|
Name |
Accession |
Description |
Interval |
E-value |
| recomb_DMC1 |
TIGR02238 |
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ... |
24-338 |
0e+00 |
|
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: 596.37 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 24 IDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANKLIEPGFLTAFEYSEKRKMVFHITT 103
Cdd:TIGR02238 1 IDKLQAHGINAADIKKLKSAGICTVNGVIMTTRRALCKIKGLSEAKVDKIKEAASKIINPGFITAFEISQKRKKVLKITT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 104 GSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDA 183
Cdd:TIGR02238 81 GSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFGVDPDA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 184 VLDNVLYARAYTSEHQMELLDYVAAKFHEEagIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVA 263
Cdd:TIGR02238 161 VLDNILYARAYTSEHQMELLDYLAAKFSEE--PFRLLIVDSIMALFRVDFSGRGELSERQQKLAQMLSRLNKISEEFNVA 238
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 23238219 264 VFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGDA 338
Cdd:TIGR02238 239 VFVTNQVQADPGATMTFIADPKKPIGGHVLAHASTTRILLRKGRGEERVAKLYDSPDMPEAEASFQITEGGIADA 313
|
|
| PTZ00035 |
PTZ00035 |
Rad51 protein; Provisional |
2-340 |
0e+00 |
|
Rad51 protein; Provisional
Pssm-ID: 185407 [Multi-domain] Cd Length: 337 Bit Score: 546.90 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 2 KEDQVVAEEpgfqdEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANKLI 81
Cdd:PTZ00035 6 NEQQEEEEE-----EEAEGFQEIEKLQSAGINAADIKKLKEAGICTVESVAYATKKDLCNIKGISEAKVEKIKEAASKLV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 82 EPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDT 161
Cdd:PTZ00035 81 PMGFISATEYLEARKNIIRITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 162 ENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAgiFKLLIIDSIMALFRVDFSGRGELAE 241
Cdd:PTZ00035 161 EGTFRPERIVQIAERFGLDPEDVLDNIAYARAYNHEHQMQLLSQAAAKMAEER--FALLIVDSATALFRVDYSGRGELAE 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 242 RQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEM 321
Cdd:PTZ00035 239 RQQHLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVADPKKPIGGHIIAHASTTRLSLRKGRGEQRICKIYDSPNL 318
|
330
....*....|....*....
gi 23238219 322 PENEATFAITAGGIGDAKE 340
Cdd:PTZ00035 319 PESEAVFAISEGGIIDAKD 337
|
|
| DMC1 |
cd19514 |
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ... |
101-337 |
0e+00 |
|
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: 521.15 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVD 180
Cdd:cd19514 1 ISTGSTELDKLLGGGIESMSITEVFGEFRTGKTQLSHTLCVTAQLPGSMGGGGGKVAYIDTEGTFRPDRIRPIAERFGVD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 181 HDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAgIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEY 260
Cdd:cd19514 81 HDAVLDNILYARAYTSEHQMELLDYVAAKFHEEA-VFRLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEY 159
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 23238219 261 NVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGD 337
Cdd:cd19514 160 NVAVFITNQVTADPGAAMTFQADPKKPIGGHILAHASTTRISLRKGRGEERIAKIYDSPDLPENEATFAITAGGIAD 236
|
|
| PLN03187 |
PLN03187 |
meiotic recombination protein DMC1 homolog; Provisional |
15-340 |
2.70e-169 |
|
meiotic recombination protein DMC1 homolog; Provisional
Pssm-ID: 215620 [Multi-domain] Cd Length: 344 Bit Score: 474.65 E-value: 2.70e-169
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 15 DEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANKLIEPGFLTAFEYSEK 94
Cdd:PLN03187 22 DEEEDLFESIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKNLTGIKGLSEAKVDKICEAAEKLLNQGFITGSDALLK 101
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 95 RKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIA 174
Cdd:PLN03187 102 RKSVVRITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIA 181
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 175 DRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAgiFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQ 254
Cdd:PLN03187 182 ERFGMDADAVLDNIIYARAYTYEHQYNLLLGLAAKMAEEP--FRLLIVDSVIALFRVDFTGRGELAERQQKLAQMLSRLT 259
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 255 KISEEYNVAVFVTNQMTADPGAtMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGG 334
Cdd:PLN03187 260 KIAEEFNVAVYMTNQVIADPGG-GMFISDPKKPAGGHVLAHAATIRLMLRKGKGEQRVCKVFDAPNLPEAEAEFQITSGG 338
|
....*.
