLLSL---ARKKNLAVVITNQVYTDV 153
|
170 180
....*....|....*....|....*..
gi 145327737 276 GVYYGNPevtSGGIALKFF--ASVRLE 300
Cdd:TIGR02237 154 NNGTLRP---LGGHLLEHWskVILRLE 177
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
118-322 |
1.74e-15 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 76.07 E-value: 1.74e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLAlHAIA-EVQK------LGGNAMLVDAEHAFDP----AYSKALGVD 186
Cdd:PRK04301 85 TTGSKELDELLGGGIETQSITEFYGEFGSGKTQIC-HQLAvNVQLpeekggLEGKAVYIDTEGTFRPerieQMAEALGLD 163
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 187 VE----NLIVCQPDNGEM---ALETADRMCRSG-AVDLICVDSVSALTpRAEI--EGEIGMQQMGLqARLMSQALRKmsg 256
Cdd:PRK04301 164 PDevldNIHVARAYNSDHqmlLAEKAEELIKEGeNIKLVIVDSLTAHF-RAEYvgRGNLAERQQKL-NKHLHDLLRL--- 238
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 145327737 257 nASKAGCTLIFLNQIRYKIGVYYGNPEVTSGGIALKFFASVRLEIRsagkikSSKGDEDIglrARV 322
Cdd:PRK04301 239 -ADLYNAAVVVTNQVMARPDAFFGDPTQPIGGHILGHTATFRIYLR------KSKGNKRI---ARL 294
|
|
| COG4544 |
COG4544 |
Uncharacterized conserved protein [Function unknown]; |
100-229 |
5.62e-15 |
|
Uncharacterized conserved protein [Function unknown];
Pssm-ID: 443609 [Multi-domain] Cd Length: 230 Bit Score: 73.04 E-value: 5.62e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 100 KGSVTRLGSAGGALVETFSSGILTLDLAL-GGGLPKGRVVEIYGPE-SSGKTTLALHAIAEVQKLGGNAMLVDAEHAFDP 177
Cdd:COG4544 12 RRRIWRGEGLAAAARAVLPTGFAALDAALpGGGLPRGALHEILGPApGIGELGLLLPLLARLAQAGGPVLWIAPPYDLYA 91
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|..
gi 145327737 178 AYSKALGVDVENLIVCQPDNGEMALETADRMCRSGAVDLICVDsVSALTPRA 229
Cdd:COG4544 92 PGLAAAGLDPERLLLVRARRPADALWAAEEALRSGACGAVVAW-LERLDLTA 142
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
118-276 |
1.68e-14 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 71.82 E-value: 1.68e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEhAFDPAYSKAL-GVDVE----NLIV 192
Cdd:PRK09361 6 PTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPERFKQIaGEDFEellsNIII 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 193 CQP---DNGEMALETADRMCRSGaVDLICVDSVSALTpRAEIEGEigMQQMGLQARLMSQaLRKMSGNASKAGCTLIFLN 269
Cdd:PRK09361 85 FEPssfEEQSEAIRKAEKLAKEN-VGLIVLDSATSLY-RLELEDE--EDNSKLNRELGRQ-LTHLLKLARKHDLAVVITN 159
|
....*..
