|
Name |
Accession |
Description |
Interval |
E-value |
| RecA |
COG0468 |
RecA/RadA recombinase [Replication, recombination and repair]; |
1-355 |
0e+00 |
|
RecA/RadA recombinase [Replication, recombination and repair];
Pssm-ID: 440236 [Multi-domain] Cd Length: 351 Bit Score: 534.75 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 1 MAKKAVT--REDILEQALSDIRGRFGEGAIMRLGDEVQRAVEVIHSGILPLDVALGIGGVPRGRIVEIFGPEGGGKTTIA 78
Cdd:COG0468 1 MAKKVASseKEKALEAALSQIEKQFGKGSIMRLGDKARQDVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 79 LHILAEAQKAGGIAAFIDAEHALDPRLAASLGVDTANLYLSQPDSGEQAFYILDTLVRSGAVDLVVVDSVAALTPQAEID 158
Cdd:COG0468 81 LHAIAEAQKAGGIAAFIDAEHALDPEYAKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 159 GRMDEGgkQVGLHARLMSYALRRLTAAIAKSNTTVIFINQLRAQISSGYsqGPTETTTGGRALKFYSSVRIEVRRGKQVT 238
Cdd:COG0468 161 GEMGDS--HVGLQARLMSQALRKLTGAISKSNTTVIFINQLREKIGVMF--GNPETTTGGNALKFYASVRLDIRRIGTIK 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 239 RGDEVIGHELYIKVVKNKQAPPFRTAHTTLIYGKGVPKGMAVLDMALDREILKRKGSWIAYKGETLGQGKDAVASYIEEH 318
Cdd:COG0468 237 DGDEVIGNRTRVKVVKNKVAPPFKEAEFDIMYGEGISKEGELLDLAVELGIIEKSGAWYSYGGERLGQGRENAKQFLKEN 316
|
330 340 350
....*....|....*....|....*....|....*..
gi 2537728641 319 PELMDEITKEVLDKVaaGLGLADEPAKQEEHEESALE 355
Cdd:COG0468 317 PELAEEIEAKIREKL--GLGAVSEAAAAEEEEDEEEE 351
|
|
| recA |
PRK09354 |
recombinase A; Provisional |
8-357 |
0e+00 |
|
recombinase A; Provisional
Pssm-ID: 236476 [Multi-domain] Cd Length: 349 Bit Score: 508.95 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 8 REDILEQALSDIRGRFGEGAIMRLGDEVQRAVEVIHSGILPLDVALGIGGVPRGRIVEIFGPEGGGKTTIALHILAEAQK 87
Cdd:PRK09354 7 KQKALEAALKQIEKQFGKGSIMRLGDDAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 88 AGGIAAFIDAEHALDPRLAASLGVDTANLYLSQPDSGEQAFYILDTLVRSGAVDLVVVDSVAALTPQAEIDGRMdeGGKQ 167
Cdd:PRK09354 87 AGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEM--GDSH 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 168 VGLHARLMSYALRRLTAAIAKSNTTVIFINQLRAQIssGYSQGPTETTTGGRALKFYSSVRIEVRRGKQVTRGDEVIGHE 247
Cdd:PRK09354 165 VGLQARLMSQALRKLTGNISKSNTTVIFINQIREKI--GVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIGNR 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 248 LYIKVVKNKQAPPFRTAHTTLIYGKGVPKGMAVLDMALDREILKRKGSWIAYKGETLGQGKDAVASYIEEHPELMDEITK 327
Cdd:PRK09354 243 TKVKVVKNKVAPPFKQAEFDIMYGEGISREGELIDLGVELGIIEKSGAWYSYNGEKIGQGRENAKQYLKENPELADEIEK 322
|
330 340 350
....*....|....*....|....*....|
gi 2537728641 328 EVLDKvaagLGLADEPAKQEEHEESALEDN 357
Cdd:PRK09354 323 KIREK----LGLSAAAAEEEEEEDEEEEEE 348
|
|
| tigrfam_recA |
TIGR02012 |
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ... |
8-329 |
7.80e-164 |
|
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: 461.45 E-value: 7.80e-164
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 8 REDILEQALSDIRGRFGEGAIMRLGDEVQRAVEVIHSGILPLDVALGIGGVPRGRIVEIFGPEGGGKTTIALHILAEAQK 87
Cdd:TIGR02012 2 KQKALEAALAQIEKQFGKGSIMRLGEKTVMDVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQK 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 88 AGGIAAFIDAEHALDPRLAASLGVDTANLYLSQPDSGEQAFYILDTLVRSGAVDLVVVDSVAALTPQAEIDGRMdeGGKQ 167
Cdd:TIGR02012 82 AGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEM--GDSH 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 168 VGLHARLMSYALRRLTAAIAKSNTTVIFINQLRAQIssGYSQGPTETTTGGRALKFYSSVRIEVRRGKQVTRGDEVIGHE 247
Cdd:TIGR02012 160 VGLQARLMSQALRKLTGALSKSNTTAIFINQIREKI--GVMFGNPETTTGGNALKFYASVRLDIRRIGTVKQGEEVVGNR 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 248 LYIKVVKNKQAPPFRTAHTTLIYGKGVPKGMAVLDMALDREILKRKGSWIAYKGETLGQGKDAVASYIEEHPELMDEITK 327
Cdd:TIGR02012 238 TKVKVVKNKVAPPFREAEFDILYGEGISKLGEIIDLAVELDIIKKSGSWYSYGDEKLGQGRENAKAFLKENPELAQEIEK 317
|
..