gi 23238219 335 IGDAKE 340
Cdd:PLN03187 339 IMDAKD 344
|
|
| Rad51_DMC1_archRadA |
cd01123 |
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ... |
101-336 |
2.57e-160 |
|
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: 447.36 E-value: 2.57e-160
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVD 180
Cdd:cd01123 1 ITTGSKELDKLLGGGIETGSITEMFGEFRTGKTQLCHTLAVTCQLPIDRGGGEGKAIYIDTEGTFRPERLRAIAQRFGLD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 181 HDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEagIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEY 260
Cdd:cd01123 81 PDDVLDNVAYARAFNSDHQTQLLDQAAAMMVES--RFKLLIVDSATALYRTDYSGRGELSARQMHLAKFLRMLQRLADEF 158
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 23238219 261 NVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIG 336
Cdd:cd01123 159 GVAVVVTNQVVAQVDGAMMFAADPKKPIGGNILAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAVFAITADGVG 234
|
|
| recomb_RAD51 |
TIGR02239 |
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ... |
24-340 |
2.44e-153 |
|
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: 433.00 E-value: 2.44e-153
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 24 IDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANKLIEPGFLTAFEYSEKRKMVFHITT 103
Cdd:TIGR02239 1 IEKLEGNGITAADIKKLQEAGLHTVESVAYAPKKQLLEIKGISEAKADKILAEAAKLVPMGFTTATEFHQRRQEVIQLTT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 104 GSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDA 183
Cdd:TIGR02239 81 GSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYGLNPED 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 184 VLDNVLYARAYTSEHQMELLDYVAAKFHEEAgiFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVA 263
Cdd:TIGR02239 161 VLDNVAYARAYNTDHQLQLLQQAAAMMSESR--FALLIVDSATALYRTDFSGRGELSARQMHLARFLRSLQRLADEFGVA 238
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 23238219 264 VFVTNQMTADP-GATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGDAKE 340
Cdd:TIGR02239 239 VVITNQVVAQVdGAGSMFAGDPKKPIGGNIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAMFAIYEDGIGDPKE 316
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
84-338 |
3.34e-153 |
|
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: 430.18 E-value: 3.34e-153
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 84 GFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN 163
Cdd:pfam08423 2 GFTTATELHQRRSELIQITTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLCVTCQLPLEMGGGEGKALYIDTEG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 164 TFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAgiFKLLIIDSIMALFRVDFSGRGELAERQ 243
Cdd:pfam08423 82 TFRPERLVAIAERYGLDPEDVLDNVAYARAYNSEHQMQLLQQAAAMMSESR--FALLIVDSATALYRTDFSGRGELAERQ 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 244 QKLAQMLSRLQKISEEYNVAVFVTNQMTADP-GATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMP 322
Cdd:pfam08423 160 QHLAKFLRTLQRLADEFGVAVVITNQVVAQVdGAAGMFSGDPKKPIGGHIMAHASTTRLSLRKGRGEQRICKIYDSPCLP 239
|
250
....*....|....*.