gi 145327737 270 QIRYKIG 276
Cdd:PRK09361 160 QVYSDID 166
|
|
| archRadA |
cd19515 |
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ... |
118-316 |
8.34e-14 |
|
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: 69.70 E-value: 8.34e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLAlHAIA-EVQK------LGGNAMLVDAEHAFDP----AYSKALGVD 186
Cdd:cd19515 2 STGSKELDKLLGGGIETQAITEVFGEFGSGKTQLC-HQLAvNVQLppeeggLNGKAVYIDTENTFRPerimQMAKALGLD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 187 VE----NLIVCQPDNGEM---ALETADRMCRSG-AVDLICVDSVSALTpRAEI--EGEIGMQQMGLqARLMSQALRKmsg 256
Cdd:cd19515 81 PDevldNIYVARAYNSNHqmlLVEKAEDLIKEGnNIKLLIVDSLTSHF-RAEYvgRGTLAERQQKL-NKHLHDLHRL--- 155
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 257 nASKAGCTLIFLNQIRYKIGVYYGNPEVTSGGIALKFFASVRLEIRsagkikSSKGDEDI 316
Cdd:cd19515 156 -ADLYNIAVLVTNQVMAKPDAFFGDPTQAIGGHILGHAATFRVYLR------KGKGGKRI 208
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
117-272 |
6.24e-13 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 67.25 E-value: 6.24e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 117 FSSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEHAFDP--AYSKALGVDVENLIvcq 194
Cdd:COG0467 2 VPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTLALQFLAEGLRRGEKGLYVSFEESPEQllRRAESLGLDLEEYI--- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 195 pDNGEMALETAD----------------RMCRSGAVDLICVDSVSALtpraeiegeigmQQMGLQARLMSQALRKMSGNA 258
Cdd:COG0467 79 -ESGLLRIIDLSpeelgldleellarlrEAVEEFGAKRVVIDSLSGL------------LLALPDPERLREFLHRLLRYL 145
|
170
....*....|....
gi 145327737 259 SKAGCTLIFLNQIR 272
Cdd:COG0467 146 KKRGVTTLLTSETG 159
|
|
| recomb_radA |
TIGR02236 |
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ... |
112-316 |
1.25e-11 |
|
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: 64.38 E-value: 1.25e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 112 ALVETFSSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQ------KLGGNAMLVDAEHAFDPA----YSK 181
Cdd:TIGR02236 72 KTIGKITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQlpeekgGLGGKAVYIDTENTFRPErimqMAE 151
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 182 ALGVDVE----NLIVCQPDNG--EMAL-ETADRMCRSG--AVDLICVDSVSAlTPRAEI--EGEIGMQQMGLqARLMSQA 250
Cdd:TIGR02236 152 ARGLDPDevlkNIYVARAYNSnhQMLLvEKAEDLIKELnnPVKLLIVDSLTS-HFRAEYvgRGALAERQQKL-NKHLHDL 229
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 145327737 251 LRKmsgnASKAGCTLIFLNQIRYKIGVYYGNPEVTSGGIALKFFASVRLEIRsagkikSSKGDEDI 316
Cdd:TIGR02236 230 LRL----ADLYNAAVVVTNQVMARPDAFFGDPTRPIGGHILGHAATFRVYLR------KGKGDKRI 285
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
118-334 |
3.56e-11 |
|
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: 61.90 E-value: 3.56e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLV----DAEHAFDPAYSK----ALGVDVEN 189
Cdd:cd01124 2 KTGIPGLDELLGGGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAKNGEPGLFFtfeeSPERLLRNAKSFgwdfDEMEDEGK 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 190 LIVCQPDNGEMALETADRM-------CRSGAVDLICVDSVSALTPRAEiegeigmqqmglQARLMSQALRKMSGNASKAG 262
Cdd:cd01124 82 LIIVDAPPTEAGRFSLDELlsrilsiIKSFKAKRVVIDSLSGLRRAKE------------DQMRARRIVIALLNELRAAG 149
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 145327737 263 CTLIFLNQIRykigvyYGNPEVTSGGIALKFFASvrleirsaGKIKSSKGDEDIGLRARVRVQK------SKVSRPYK 334
Cdd:cd01124 150 VTTIFTSEMR------SFLSSESAGGGDVSFIVD--------GVILLRYVEIEGELRRTIRVLKmrgtghDTGTHPFE 213
|
|
| Rad51_DMC1_archRadA |
cd01123 |
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ... |
118-302 |
1.21e-10 |
|
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: 60.62 E-value: 1.21e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLAlHAIA-------EVQKLGGNAMLVDAEHAFDP----AYSKALGVD 186
Cdd:cd01123 2 TTGSKELDKLLGGGIETGSITEMFGEFRTGKTQLC-HTLAvtcqlpiDRGGGEGKAIYIDTEGTFRPerlrAIAQRFGLD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 187 ----VENLIVCQPDNGE---MALETADRMCRSGAVDLICVDSVSALTpRAEI--EGEIGMQQMGLqARLMSQALRKmsgn 257
Cdd:cd01123 81 pddvLDNVAYARAFNSDhqtQLLDQAAAMMVESRFKLLIVDSATALY-RTDYsgRGELSARQMHL-AKFLRMLQRL---- 154
|
170 180 190 200
....*....|....*....|....*....|....*....|....*...