gi 2537728641 328 EV 329
Cdd:TIGR02012 318 KV 319
|
|
| RecA |
cd00983 |
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
39-276 |
1.85e-143 |
|
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: 406.17 E-value: 1.85e-143
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 39 VEVIHSGILPLDVALGIGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEHALDPRLAASLGVDTANLYL 118
Cdd:cd00983 2 VEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLLV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 119 SQPDSGEQAFYILDTLVRSGAVDLVVVDSVAALTPQAEIDGRMDEggKQVGLHARLMSYALRRLTAAIAKSNTTVIFINQ 198
Cdd:cd00983 82 SQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGD--SHVGLQARLMSQALRKLTGSLSKSKTTVIFINQ 159
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2537728641 199 LRAQISSGYsqGPTETTTGGRALKFYSSVRIEVRRGKQVTRGDEVIGHELYIKVVKNKQAPPFRTAHTTLIYGKGVPK 276
Cdd:cd00983 160 LREKIGVMF--GNPETTTGGNALKFYASVRLDIRRIELIKEGEDVIGNRTKVKVVKNKVAPPFKQAEFDILYGEGISR 235
|
|
| RecA |
pfam00154 |
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ... |
11-274 |
8.54e-143 |
|
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: 405.63 E-value: 8.54e-143
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 11 ILEQALSDIRGRFGEGAIMRLGDEVQRAVEVIHSGILPLDVALGIGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGG 90
Cdd:pfam00154 2 ALEAALKQIEKQFGKGSIMKLGDEKKLDVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAGG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 91 IAAFIDAEHALDPRLAASLGVDTANLYLSQPDSGEQAFYILDTLVRSGAVDLVVVDSVAALTPQAEIDGRMdeGGKQVGL 170
Cdd:pfam00154 82 TAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEM--GDSHVGL 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 171 HARLMSYALRRLTAAIAKSNTTVIFINQLRAQIssGYSQGPTETTTGGRALKFYSSVRIEVRRGKQVTRGDEVIGHELYI 250
Cdd:pfam00154 160 QARLMSQALRKLTGSISKSNTTVIFINQIREKI--GVMFGNPETTTGGRALKFYASVRLDIRRIGQIKQGEEVIGNKTKV 237
|
250 260
....*....|....*....|....
gi 2537728641 251 KVVKNKQAPPFRTAHTTLIYGKGV 274
Cdd:pfam00154 238 KVVKNKVAPPFKEAEFDIMYGEGI 261
|
|
| recA |
PRK09519 |
intein-containing recombinase RecA; |
8-256 |
5.23e-95 |
|
intein-containing recombinase RecA;
Pssm-ID: 77219 [Multi-domain] Cd Length: 790 Bit Score: 300.47 E-value: 5.23e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 8 REDILEQALSDIRGRFGEGAIMRLGDEVQRAVEVIHSGILPLDVALGIGGVPRGRIVEIFGPEGGGKTTIALHILAEAQK 87
Cdd:PRK09519 7 REKALELAVAQIEKSYGKGSVMRLGDEARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQA 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 88 AGGIAAFIDAEHALDPRLAASLGVDTANLYLSQPDSGEQAFYILDTLVRSGAVDLVVVDSVAALTPQAEIDGRMdeGGKQ 167
Cdd:PRK09519 87 AGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEM--GDSH 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 168 VGLHARLMSYALRRLTAAIAKSNTTVIFINQLRAQIssGYSQGPTETTTGGRALKFYSSVRIEVRRGKQVTRGDEVIGHE 247
Cdd:PRK09519 165 VGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKI--GVMFGSPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGNR 242
|
....*....
gi 2537728641 248 LYIKVVKNK 256
Cdd:PRK09519 243 TRVKVVKNK 251
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
61-233 |
1.21e-39 |
|
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: 139.02 E-value: 1.21e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 61 GRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEHALDP-RLAASL----------GVDTANLYLSQPDSGEQAFY 129
Cdd:cd01393 1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIDTEGAFPPsRLVQILeaspsselelAEALSRLLYFRPPDTLAHLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 130 ILDTLVRSGA----VDLVVVDSVAALTPQAEIDGRMDEggKQVGLHARLMSYALRRLTAAIAKSNTTVIFINQLRAQISS 205
Cdd:cd01393 81 ALDSLPESLFpppnTSLVVVDSVSALFRKAFPRGGDGD--SSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTKIRG 158
|
170 180
....*....|....*....|....*...