gi 23238219 323 ENEATFAITAGGIGDA 338
Cdd:pfam08423 240 ESEAVFAIGSGGIIDP 255
|
|
| PLN03186 |
PLN03186 |
DNA repair protein RAD51 homolog; Provisional |
1-340 |
2.66e-152 |
|
DNA repair protein RAD51 homolog; Provisional
Pssm-ID: 178728 [Multi-domain] Cd Length: 342 Bit Score: 431.46 E-value: 2.66e-152
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 1 MKEDQVVAEEPGFQDEEESL-FQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANK 79
Cdd:PLN03186 4 AVAAAAAQAMQEEEEEEAAHgPFPIEQLQASGIAALDIKKLKDAGIHTVESLAYAPKKDLLQIKGISEAKVEKILEAASK 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 80 LIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFI 159
Cdd:PLN03186 84 LVPLGFTTASQLHAQRQEIIQITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYI 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 160 DTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAgiFKLLIIDSIMALFRVDFSGRGEL 239
Cdd:PLN03186 164 DTEGTFRPQRLIQIAERFGLNGADVLENVAYARAYNTDHQSELLLEAASMMAETR--FALMIVDSATALYRTEFSGRGEL 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 240 AERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGAtMTFQADPK-KPIGGHILAHASTTRISLRKGRGELRIAKIYDS 318
Cdd:PLN03186 242 SARQMHLGKFLRSLQRLADEFGVAVVITNQVVAQVDG-SAFFAGPQlKPIGGNIMAHASTTRLALRKGRGENRICKVISS 320
|
330 340
....*....|....*....|..
gi 23238219 319 PEMPENEATFAITAGGIGDAKE 340
Cdd:PLN03186 321 PCLPEAEARFSISSEGVTDVKD 342
|
|
| Rad51 |
cd19513 |
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ... |
101-337 |
3.32e-136 |
|
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: 386.29 E-value: 3.32e-136
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVD 180
Cdd:cd19513 1 ITTGSKELDKLLGGGIETGSITELFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYGLN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 181 HDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAgiFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEY 260
Cdd:cd19513 81 GEDVLDNVAYARAYNTDHQMQLLIQASAMMAESR--YALLIVDSATALYRTDYSGRGELSARQMHLAKFLRMLQRLADEF 158
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 23238219 261 NVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGD 337
Cdd:cd19513 159 GVAVVITNQVVAQVDGAAMFAGDPKKPIGGNIMAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAVFAITEDGIGD 235
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
23-338 |
1.67e-123 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 357.27 E-value: 1.67e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 23 DIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANKLIE-PGFLTAFEYSEKRKMVFHI 101
Cdd:PRK04301 5 EKDLEDLPGVGPATAEKLREAGYDTVEAIAVASPKELSEAAGIGESTAAKIIEAAREAADiGGFETALEVLERRKNVGKI 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 102 TTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDH 181
Cdd:PRK04301 85 TTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALGLDP 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 182 DAVLDNVLYARAYTSEHQMELLDYvAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYN 261
Cdd:PRK04301 165 DEVLDNIHVARAYNSDHQMLLAEK-AEELIKEGENIKLVIVDSLTAHFRAEYVGRGNLAERQQKLNKHLHDLLRLADLYN 243
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 23238219 262 VAVFVTNQMTADPGAtmtFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGDA 338
Cdd:PRK04301 244 AAVVVTNQVMARPDA---FFGDPTQPIGGHILGHTATFRIYLRKSKGNKRIARLVDSPHLPEGEAVFRITEEGIRDA 317
|
|
| recomb_radA |
TIGR02236 |
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ... |
31-337 |
3.41e-117 |
|
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: 340.95 E-value: 3.41e-117
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 31 GINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANKLIEPG-FLTAFEYSEKRKMVFHITTGSQEFD 109
Cdd:TIGR02236 6 GVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISEGTAAKIIQAARKAADLGgFETADDVLERRKTIGKITTGSKELD 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 110 KLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVL 189