gi 145327737 258 ASKAGCTLIFLNQIRYKIG---VYYGNPEVTSGGIALKFFASVRLEIR 302
Cdd:cd01123 155 ADEFGVAVVVTNQVVAQVDgamMFAADPKKPIGGNILAHASTTRLYLR 202
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
118-302 |
4.64e-10 |
|
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: 59.24 E-value: 4.64e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKT----TLALHAIAEVQKLGGN--AMLVDAEHAFDPAYSKAL----GVD- 186
Cdd:pfam08423 20 TTGSKELDKLLGGGIETGSITEIFGEFRTGKTqlchTLCVTCQLPLEMGGGEgkALYIDTEGTFRPERLVAIaeryGLDp 99
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 187 ---VENLIVCQPDNGE--MAL--ETADRMCRSgAVDLICVDSVSALTpRAEIE--GEIGMQQMGLqARLMSqALRKMsgn 257
Cdd:pfam08423 100 edvLDNVAYARAYNSEhqMQLlqQAAAMMSES-RFALLIVDSATALY-RTDFSgrGELAERQQHL-AKFLR-TLQRL--- 172
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 145327737 258 ASKAGCTLIFLNQIR----YKIGVYYGNPEVTSGGIALKFFASVRLEIR 302
Cdd:pfam08423 173 ADEFGVAVVITNQVVaqvdGAAGMFSGDPKKPIGGHIMAHASTTRLSLR 221
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
134-302 |
1.05e-09 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 56.23 E-value: 1.05e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 134 KGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEHAFDPAYSKALGVDVENLIVcqPDNGEMALETADRMCRSGA 213
Cdd:smart00382 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKA--SGSGELRLRLALALARKLK 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 214 VDLICVDSVSALTPRAeiegeigmQQMGLQARLMSQALRKMsgnASKAGCTLIFLNqirykigvyygNPEVTSGGIALKF 293
Cdd:smart00382 79 PDVLILDEITSLLDAE--------QEALLLLLEELRLLLLL---KSEKNLTVILTT-----------NDEKDLGPALLRR 136
|
....*....
gi 145327737 294 FASVRLEIR 302
Cdd:smart00382 137 RFDRRIVLL 145
|
|
| PLN03186 |
PLN03186 |
DNA repair protein RAD51 homolog; Provisional |
118-271 |
1.80e-09 |
|
DNA repair protein RAD51 homolog; Provisional
Pssm-ID: 178728 [Multi-domain] Cd Length: 342 Bit Score: 58.21 E-value: 1.80e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKT----TLALHAIAEVQKLG--GNAMLVDAEHAFDP-------------- 177
Cdd:PLN03186 106 TTGSRELDKILEGGIETGSITEIYGEFRTGKTqlchTLCVTCQLPLDQGGgeGKAMYIDTEGTFRPqrliqiaerfglng 185
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 178 -------AYSKALGVDVENlivcqpdngEMALETADRMCRSgAVDLICVDSVSALTpRAEIE--GEIGMQQMglqarLMS 248
Cdd:PLN03186 186 advlenvAYARAYNTDHQS---------ELLLEAASMMAET-RFALMIVDSATALY-RTEFSgrGELSARQM-----HLG 249
|
170 180
....*....|....*....|...