gi 2537728641 206 GYSQGPtETTTGGRALKFYSSVRIEVRR 233
Cdd:cd01393 159 GSGASL-VPPALGNTWEHSVSTRLLLYR 185
|
|
| archRadB |
cd01394 |
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ... |
42-246 |
1.65e-19 |
|
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: 85.83 E-value: 1.65e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 42 IHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEhALDP-RLAASLGVDT----ANL 116
Cdd:cd01394 1 LSTGSKSLDSLLG-GGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTE-GLSPeRFQQIAGERFesiaSNI 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 117 YLSQPDS-GEQAFYILDT--LVRSGAVDLVVVDSVAALTPQAEIDG--RMDEGGKQVGLharLMSYAlrrltaaiAKSNT 191
Cdd:cd01394 79 IVFEPYSfDEQGVAIQEAekLLKSDKVDLVVVDSATALYRLELGDDseANRELSRQMSK---LLSIA--------RKYDI 147
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*
gi 2537728641 192 TVIFINQLRAQISSGYSQGptettTGGRALKFYSSVRIEVRRGKQVTRGDEVIGH 246
Cdd:cd01394 148 PVVITNQVYSDIDDDRLKP-----VGGTLLEHWSKAIIRLEKSPPGLRRATLEKH 197
|
|
| recA |
PRK09519 |
intein-containing recombinase RecA; |
224-344 |
5.92e-17 |
|
intein-containing recombinase RecA;
Pssm-ID: 77219 [Multi-domain] Cd Length: 790 Bit Score: 82.45 E-value: 5.92e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 224 YSSVR--IEVRRGKQVTRGDEVIGHELYIKVVKNKQAPPFRTAHTTLIYGKGVPKGMAVLDMALDREILKRKGSWIAYKG 301
Cdd:PRK09519 657 YSVIRevLPTRRARTFDLEVEELHTLVAEGVVVHNCSPPFKQAEFDILYGKGISREGSLIDMGVDQGLIRKSGAWFTYEG 736
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 2537728641 302 ETLGQGKDAVASYIEEHPELMDEITKEVLDKVAAGLGLADEPA 344
Cdd:PRK09519 737 EQLGQGKENARNFLVENADVADEIEKKIKEKLGIGAVVTDDPS 779
|
|
| COG4544 |
COG4544 |
Uncharacterized conserved protein [Function unknown]; |
14-202 |
1.09e-16 |
|
Uncharacterized conserved protein [Function unknown];
Pssm-ID: 443609 [Multi-domain] Cd Length: 230 Bit Score: 78.43 E-value: 1.09e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 14 QALSDIRGRfgegaIMRLGDEVQRAVEVIHSGILPLDVALGIGGVPRGRIVEIFGPEGG-GKTTIALHILAEAQKAGGIA 92
Cdd:COG4544 6 TALAALRRR-----IWRGEGLAAAARAVLPTGFAALDAALPGGGLPRGALHEILGPAPGiGELGLLLPLLARLAQAGGPV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 93 AFIDAEHALDPRLAASLGVDTANLYLSQPDSGEQAFYILDTLVRSGAVDLVVVDsVAALTPQaeidgrmdeggkqvglha 172
Cdd:COG4544 81 LWIAPPYDLYAPGLAAAGLDPERLLLVRARRPADALWAAEEALRSGACGAVVAW-LERLDLT------------------ 141
|
170 180 190
....*....|....*....|....*....|
gi 2537728641 173 rlmsyALRRLTAAIAKSNTTVIFINQLRAQ 202
Cdd:COG4544 142 -----ASRRLQLAAEAGGVLGFLLRPARAA 166
|
|
| recomb_radB |
TIGR02237 |
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ... |
49-234 |
3.76e-15 |
|
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: 73.60 E-value: 3.76e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 49 LDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEHALDPRLAASLGVDT----ANLYLSQP-DS 123
Cdd:TIGR02237 1 IDELLG-GGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQIAEDRPeralSNFIVFEVfDF 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 124 GEQAFYILDT--LVRSGAVDLVVVDSVAALTpqaeidgRMDEGGKQVGLHARLMSyALRRLTAAIAKSNTTVIFINQLRA 201
Cdd:TIGR02237 80 DEQGVAIQKTskFIDRDSASLVVVDSFTALY-------RLELSDDRISRNRELAR-QLTLLLSLARKKNLAVVITNQVYT 151
|
170 180 190
....*....|....*....|....*....|....*
gi 2537728641 202 QISSGYSQgptetTTGGRALKFYSS--VRIEVRRG 234
Cdd:TIGR02237 152 DVNNGTLR-----PLGGHLLEHWSKviLRLEKFRG 181
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
40-234 |
1.34e-13 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 69.51 E-value: 1.34e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 40 EVIHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEhALDP-RLAASLGVD----TA 114
Cdd:PRK09361 3 ERLPTGCKMLDELLG-GGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPeRFKQIAGEDfeelLS 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 115 NLYLSQP-DSGEQAFYILDT--LVRSGaVDLVVVDSVAALTpQAEIDGRMDEG------GKQVGLharLMSYAlrrltaa 185
Cdd:PRK09361 81 NIIIFEPsSFEEQSEAIRKAekLAKEN-VGLIVLDSATSLY-RLELEDEEDNSklnrelGRQLTH---LLKLA------- 148
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|.
gi 2537728641 186 iAKSNTTVIFINQLRAQISSGysqgpTETTTGGRALKFYSS--VRIEVRRG 234
Cdd:PRK09361 149 -RKHDLAVVITNQVYSDIDSD-----GLRPLGGHTLEHWSKtiLRLEKFRN 193
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
42-214 |
3.84e-12 |
|
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: 64.98 E-value: 3.84e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 42 IHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEHALDP--RLAASLG------VDT 113
Cdd:cd01124 1 VKTGIPGLDELLG-GGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAKNGEPGLFFTFEESPERllRNAKSFGwdfdemEDE 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 114 ANLYLSQPDSGEQAFYILDTL-------VRSGAVDLVVVDSVAALTPQAEIDGRMDEggkqvglharlmsyALRRLTAAI 186
Cdd:cd01124 80 GKLIIVDAPPTEAGRFSLDELlsrilsiIKSFKAKRVVIDSLSGLRRAKEDQMRARR--------------IVIALLNEL 145
|
170 180
....*....|....*....|....*...