Cdd:TIGR02236 86 ELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEARGLDPDEVLKNIY 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 190 YARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQ 269
Cdd:TIGR02236 166 VARAYNSNHQMLLVEKAEDLIKELNNPVKLLIVDSLTSHFRAEYVGRGALAERQQKLNKHLHDLLRLADLYNAAVVVTNQ 245
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 23238219 270 MTADPGAtmtFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGD 337
Cdd:TIGR02236 246 VMARPDA---FFGDPTRPIGGHILGHAATFRVYLRKGKGDKRIARLVDSPHLPEGEAVFRITEKGIED 310
|
|
| archRadA |
cd19515 |
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ... |
101-337 |
1.22e-107 |
|
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: 313.92 E-value: 1.22e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVD 180
Cdd:cd19515 1 ISTGSKELDKLLGGGIETQAITEVFGEFGSGKTQLCHQLAVNVQLPPEEGGLNGKAVYIDTENTFRPERIMQMAKALGLD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 181 HDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIfKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEY 260
Cdd:cd19515 81 PDEVLDNIYVARAYNSNHQMLLVEKAEDLIKEGNNI-KLLIVDSLTSHFRAEYVGRGTLAERQQKLNKHLHDLHRLADLY 159
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 23238219 261 NVAVFVTNQMTADPGAtmtFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENEATFAITAGGIGD 337
Cdd:cd19515 160 NIAVLVTNQVMAKPDA---FFGDPTQAIGGHILGHAATFRVYLRKGKGGKRIARLVDSPHLPEGEAVFRITEKGIED 233
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
121-305 |
7.86e-46 |
|
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: 154.43 E-value: 7.86e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 121 ITEAFGEFRTGKTQLSHTLCVTAQLPGaggypgGKIIFIDTENTFRPDRLRDIA---DRFNVDHDAVLDNVLYARAYTSE 197
Cdd:cd01393 3 ITEIYGPPGSGKTQLALQLAANALLLG------GGVVWIDTEGAFPPSRLVQILeasPSSELELAEALSRLLYFRPPDTL 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 198 HQMELLDYvaakfHEEAGI----FKLLIIDSIMALFRVDF----SGRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQ 269
Cdd:cd01393 77 AHLLALDS-----LPESLFpppnTSLVVVDSVSALFRKAFprggDGDSSSSLRARLLSQLARALQKLAAQFNLAVVVTNQ 151
|
170 180 190
....*....|....*....|....*....|....*.
gi 23238219 270 MTADPGAtmTFQADPKKPIGGHILAHASTTRISLRK 305
Cdd:cd01393 152 VTTKIRG--GSGASLVPPALGNTWEHSVSTRLLLYR 185
|
|
| XRCC3 |
cd19491 |
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ... |
108-305 |
4.91e-42 |
|
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: 146.28 E-value: 4.91e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 108 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRF-----NVDHD 182
Cdd:cd19491 1 LDELLGGGIPVGGITEIAGESGAGKTQLCLQLALTVQLPRELGGLGGGAVYICTESSFPSKRLQQLASSLpkryhLEKAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 183 AVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIfKLLIIDSIMALFRVDF-SGRGELAERQQKLAQMLSRLQKISEEYN 261
Cdd:cd19491 81 NFLDNIFVEHVADLETLEHCLNYQLPALLERGPI-RLVVIDSIAALFRSEFdTSRSDLVERAKYLRRLADHLKRLADKYN 159
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 23238219 262 VAVFVTNQMTADPGA---------------TMTFQADP----KKPIGGHILAHASTTRISLRK 305
Cdd:cd19491 160 LAVVVVNQVTDRFDSssdasglgvldylsqFSSFSGGVsgnrKVPALGLTWANLVNTRLMLSR 222
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
97-335 |
2.36e-41 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 143.85 E-value: 2.36e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 97 MVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTqlshTLCVTAQLPGAGGypGGKIIFIDTENtFRPDRLRDIADR 176
Cdd:PRK09361 1 MDERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKT----NICLQLAVEAAKN--GKKVIYIDTEG-LSPERFKQIAGE 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 177 fnvDHDAVLDNVLYARAYTSEHQ----MELLDYVAAKFheeagifKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSR 252
Cdd:PRK09361 74 ---DFEELLSNIIIFEPSSFEEQseaiRKAEKLAKENV-------GLIVLDSATSLYRLELEDEEDNSKLNRELGRQLTH 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 253 LQKISEEYNVAVFVTNQMTADPGATMTfqadpkKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENE-ATFAIT 331
Cdd:PRK09361 144 LLKLARKHDLAVVITNQVYSDIDSDGL------RPLGGHTLEHWSKTILRLEKFRNGKRRATLEKHRSRPEGEsAEFRIT 217
|
....