gi 145327737 249 QALRKMSGNASKAGCTLIFLNQI 271
Cdd:PLN03186 250 KFLRSLQRLADEFGVAVVITNQV 272
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
125-248 |
3.24e-09 |
|
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: 56.17 E-value: 3.24e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 125 DLALGGGLPKGRVVEIYGPESSGKTTLALH----AIAEVQKLGGNAMLV--DAEHAFDPAYSKALGVD-VENLIVCQPDN 197
Cdd:cd19493 1 DTALAGGLPLGAITEITGASGSGKTQFALTlassAAMPARKGGLDGGVLyiDTESKFSAERLAEIAEArFPEAFSGFMEE 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 145327737 198 GEMALETADR----------------------MCRSGaVDLICVDSVSALTpRAEIEGEIG--MQQMGLQARLMS 248
Cdd:cd19493 81 NERAEEMLKRvavvrvttlaqllerlpnleehILSSG-VRLVVIDSIAALV-RREFGGSDGevTERHNALAREAS 153
|
|
| XRCC3 |
cd19491 |
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ... |
124-271 |
4.69e-08 |
|
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: 53.45 E-value: 4.69e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 124 LDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQ------KLGGNAMLVDAEHAF----------------DPAYSK 181
Cdd:cd19491 1 LDELLGGGIPVGGITEIAGESGAGKTQLCLQLALTVQlprelgGLGGGAVYICTESSFpskrlqqlasslpkryHLEKAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 182 ALGV--------DVENLIVCqpdngemaLETAD-RMCRSGAVDLICVDSVSALTpRAEIegEIGMQQMGLQARLMSQALR 252
Cdd:cd19491 81 NFLDnifvehvaDLETLEHC--------LNYQLpALLERGPIRLVVIDSIAALF-RSEF--DTSRSDLVERAKYLRRLAD 149
|
170
....*....|....*....
gi 145327737 253 KMSGNASKAGCTLIFLNQI 271
Cdd:cd19491 150 HLKRLADKYNLAVVVVNQV 168
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
132-268 |
6.98e-08 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 53.37 E-value: 6.98e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 132 LPKGRVVEIYGPESSGKTTLALHAIAEVQK----LG-----GNAMLVDAE----------HAFDPAYSKALGVDVENLIV 192
Cdd:COG3598 10 LPEGGVTLLAGPPGTGKSFLALQLAAAVAAggpwLGrrvppGKVLYLAAEddrgelrrrlKALGADLGLPFADLDGRLRL 89
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 145327737 193 CQPDNGEMALETADRM---CRSGAVDLICVDSVSALTPRAEIEGEigmqqmglQARLMSQALRKMsgnASKAGCTLIFL 268
Cdd:COG3598 90 LSLAGDLDDTDDLEALeraIEEEGPDLVVIDPLARVFGGDENDAE--------EMRAFLNPLDRL---AERTGAAVLLV 157
|
|
| ATPase |
pfam06745 |
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ... |
118-272 |
1.47e-07 |
|
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: 51.48 E-value: 1.47e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALH-AIAEVQKLGGNAMLVDA-EHAFDPAYS-KALGVDVENLIvcq 194
Cdd:pfam06745 2 KTGIPGLDEILKGGFPEGRVVLITGGPGTGKTIFGLQfLYNGALKYGEPGVFVTLeEPPEDLRENaRSFGWDLEKLE--- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 195 pDNGEMALETADRMcRSGAVDLICVDSVSALTPR-AEIEGEIGMQQMGL-------------QAR-LMSQALRKMSGNas 259
Cdd:pfam06745 79 -EEGKLAIIDASTS-GIGIAEVEDRFDLEELIERlREAIREIGAKRVVIdsittlfyllkpaVAReILRRLKRVLKGL-- 154
|
170
....*....|...