gi 2537728641 187 AKSNTTVIFINQLRAQISSGYSQGPTET 214
Cdd:cd01124 146 RAAGVTTIFTSEMRSFLSSESAGGGDVS 173
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
42-201 |
1.28e-11 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 63.78 E-value: 1.28e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 42 IHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEHALDP--RLAASLGVDTANLY-- 117
Cdd:COG0467 2 VPTGIPGLDELLG-GGLPRGSSTLLSGPPGTGKTTLALQFLAEGLRRGEKGLYVSFEESPEQllRRAESLGLDLEEYIes 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 118 ----------LSQPDSGEQAFYILDTLVRSGAVDLVVVDSVAALTpQAEIDGRMdeggkqvglhARLMsyaLRRLTAAIA 187
Cdd:COG0467 81 gllriidlspEELGLDLEELLARLREAVEEFGAKRVVIDSLSGLL-LALPDPER----------LREF---LHRLLRYLK 146
|
170
....*....|....
gi 2537728641 188 KSNTTVIFINQLRA 201
Cdd:COG0467 147 KRGVTTLLTSETGG 160
|
|
| XRCC3 |
cd19491 |
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ... |
49-233 |
5.01e-11 |
|
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: 62.31 E-value: 5.01e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 49 LDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQ---KAGGI---AAFIDAEHALDPR----LAASLGvdTANLYL 118
Cdd:cd19491 1 LDELLG-GGIPVGGITEIAGESGAGKTQLCLQLALTVQlprELGGLgggAVYICTESSFPSKrlqqLASSLP--KRYHLE 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 119 SQPDSGEQAFYI----LDT-----------LVRSGAVDLVVVDSVAALTpQAEidgrMDEGGKQVGLHARLM---SYALR 180
Cdd:cd19491 78 KAKNFLDNIFVEhvadLETlehclnyqlpaLLERGPIRLVVIDSIAALF-RSE----FDTSRSDLVERAKYLrrlADHLK 152
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 2537728641 181 RLtaaIAKSNTTVIFINQLRAQISSGYSQGPTETTTGGRALKFYSSVRIEVRR 233
Cdd:cd19491 153 RL---ADKYNLAVVVVNQVTDRFDSSSDASGLGVLDYLSQFSSFSGGVSGNRK 202
|
|
| Rad51_DMC1_archRadA |
cd01123 |
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ... |
42-239 |
1.25e-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: 61.01 E-value: 1.25e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 42 IHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIAlHILA-------EAQKAGGIAAFIDAEHALDP-RL---AASLG 110
Cdd:cd01123 1 ITTGSKELDKLLG-GGIETGSITEMFGEFRTGKTQLC-HTLAvtcqlpiDRGGGEGKAIYIDTEGTFRPeRLraiAQRFG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 111 VDTA----NLYLSQPDSGEQAFYILD---TLVRSGAVDLVVVDSVAALTpQAEIDGRMDEGGKQVGLhARLMSyALRRLT 183
Cdd:cd01123 79 LDPDdvldNVAYARAFNSDHQTQLLDqaaAMMVESRFKLLIVDSATALY-RTDYSGRGELSARQMHL-AKFLR-MLQRLA 155
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 2537728641 184 aaiAKSNTTVIFINQLRAQISSGYS-QGPTETTTGGRALKFYSSVRIEVRRGKQVTR 239
Cdd:cd01123 156 ---DEFGVAVVVTNQVVAQVDGAMMfAADPKKPIGGNILAHASTTRLYLRKGRGETR 209
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
36-239 |
1.43e-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: 61.16 E-value: 1.43e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 36 QRAVEVIH--SGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIAlHILA-------EAQKAGGIAAFIDAEHALDP-RL 105
Cdd:pfam08423 11 QRRSELIQitTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLC-HTLCvtcqlplEMGGGEGKALYIDTEGTFRPeRL 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 106 ---AASLGVDT---------ANLYLSqpDSGEQAFYILDTLVRSGAVDLVVVDSVAALTpQAEIDGRMDEGGKQVGLhAR 173
Cdd:pfam08423 89 vaiAERYGLDPedvldnvayARAYNS--EHQMQLLQQAAAMMSESRFALLIVDSATALY-RTDFSGRGELAERQQHL-AK 164
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2537728641 174 LMSyALRRLTaaiAKSNTTVIFINQLRAQI--SSGYSQGPTETTTGGRALKFYSSVRIEVRRGKQVTR 239
Cdd:pfam08423 165 FLR-TLQRLA---DEFGVAVVITNQVVAQVdgAAGMFSGDPKKPIGGHIMAHASTTRLSLRKGRGEQR 228
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
50-255 |
3.69e-10 |
|
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: 59.26 E-value: 3.69e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 50 DVALGiGGVPRGRIVEIFGPEGGGKTTIALH----ILAEAQKAGGIAA--FIDAEHALD-PRLAAS-------------- 108
Cdd:cd19493 1 DTALA-GGLPLGAITEITGASGSGKTQFALTlassAAMPARKGGLDGGvlYIDTESKFSaERLAEIaearfpeafsgfme 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 109 ----LGVDTANLYLSQPDSGEQAFYILDTL---VRSGAVDLVVVDSVAALTpQAEIDGRMDEGGKQVGLHARLMSyALRR 181