gi 23238219 332 AGGI 335
Cdd:PRK09361 218 DRGI 221
|
|
| archRadB |
cd01394 |
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ... |
101-335 |
9.19e-38 |
|
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: 134.36 E-value: 9.19e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAqlpgagGYPGGKIIFIDTENtFRPDRLRDIA-DRFnv 179
Cdd:cd01394 1 LSTGSKSLDSLLGGGVERGTITQIYGPPGSGKTNICLQLAVEA------AKQGKKVVYIDTEG-LSPERFQQIAgERF-- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 180 dhDAVLDNVLYARAYTSEHQMELLDYvAAKFhEEAGIFKLLIIDSIMALFRVDfsgRGELAERQQKLAQMLSRLQKISEE 259
Cdd:cd01394 72 --ESIASNIIVFEPYSFDEQGVAIQE-AEKL-LKSDKVDLVVVDSATALYRLE---LGDDSEANRELSRQMSKLLSIARK 144
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 23238219 260 YNVAVFVTNQMTADpgatmtFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPEMPENE-ATFAITAGGI 335
Cdd:cd01394 145 YDIPVVITNQVYSD------IDDDRLKPVGGTLLEHWSKAIIRLEKSPPGLRRATLEKHRSRPEGQsAGFRITDRGI 215
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
109-319 |
1.16e-34 |
|
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: 126.28 E-value: 1.16e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 109 DKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIA-----------DRF 177
Cdd:cd19493 1 DTALAGGLPLGAITEITGASGSGKTQFALTLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIAearfpeafsgfMEE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 178 NVDHDAVLDNVLYARAYTSEhqmELLDYVAAKFHE--EAGIfKLLIIDSIMALFRVDFSG-RGELAERQQKLAQMLSRLQ 254
Cdd:cd19493 81 NERAEEMLKRVAVVRVTTLA---QLLERLPNLEEHilSSGV-RLVVIDSIAALVRREFGGsDGEVTERHNALAREASSLK 156
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 23238219 255 KISEEYNVAVFVTNQMTADPGATMTFQADPKKPIgGHILAHASTTRISLRKGRG-ELRIAKIYDSP 319
Cdd:cd19493 157 RLAEEFRIAVLVTNQATTHFGDAGDGSSGVTAAL-GDAWAHAVNTRLRLERCLLqLRRVLEIVKSP 221
|
|
| recomb_radB |
TIGR02237 |
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ... |
109-335 |
8.72e-31 |
|
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: 115.59 E-value: 8.72e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 109 DKLLGGGIESMAITEAFGEFRTGKTqlshTLCVTAQLPGAGGypGGKIIFIDTENtFRPDRLRDIADRfnvDHDAVLDNV 188
Cdd:TIGR02237 2 DELLGGGVERGTITQIYGPPGSGKT----NICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQIAED---RPERALSNF 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 189 LYARAYTSEHQMELLDYvAAKFHEEAGiFKLLIIDSIMALFRVDFSGRGELAERQqkLAQMLSRLQKISEEYNVAVFVTN 268
Cdd:TIGR02237 72 IVFEVFDFDEQGVAIQK-TSKFIDRDS-ASLVVVDSFTALYRLELSDDRISRNRE--LARQLTLLLSLARKKNLAVVITN 147
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 23238219 269 QMTADPGatmtfqADPKKPIGGHILAHASTTRISLRKGRGElRIAKIYDSPEMPENE-ATFAITAGGI 335
Cdd:TIGR02237 148 QVYTDVN------NGTLRPLGGHLLEHWSKVILRLEKFRGR-RLATLEKHRSRPEGEsVYFRITDDGI 208
|
|
| Rad51C |
cd19492 |
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
121-319 |
1.16e-28 |
|
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: 108.85 E-value: 1.16e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 121 ITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFrpdrlrdiadrfnvdhdavldNVLYARAYTSEHQM 200
Cdd:cd19492 3 ITEICGVPGVGKTQLCMQLAVNVQIPKCFGGLAGEAIYIDTEGSF---------------------NIHYFRVHDYVELL 61
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 201 ELLDYVAAKFHEEAGIfKLLIIDSIMALFRVDFSGrgeLAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTF 280
Cdd:cd19492 62 ALINSLPKFLEDHPKV-KLIVVDSIAFPFRHDFDD---LAQRTRLLNGLAQLLHSLARQHNLAVVLTNQVTTKISEDGQS 137
|
170 180 190
....*....|....*....|....*....|....*....