gi 145327737 260 kaGCTLIFLNQIR 272
Cdd:pfam06745 155 --GVTAIFTSEKP 165
|
|
| PLN03187 |
PLN03187 |
meiotic recombination protein DMC1 homolog; Provisional |
85-302 |
1.67e-07 |
|
meiotic recombination protein DMC1 homolog; Provisional
Pssm-ID: 215620 [Multi-domain] Cd Length: 344 Bit Score: 52.09 E-value: 1.67e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 85 KALEAAMNDINSSFGKGSVTRLGSAGgalVETFSSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLAlHAIAEVQKL-- 162
Cdd:PLN03187 79 KICEAAEKLLNQGFITGSDALLKRKS---VVRITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLA-HTLCVTTQLpt 154
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 163 ---GGNAML--VDAEHAFDP----AYSKALGVD----VENLIVCQPDNGEMA----LETADRMCRSgAVDLICVDSVSAL 225
Cdd:PLN03187 155 emgGGNGKVayIDTEGTFRPdrivPIAERFGMDadavLDNIIYARAYTYEHQynllLGLAAKMAEE-PFRLLIVDSVIAL 233
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 226 -----TPRaeieGEIGMQQMGLqarlmSQALRKMSGNASKAGCTLIFLNQIRYKIG--VYYGNPEVTSGGIALKFFASVR 298
Cdd:PLN03187 234 frvdfTGR----GELAERQQKL-----AQMLSRLTKIAEEFNVAVYMTNQVIADPGggMFISDPKKPAGGHVLAHAATIR 304
|
....
gi 145327737 299 LEIR 302
Cdd:PLN03187 305 LMLR 308
|
|
| DMC1 |
cd19514 |
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ... |
118-316 |
5.37e-07 |
|
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: 50.05 E-value: 5.37e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLAlHAIAEVQKL-------GGNAMLVDAEHAFDP----AYSKALGVD 186
Cdd:cd19514 2 STGSTELDKLLGGGIESMSITEVFGEFRTGKTQLS-HTLCVTAQLpgsmgggGGKVAYIDTEGTFRPdrirPIAERFGVD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 187 ----VENLIVCQPDNGEMALE----TADRMCRSGAVDLICVDSVSAL-----TPRaeieGEIGMQQMGLqARLMSQaLRK 253
Cdd:cd19514 81 hdavLDNILYARAYTSEHQMElldyVAAKFHEEAVFRLLIIDSIMALfrvdfSGR----GELAERQQKL-AQMLSR-LQK 154
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 145327737 254 MSGNASKAgctlIFL-NQIRYKIG---VYYGNPEVTSGGIALKFFASVRLEIRSAgkikssKGDEDI 316
Cdd:cd19514 155 ISEEYNVA----VFItNQVTADPGaamTFQADPKKPIGGHILAHASTTRISLRKG------RGEERI 211
|
|
| PTZ00035 |
PTZ00035 |
Rad51 protein; Provisional |
117-302 |
7.99e-07 |
|
Rad51 protein; Provisional
Pssm-ID: 185407 [Multi-domain] Cd Length: 337 Bit Score: 50.00 E-value: 7.99e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 117 FSSGILTLDLALGGGLPKGRVVEIYGPESSGKT----TLALHAIAEVQKLGGN--AMLVDAEHAFDP----AYSKALGVD 186
Cdd:PTZ00035 100 ITTGSTQLDKLLGGGIETGSITELFGEFRTGKTqlchTLCVTCQLPIEQGGGEgkVLYIDTEGTFRPerivQIAERFGLD 179
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 187 ----VENLIVCQPDNGE----MALETADRMCRSGAVDLIcVDSVSALTpRAEI--EGEIGMQQMGLqARLMSqALRKMsg 256
Cdd:PTZ00035 180 pedvLDNIAYARAYNHEhqmqLLSQAAAKMAEERFALLI-VDSATALF-RVDYsgRGELAERQQHL-GKFLR-ALQKL-- 253
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 145327737 257 nASKAGCTLIFLNQIRYKIG---VYYGNPEVTSGGIALKFFASVRLEIR 302
Cdd:PTZ00035 254 -ADEFNVAVVITNQVMADVDgasMFVADPKKPIGGHIIAHASTTRLSLR 301
|
|
| recomb_DMC1 |
TIGR02238 |
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ... |
85-316 |
8.07e-07 |
|
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: 50.16 E-value: 8.07e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 85 KALEAAMNDINSSFGKGSVTrlgSAGGALVETFSSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLAlHAIAEVQKL-- 162
Cdd:TIGR02238 49 KIKEAASKIINPGFITAFEI---SQKRKKVLKITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLS-HTLCVTAQLpr 124
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 163 -----GGNAMLVDAEHAFDPAYSKAL----GVD----VENLIVCQPDNGEMALE----TADRMCrSGAVDLICVDSVSAL 225
Cdd:TIGR02238 125 emgggNGKVAYIDTEGTFRPDRIRAIaerfGVDpdavLDNILYARAYTSEHQMElldyLAAKFS-EEPFRLLIVDSIMAL 203
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 226 TpRAEI--EGEIGMQQMGLqarlmSQALRKMSGNASKAGCTLIFLNQIRYKIG---VYYGNPEVTSGGIALKFFASVRLE 300
Cdd:TIGR02238 204 F-RVDFsgRGELSERQQKL-----AQMLSRLNKISEEFNVAVFVTNQVQADPGatmTFIADPKKPIGGHVLAHASTTRIL 277
|
250
....*....|....*.