Cdd:cd19493 80 enerAEEMLKRVAVVRVTTLAQLLERLPNLeehILSSGVRLVVIDSIAALV-RREFGGSDGEVTERHNALAREAS-SLKR 157
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2537728641 182 LTaaiAKSNTTVIFINQLRAQISSGYSQGPTETTTGGRALKFYSSVRIevrrgkQVTRGDEVIGHelYIKVVKN 255
Cdd:cd19493 158 LA---EEFRIAVLVTNQATTHFGDAGDGSSGVTAALGDAWAHAVNTRL------RLERCLLQLRR--VLEIVKS 220
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
60-234 |
1.50e-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: 1.50e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 60 RGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEHALDPRLAASLGVDTANLYLSqpDSGEQAFYILDTLVRSGA 139
Cdd:smart00382 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS--GSGELRLRLALALARKLK 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 140 VDLVVVDSVAALTPqaeidgrmdeggkQVGLHARLMSYALRRLTAAIAKSNTTVIFINQLraqissgysqgptETTTGGR 219
Cdd:smart00382 79 PDVLILDEITSLLD-------------AEQEALLLLLEELRLLLLLKSEKNLTVILTTND-------------EKDLGPA 132
|
170
....*....|....*
gi 2537728641 220 ALKFYSSVRIEVRRG 234
Cdd:smart00382 133 LLRRRFDRRIVLLLI 147
|
|
| PLN03186 |
PLN03186 |
DNA repair protein RAD51 homolog; Provisional |
40-244 |
5.88e-09 |
|
DNA repair protein RAD51 homolog; Provisional
Pssm-ID: 178728 [Multi-domain] Cd Length: 342 Bit Score: 57.05 E-value: 5.88e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 40 EVIH--SGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIAlHILA-------EAQKAGGIAAFIDAEHALDP-RL---A 106
Cdd:PLN03186 101 EIIQitTGSRELDKILE-GGIETGSITEIYGEFRTGKTQLC-HTLCvtcqlplDQGGGEGKAMYIDTEGTFRPqRLiqiA 178
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 107 ASLGVDTA----NLYLSQPDSGEQAFYILD---TLVRSGAVDLVVVDSVAALTpQAEIDGRMDeggkqvgLHARLMSYA- 178
Cdd:PLN03186 179 ERFGLNGAdvleNVAYARAYNTDHQSELLLeaaSMMAETRFALMIVDSATALY-RTEFSGRGE-------LSARQMHLGk 250
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2537728641 179 -LRRLTAAIAKSNTTVIFINQLRAQIS-SGYSQGPTETTTGGRALKFYSSVRIEVRRGKQVTRGDEVI 244
Cdd:PLN03186 251 fLRSLQRLADEFGVAVVITNQVVAQVDgSAFFAGPQLKPIGGNIMAHASTTRLALRKGRGENRICKVI 318
|
|
| DMC1 |
cd19514 |
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ... |
42-239 |
3.16e-08 |
|
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: 53.90 E-value: 3.16e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 42 IHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIAlHILA-------EAQKAGGIAAFIDAEHALDP-RL---AASLG 110
Cdd:cd19514 1 ISTGSTELDKLLG-GGIESMSITEVFGEFRTGKTQLS-HTLCvtaqlpgSMGGGGGKVAYIDTEGTFRPdRIrpiAERFG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 111 VDTA----NLYLSQPDSGEQAFYILDTL----VRSGAVDLVVVDSVAALTpQAEIDGRMDEGGKQVGLhARLMSyalrRL 182
Cdd:cd19514 79 VDHDavldNILYARAYTSEHQMELLDYVaakfHEEAVFRLLIIDSIMALF-RVDFSGRGELAERQQKL-AQMLS----RL 152
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 2537728641 183 TAAIAKSNTTVIFINQLRAQISSGYS-QGPTETTTGGRALKFYSSVRIEVRRGKQVTR 239
Cdd:cd19514 153 QKISEEYNVAVFITNQVTADPGAAMTfQADPKKPIGGHILAHASTTRISLRKGRGEER 210
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
7-235 |
7.63e-07 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 50.26 E-value: 7.63e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 7 TREDILEQA--LSDIrGRFgegaimRLGDEV---QRAVEVIHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIAlHI 81
Cdd:PRK04301 51 TAAKIIEAAreAADI-GGF------ETALEVlerRKNVGKITTGSKELDELLG-GGIETQSITEFYGEFGSGKTQIC-HQ 121
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 82 LA-------EAQKAGGIAAFIDAEHALDP----RLAASLGVDTA----NLYLSQP-DSGEQAFYI--LDTLVRSG-AVDL 142
Cdd:PRK04301 122 LAvnvqlpeEKGGLEGKAVYIDTEGTFRPerieQMAEALGLDPDevldNIHVARAyNSDHQMLLAekAEELIKEGeNIKL 201
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 143 VVVDSVAALTpQAEIDGRMDEGGKQVGLHARLmsYALRRLTAAiakSNTTVIFINQLRAQISSGYsqGPTETTTGGRALK 222
Cdd:PRK04301 202 VIVDSLTAHF-RAEYVGRGNLAERQQKLNKHL--HDLLRLADL---YNAAVVVTNQVMARPDAFF--GDPTQPIGGHILG 273
|
250
....*....|...
gi 2537728641 223 FYSSVRIEVRRGK 235
Cdd:PRK04301 274 HTATFRIYLRKSK 286
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
58-350 |
1.23e-06 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 49.51 E-value: 1.23e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 58 VPRGRIVEIFGPEGGGKTTIALHILAEAqkAGGI-----------AAFIDAE---HALDPRLAA-------SLGVDTANL 116
Cdd:COG3598 10 LPEGGVTLLAGPPGTGKSFLALQLAAAV--AAGGpwlgrrvppgkVLYLAAEddrGELRRRLKAlgadlglPFADLDGRL 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 117 YLSQPDSGEQAFYILDTL---VRSGAVDLVVVDSVAALTPQAEIDgrmdeggkqvglhARLMSYALRRLTAAIAKSNTTV 193
Cdd:COG3598 88 RLLSLAGDLDDTDDLEALeraIEEEGPDLVVIDPLARVFGGDEND-------------AEEMRAFLNPLDRLAERTGAAV 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 194 IFINQLRaqiSSGYSQGPTETTTGGRALKFYSSVRIEVRRGKQvtrgdeviGHELYIKVVKNKQAPPFRTAHTTLIYGKG 273
Cdd:COG3598 155 LLVHHTG---KGGAGKDSGDRARGSSALRGAARSVLVLSREKG--------EDLRVLTRAKSNYGPEIALRWDNGGRLAL 223
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2537728641 274 VPKGMAVLDMALDREILKRKGSWIAYKGETLGQGKDAVASYIEEHPELmDEITKEVLDKVAAGLGLADEPAKQEEHE 350
Cdd:COG3598 224 EEVAALTAGAGEVELKELVGGVARTGTDSELEEGLLEVPLAEAESAGE-DAELAAKAVADEKDAARAVARLKAGGGK 299
|
|
| PLN03187 |
PLN03187 |
meiotic recombination protein DMC1 homolog; Provisional |
33-239 |
1.56e-06 |
|
meiotic recombination protein DMC1 homolog; Provisional
Pssm-ID: 215620 [Multi-domain] Cd Length: 344 Bit Score: 49.39 E-value: 1.56e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 33 DEVQRAVEVIH--SGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIAlHILA-------EAQKAGGIAAFIDAEHALDP 103
Cdd:PLN03187 97 DALLKRKSVVRitTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLA-HTLCvttqlptEMGGGNGKVAYIDTEGTFRP 174
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 104 ----RLAASLGVDT----ANLYLSQPDSGEQAFYILDTLVRSGAVD---LVVVDSVAALTpQAEIDGRMDEGGKQVGLha 172
Cdd:PLN03187 175 drivPIAERFGMDAdavlDNIIYARAYTYEHQYNLLLGLAAKMAEEpfrLLIVDSVIALF-RVDFTGRGELAERQQKL-- 251
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2537728641 173 rlmSYALRRLTAAIAKSNTTVIFINQLRAQISSGYSQGPTETTTGGRALKFYSSVRIEVRRGKQVTR 239
Cdd:PLN03187 252 ---AQMLSRLTKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPAGGHVLAHAATIRLMLRKGKGEQR 315
|
|
| recomb_RAD51 |
TIGR02239 |
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ... |
36-239 |
4.42e-06 |
|
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: 47.80 E-value: 4.42e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 36 QRAVEVIH--SGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIAlHILA------EAQKAG-GIAAFIDAEHALDP-RL 105
Cdd:TIGR02239 70 QRRQEVIQltTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLC-HTLAvtcqlpIDQGGGeGKALYIDTEGTFRPeRL 147
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 106 AA---SLGVDTANL-----YLSQPDSGEQafyiLDTLVRSGAV------DLVVVDSVAALTpQAEIDGRMDEGGKQVGLh 171
Cdd:TIGR02239 148 LAiaeRYGLNPEDVldnvaYARAYNTDHQ----LQLLQQAAAMmsesrfALLIVDSATALY-RTDFSGRGELSARQMHL- 221
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 172 ARLMSyALRRLTAAIAksnTTVIFINQLRAQI--SSGYSQGPTETTTGGRALKFYSSVRIEVRRGKQVTR 239
Cdd:TIGR02239 222 ARFLR-SLQRLADEFG---VAVVITNQVVAQVdgAGSMFAGDPKKPIGGNIMAHASTTRLSLRKGRGEQR 287
|
|
| archRadA |
cd19515 |
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ... |
42-235 |
8.77e-06 |
|
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: 46.59 E-value: 8.77e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 42 IHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIAlHILA-------EAQKAGGIAAFIDAEHALDP----RLAASLG 110
Cdd:cd19515 1 ISTGSKELDKLLG-GGIETQAITEVFGEFGSGKTQLC-HQLAvnvqlppEEGGLNGKAVYIDTENTFRPerimQMAKALG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 111 VDTA----NLYLSQP-DSGEQ---AFYILDTLVRSGAVDLVVVDSVAALTpQAEIDGRMDEGGKQVGLHARLmsYALRRL 182
Cdd:cd19515 79 LDPDevldNIYVARAyNSNHQmllVEKAEDLIKEGNNIKLLIVDSLTSHF-RAEYVGRGTLAERQQKLNKHL--HDLHRL 155
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 2537728641 183 TAAIaksNTTVIFINQLRAQISSGYsqGPTETTTGGRALKFYSSVRIEVRRGK 235
Cdd:cd19515 156 ADLY---NIAVLVTNQVMAKPDAFF--GDPTQAIGGHILGHAATFRVYLRKGK 203
|
|
| XRCC2 |
cd19490 |
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ... |
61-198 |
1.57e-05 |
|