gi 145327737 301 IRSAgkikssKGDEDI 316
Cdd:TIGR02238 278 LRKG------RGEERV 287
|
|
| XRCC2 |
cd19490 |
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ... |
135-276 |
1.05e-06 |
|
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: 48.88 E-value: 1.05e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 135 GRVVEIYGPESSGKTTLALHAIA-----------EVQKLGGNAMLVDAEHAFD-----------------PAYSKALGVD 186
Cdd:cd19490 1 GDVIEITGPSGSGKTELLYHLAArcilpsswggvPLGGLEAAVVFIDTDGRFDilrlrsileariraaiqAANSSDDEED 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 187 VENLIV----------CQpDNGEMA--LETADRM----CRSGAVDLICVDSVSA---LTPRAEIEGEIGMQQMGLQARLM 247
Cdd:cd19490 81 VEEIAReclqrlhifrCH-SSLQLLatLLSLENYllslSANPELGLLLIDSISAfywQDRFSAELARAAPLLQEAALRAI 159
|
170 180
....*....|....*....|....*....
gi 145327737 248 SQALRKMSgnaSKAGCTLIFLNQIRYKIG 276
Cdd:cd19490 160 LRELRRLR---RRFQLVVIATKQALFPGK 185
|
|
| Rad51 |
cd19513 |
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ... |
117-271 |
2.02e-06 |
|
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: 48.08 E-value: 2.02e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 117 FSSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLAlHAIAEVQKL-------GGNAMLVDAEHAFDP----AYSKALGV 185
Cdd:cd19513 1 ITTGSKELDKLLGGGIETGSITELFGEFRTGKTQLC-HTLAVTCQLpidqgggEGKALYIDTEGTFRPerllAIAERYGL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 186 D----VENLIVCQPDNGE----MALETADRMCRSgAVDLICVDSVSALTpRAEIE--GEIGMQQMGLqARLMsQALRKMs 255
Cdd:cd19513 80 NgedvLDNVAYARAYNTDhqmqLLIQASAMMAES-RYALLIVDSATALY-RTDYSgrGELSARQMHL-AKFL-RMLQRL- 154
|
170
....*....|....*.
gi 145327737 256 gnASKAGCTLIFLNQI 271
Cdd:cd19513 155 --ADEFGVAVVITNQV 168
|
|
| KaiC-like_N |
cd19488 |
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
118-169 |
2.06e-06 |
|
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: 48.11 E-value: 2.06e-06
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLV 169
Cdd:cd19488 2 STGIPGLDDILRGGLPPRRLYLVEGAPGTGKTTLALQFLLEGAANGETGLYI 53
|
|
| KaiC-like_C |
cd19487 |
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
118-206 |
9.10e-06 |
|
C-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: 410895 [Multi-domain] Cd Length: 219 Bit Score: 46.14 E-value: 9.10e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEHAFDP--AYSKALGVDVENLIvcqp 195
Cdd:cd19487 2 SSGVPELDELLGGGLERGTSTLLIGPAGVGKSTLALQFAKAAAARGERSVLFSFDESIGTlfERSEALGIDLRAMV---- 77
|
90
....*....|.