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: 45.80 E-value: 1.57e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 61 GRIVEIFGPEGGGKTTIALHILAEA---QKAGGIAA--------FIDAEHALD-PRL-------------AASLGVDTAN 115
Cdd:cd19490 1 GDVIEITGPSGSGKTELLYHLAARCilpSSWGGVPLggleaavvFIDTDGRFDiLRLrsileariraaiqAANSSDDEED 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 116 -----------LYLSQPDSGEQAFYILDTL-------VRSGAVDLVVVDSVAALTPQAeidgRMDEGgkQVGLHARLMSY 177
Cdd:cd19490 81 veeiareclqrLHIFRCHSSLQLLATLLSLenyllslSANPELGLLLIDSISAFYWQD----RFSAE--LARAAPLLQEA 154
|
170 180
....*....|....*....|....*
gi 2537728641 178 ALRRLTAAIAKS----NTTVIFINQ 198
Cdd:cd19490 155 ALRAILRELRRLrrrfQLVVIATKQ 179
|
|
| recomb_DMC1 |
TIGR02238 |
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ... |
34-239 |
1.69e-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: 46.31 E-value: 1.69e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 34 EVQRAVEVIHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIAlHILA-------EAQKAGGIAAFIDAEHALDP--- 103
Cdd:TIGR02238 70 QKRKKVLKITTGSQALDGILG-GGIESMSITEVFGEFRCGKTQLS-HTLCvtaqlprEMGGGNGKVAYIDTEGTFRPdri 147
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 104 -RLAASLGVD----TANLYLSQPDSGEQAFYILDTLVRSGAVD---LVVVDSVAALTpQAEIDGRMDEGGKQVGLhARLM 175
Cdd:TIGR02238 148 rAIAERFGVDpdavLDNILYARAYTSEHQMELLDYLAAKFSEEpfrLLIVDSIMALF-RVDFSGRGELSERQQKL-AQML 225
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2537728641 176 SyalrRLTAAIAKSNTTVIFINQLRAQI-SSGYSQGPTETTTGGRALKFYSSVRIEVRRGKQVTR 239
Cdd:TIGR02238 226 S----RLNKISEEFNVAVFVTNQVQADPgATMTFIADPKKPIGGHVLAHASTTRILLRKGRGEER 286
|
|
| KaiC-like_N |
cd19488 |
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
42-95 |
2.37e-05 |
|
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: 45.03 E-value: 2.37e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 2537728641 42 IHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFI 95
Cdd:cd19488 1 ISTGIPGLDDILR-GGLPPRRLYLVEGAPGTGKTTLALQFLLEGAANGETGLYI 53
|
|
| ATPase |
pfam06745 |
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ... |
44-207 |
3.12e-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: 44.93 E-value: 3.12e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 44 SGILPLDvALGIGGVPRGRIVEIFGPEGGGKTTIALHILAE-AQKAGGIAAFIDA-EHALDPRL-AASLGVDTANLY--- 117
Cdd:pfam06745 3 TGIPGLD-EILKGGFPEGRVVLITGGPGTGKTIFGLQFLYNgALKYGEPGVFVTLeEPPEDLREnARSFGWDLEKLEeeg 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 118 ----------------LSQPDSGEQAFYILDTLVRSGAVDLVVVDSVAALTpqaeidGRMDEGgkqvglHARlmsYALRR 181
Cdd:pfam06745 82 klaiidastsgigiaeVEDRFDLEELIERLREAIREIGAKRVVIDSITTLF------YLLKPA------VAR---EILRR 146
|
170 180
....*....|....*....|....*.
gi 2537728641 182 LTAAIAKSNTTVIFInqlrAQISSGY 207
Cdd:pfam06745 147 LKRVLKGLGVTAIFT----SEKPSGE 168
|
|
| Rad51C |
cd19492 |
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
61-229 |
9.45e-05 |
|
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: 42.60 E-value: 9.45e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 61 GRIVEIFGPEGGGKTTIALHILAEAQ---KAGGI---AAFIDAEhaldprlaASLGVdtanLYLSQPDSGEQ--AFYILD 132
Cdd:cd19492 1 GKITEICGVPGVGKTQLCMQLAVNVQipkCFGGLageAIYIDTE--------GSFNI----HYFRVHDYVELlaLINSLP 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 133 TLVRSGA-VDLVVVDSVAALTpqaeidgRMDEGGKqvGLHARLMSYALRRLTAAIAKSNTTVIFINQLRAQISSGysQGP 211
Cdd:cd19492 69 KFLEDHPkVKLIVVDSIAFPF-------RHDFDDL--AQRTRLLNGLAQLLHSLARQHNLAVVLTNQVTTKISED--GQS 137
|
170
....*....|....*...
gi 2537728641 212 TETTTGGRALKFYSSVRI 229
Cdd:cd19492 138 QLVPALGESWSHACTTRL 155
|
|
| Rap1a |
pfam18602 |
Rap1a immunity proteins; The structures of the immunity proteins, Rap1a, responsible for the ... |
278-324 |
2.90e-04 |
|
Rap1a immunity proteins; The structures of the immunity proteins, Rap1a, responsible for the inhibition and neutralization of Ssp1 endopeptidase, revealed two distinct folds. The structure of the Ssp1-Rap1a complex revealed a tightly bound heteromeric assembly with two effector molecules flanking a Rap1a dimer. The Rap1a subunit displays a compact globular structure constructed from five alpha-helices that assemble to form the highly stable symmetric dimer.
Pssm-ID: 465818 Cd Length: 91 Bit Score: 39.46 E-value: 2.90e-04
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 2537728641 278 MAVLDMALDREILKRKGSWIAYKGETLGQGKDAVASYIEEHPELMDE 324
Cdd:pfam18602 29 AGVVDALAQDRGATEGTLFCLPPGVTPGQLVDAVVAYLKAHPERLHE 75
|
|
| KaiC-like_C |
cd19487 |
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
42-149 |
5.91e-04 |
|
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: 40.75 E-value: 5.91e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 42 IHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAG---GIAAFIDAEHALDPRlAASLG------VD 112
Cdd:cd19487 1 VSSGVPELDELLG-GGLERGTSTLLIGPAGVGKSTLALQFAKAAAARGersVLFSFDESIGTLFER-SEALGidlramVE 78
|
90 100 110 120
....*....|....*....|....*....|....*....|.
gi 2537728641 113 TANLYLSQPDSGE----QAFYILDTLVRSGAVDLVVVDSVA 149
Cdd:cd19487 79 KGLLSIEQIDPAElspgEFAQRVRTSVEQEDARVVVIDSLN 119
|
|
| KaiC_C |
cd19484 |
C-terminal domain of Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most ... |
42-152 |
1.10e-03 |
|
C-terminal domain of 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: 410892 [Multi-domain] Cd Length: 218 Bit Score: 40.00 E-value: 1.10e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 42 IHSGILPLDVALGIGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEHALDP--RLAASLGVDTANLYLS 119
Cdd:cd19484 1 ISTGIPRLDAMLGGGGFFRGSSILVSGATGTGKTLLAASFADAACRRGERCLYFAFEESPAQliRNAKSIGIDLEQMERK 80
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 2537728641 120 Q--------PDSG--EQAFYILDTLVRSGAVDLVVVDSVAALT 152
Cdd:cd19484 81 GllkiicarPELYglEDHLIIIKSEINEFKPSRVIVDPLSALA 123
|
|
| AAA_22 |
pfam13401 |
AAA domain; |
60-155 |
1.84e-03 |
|
AAA domain;
Pssm-ID: 379165 [Multi-domain] Cd Length: 129 Bit Score: 38.09 E-value: 1.84e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 60 RGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEH-----ALDPRLAASLGVDTANLYLSQPDSGeqafYILDTL 134
Cdd:pfam13401 4 GAGILVLTGESGTGKTTLLRRLLEQLPEVRDSVVFVDLPSgtspkDLLRALLRALGLPLSGRLSKEELLA----ALQQLL 79
|
90 100
....*....|....*....|.
gi 2537728641 135 VRSGAVDLVVVDSVAALTPQA 155
Cdd:pfam13401 80 LALAVAVVLIIDEAQHLSLEA 100
|
|
| PRK09302 |
PRK09302 |
circadian clock protein KaiC; Reviewed |
40-112 |
2.04e-03 |
|
circadian clock protein KaiC; Reviewed
Pssm-ID: 236461 [Multi-domain] Cd Length: 509 Bit Score: 39.86 E-value: 2.04e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2537728641 40 EVIHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEHALDP--RLAASLGVD 112
Cdd:PRK09302 253 ERISSGVPDLDEMLG-GGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEESRAQliRNARSWGID 326
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
29-156 |
5.45e-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: 38.28 E-value: 5.45e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 29 MRLGDEVQRAVEVIHSGILPLDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAGGIAAFIDAEHALDP-RLAA 107
Cdd:cd01121 51 LPLSDVEAEEEERISTGIGELDRVLG-GGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYVSGEESLSQiKLRA 129
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 2537728641 108 S-LGVDTANLYLSQPDSGEQafyILDTLVRSGAvDLVVVDSVAAL-TPQAE 156
Cdd:cd01121 130 ErLGLGSDNLYLLAETNLEA---ILAEIEELKP-SLVVIDSIQTVySPELT 176
|
|
| FlaH |
COG2874 |
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility]; |
49-152 |
6.65e-03 |
|
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];
Pssm-ID: 442121 Cd Length: 230 Bit Score: 37.50 E-value: 6.65e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537728641 49 LDVALGiGGVPRGRIVEIFGPEGGGKTTIALHILAEAQKAG----------GIAAFIDAEHAL-----DPRLAASLGVDT 113
Cdd:COG2874 10 LDKRLG-GGIPLGSLVLIEGENGTGKSVLSQQFAYGALENGlsvtyistelTTKEFIKQMKSLsydisDYLLRGRLLFLP 88
|
90 100 110 120
....*....|....*....|....*....|....*....|....
gi 2537728641 114 ANLYLSQPDSgEQAFYILDTLVRSGA-----VDLVVVDSVAALT 152
Cdd:COG2874 89 VHPLGFEWNS-KQRKDLLKRLMKYIAsnlweADVIIIDSLSALL 131
|
|
| |