gi 145327737 196 DNGEMALETAD 206
Cdd:cd19487 78 EKGLLSIEQID 88
|
|
| recomb_RAD51 |
TIGR02239 |
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ... |
118-302 |
1.06e-05 |
|
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: 46.64 E-value: 1.06e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKT----TLALHAIAEVQKLGGN--AMLVDAEHAFDP----AYSKALGVD- 186
Cdd:TIGR02239 79 TTGSKELDKLLGGGIETGSITEIFGEFRTGKTqlchTLAVTCQLPIDQGGGEgkALYIDTEGTFRPerllAIAERYGLNp 158
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 187 ---VENLIVCQPDNGEMALE---TADRMCRSGAVDLICVDSVSALTpRAEI--EGEIGMQQMglqarLMSQALRKMSGNA 258
Cdd:TIGR02239 159 edvLDNVAYARAYNTDHQLQllqQAAAMMSESRFALLIVDSATALY-RTDFsgRGELSARQM-----HLARFLRSLQRLA 232
|
170 180 190 200
....*....|....*....|....*....|....*....|....*...
gi 145327737 259 SKAGCTLIFLNQIRYKI----GVYYGNPEVTSGGIALKFFASVRLEIR 302
Cdd:TIGR02239 233 DEFGVAVVITNQVVAQVdgagSMFAGDPKKPIGGNIMAHASTTRLSLR 280
|
|
| RecA-like_superfamily |
cd01120 |
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ... |
138-292 |
7.22e-05 |
|
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410865 [Multi-domain] Cd Length: 119 Bit Score: 41.72 E-value: 7.22e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 138 VEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEhafdpayskalgvdvenlivcqpdngEMALETADRMCRSGAVDLI 217
Cdd:cd01120 1 ILITGPPGSGKTTLLLQFAEQALLSDEPVIFISFL--------------------------DTILEAIEDLIEEKKLDII 54
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 145327737 218 CVDSVSALTPRAEiegeigmqqmGLQARLMSQALRKMSGNASKAGCTLIFLNQIRYKIGVYYGNPEVTSGGIALK 292
Cdd:cd01120 55 IIDSLSSLARASQ----------GDRSSELLEDLAKLLRAARNTGITVIATIHSDKFDIDRGGSSNDERLLKSLR 119
|
|
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
129-170 |
8.91e-05 |
|
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: 43.01 E-value: 8.91e-05
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 145327737 129 GGGLPKGRVVEIYGPESSGKTTLALHAIAEV-QKLGGNAMLVD 170
Cdd:cd19489 1 GGGLRTGEITELVGESSSGKTQLCLTAAANVaSRSGQNVLYID 43
|
|
| AAA_25 |
pfam13481 |
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins. |
128-268 |
7.90e-04 |
|
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.
Pssm-ID: 463892 [Multi-domain] Cd Length: 193 Bit Score: 40.06 E-value: 7.90e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 128 LGGGLPKGRVVEIYGPESSGKTTLALH---AIA--------EVQKLGGNAMLVDAE--------------HAFDPAYSKA 182
Cdd:pfam13481 26 IKGLLPAGGLGLLAGAPGTGKTTLALDlaaAVAtgkpwlggPRVPEQGKVLYVSAEgpadelrrrlraagADLDLPARLL 105
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 183 LGVDVENLIVCQPDNGEMALETA-DRMCRS----GAVDLICVDSVSALTPRAEiEGEIGMQQMGlqarlmsQALRKMsgn 257
Cdd:pfam13481 106 FLSLVESLPLFFLDRGGPLLDADvDALEAAleevEDPDLVVIDPLARALGGDE-NSNSDVGRLV-------KALDRL--- 174
|
170
....*....|.
gi 145327737 258 ASKAGCTLIFL 268
Cdd:pfam13481 175 ARRTGATVLLV 185
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
96-233 |
1.67e-03 |
|
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: 39.44 E-value: 1.67e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 96 SSFGKGSVTRLGSAGGALVETFSSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEHAF 175
Cdd:cd01121 43 ASPSPSKPLPLSDVEAEEEERISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYVSGEESL 122
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 176 DPAYSKA--LGVDVENLIVCQPDNGEMALETADRMCrsgaVDLICVDSVSALTpRAEIEG 233
Cdd:cd01121 123 SQIKLRAerLGLGSDNLYLLAETNLEAILAEIEELK----PSLVVIDSIQTVY-SPELTS 177
|
|
| PRK09302 |
PRK09302 |
circadian clock protein KaiC; Reviewed |
118-240 |
1.73e-03 |
|
circadian clock protein KaiC; Reviewed
Pssm-ID: 236461 [Multi-domain] Cd Length: 509 Bit Score: 39.86 E-value: 1.73e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 118 SSGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALHAIAEVQKLGGNAMLVDAEHAFDPAY--SKALGVDVENL----- 190
Cdd:PRK09302 256 SSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEESRAQLIrnARSWGIDLEKMeekgl 335
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*
gi 145327737 191 --IVC-QPDNG--EMALETADRMCRSGAVDLICVDSVSALtprAEIEGEIGMQQM 240
Cdd:PRK09302 336 lkIICaRPESYglEDHLIIIKREIEEFKPSRVAIDPLSAL---ARGGSLNEFRQF 387
|
|
| RecA-like_CDC48_NLV2_r1-like |
cd19503 |
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ... |
127-266 |
4.02e-03 |
|
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410911 [Multi-domain] Cd Length: 165 Bit Score: 37.66 E-value: 4.02e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 127 ALGGGLPKGrvVEIYGPESSGKTTLAlHAIAEVqkLGGNAMLVDAehafdPA-YSKALGVDVENLivcqpdngEMALETA 205
Cdd:cd19503 28 ALGLKPPRG--VLLHGPPGTGKTLLA-RAVANE--AGANFLSISG-----PSiVSKYLGESEKNL--------REIFEEA 89
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 145327737 206 drmcRSGAVDLICVDSVSALTP-RAEIEGEIGmqqmglqARLMSQALRKMSGNASKAGCTLI 266
Cdd:cd19503 90 ----RSHAPSIIFIDEIDALAPkREEDQREVE-------RRVVAQLLTLMDGMSSRGKVVVI 140
|
|
| NadR3 |
COG3172 |
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase ... |
136-158 |
7.67e-03 |
|
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase is part of the Pathway/BioSystem: NAD biosynthesis
Pssm-ID: 442405 [Multi-domain] Cd Length: 178 Bit Score: 36.72 E-value: 7.67e-03
10 20
....*....|....*....|...
gi 145327737 136 RVVeIYGPESSGKTTLAlHAIAE 158
Cdd:COG3172 10 KIV-LLGAESTGKTTLA-RALAA 30
|
|
| AAA_24 |
pfam13479 |
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins. |
134-267 |
9.44e-03 |
|
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.
Pssm-ID: 433243 Cd Length: 199 Bit Score: 36.92 E-value: 9.44e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145327737 134 KGRVVEIYGPESSGKTTLALHAiaevqklgGNAMLVDAEHAFDPAYSKALGVDVENL--IVCQPDNGEMAlETADRMCrs 211
Cdd:pfam13479 1 KKLKILIYGPSGIGKTTFAKTL--------PKPLFLDTEKGSKALDGDRFPDIVIRDswQDFLDAIDELT-AAELADY-- 69
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 145327737 212 gavDLICVDSVSALTPRA------------EIEGEIGMQQMGLQARLMSQALRKMsgnaSKAGCTLIF 267
Cdd:pfam13479 70 ---KTIVIDTVDWLERLClayickqngkgsSIEDGGYGKGYGELGEEFRRLLDAL----QELGKNVIF 130
|
|
| PRK09302 |
PRK09302 |
circadian clock protein KaiC; Reviewed |
119-154 |
9.75e-03 |
|
circadian clock protein KaiC; Reviewed
Pssm-ID: 236461 [Multi-domain] Cd Length: 509 Bit Score: 37.55 E-value: 9.75e-03
10 20 30
....*....|....*....|....*....|....*.
gi 145327737 119 SGILTLDLALGGGLPKGRVVEIYGPESSGKTTLALH 154
Cdd:PRK09302 15 TGIEGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQ 50
|
|
| |