gi 23238219 281 QAdpkKPIGGHILAHASTTRISLRKGRGElRIAKIYDSP 319
Cdd:cd19492 138 QL---VPALGESWSHACTTRLFLTWDEKQ-RFAHLYKSP 172
|
|
| RecA |
COG0468 |
RecA/RadA recombinase [Replication, recombination and repair]; |
71-306 |
3.73e-28 |
|
RecA/RadA recombinase [Replication, recombination and repair];
Pssm-ID: 440236 [Multi-domain] Cd Length: 351 Bit Score: 112.19 E-value: 3.73e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 71 DKIKEAANKLIEPGFL--TAFEYSEKRKM-VFHITTGSQEFDKLLG-GGIESMAITEAFGEFRTGKTQLSHTLCVTAQLp 146
Cdd:COG0468 11 EKALEAALSQIEKQFGkgSIMRLGDKARQdVEVISTGSLALDIALGvGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK- 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 147 gaggyPGGKIIFIDTENTFRPDRlrdiADRFNVDhdavLDNVLYARAYTSEHQMELLDYVAakfheEAGIFKLLIIDSIM 226
Cdd:COG0468 90 -----AGGIAAFIDAEHALDPEY----AKKLGVD----IDNLLVSQPDTGEQALEIAETLV-----RSGAVDLIVVDSVA 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 227 ALF-RVDFSGR---GELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGatMTFqADPKKPIGGHILAHASTTRIS 302
Cdd:COG0468 152 ALVpKAEIEGEmgdSHVGLQARLMSQALRKLTGAISKSNTTVIFINQLREKIG--VMF-GNPETTTGGNALKFYASVRLD 228
|
....
gi 23238219 303 LRKG 306
Cdd:COG0468 229 IRRI 232
|
|
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
113-305 |
7.47e-21 |
|
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: 88.85 E-value: 7.47e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 113 GGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLpgaggYPGGKIIFIDTENTFRPDRLRDIAD-RFNVDH--DAVLDNVL 189
Cdd:cd19489 1 GGGLRTGEITELVGESSSGKTQLCLTAAANVAS-----RSGQNVLYIDTKSSFSARRLAQILKsRAQDAEeiDKALQRIR 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 190 YARAYTSEHQMELLDYVAAKFHEE----AGIFKLLIIDSIMALFRVDFSGrgelAERQQKLAQM--LSR-LQKISEEYNV 262
Cdd:cd19489 76 VVRVFDPYELLDLLEELRNTLSQQqenlYSRLKLVIIDSLSALISPLLGG----SKHSEGHALLasLARlLKKLAAEYQI 151
|
170 180 190 200
....*....|....*....|....*....|....*....|...
gi 23238219 263 AVFVTNQMTADPGatMTFQADPkKPIGGHILAHASTTRISLRK 305
Cdd:cd19489 152 AVLVTNLTVRGGD--GGQQGST-KPALGEYWESVPSTRLLLSR 191
|
|
| XRCC2 |
cd19490 |
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ... |
130-305 |
2.60e-13 |
|
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: 68.14 E-value: 2.60e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 130 TGKTQLSHTLCVTAQLP-GAGGYP-GGK---IIFIDTENTFRPDRLRDIAD-RFN------------VDHDAV----LDN 187
Cdd:cd19490 12 SGKTELLYHLAARCILPsSWGGVPlGGLeaaVVFIDTDGRFDILRLRSILEaRIRaaiqaanssddeEDVEEIarecLQR 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 188 VLYARAYTSEH---QMELLDYVAAK--FHEEAGifkLLIIDSIMALFRVDFSGRGELAERQQK----LAQMLSRLQKISE 258
Cdd:cd19490 92 LHIFRCHSSLQllaTLLSLENYLLSlsANPELG---LLLIDSISAFYWQDRFSAELARAAPLLqeaaLRAILRELRRLRR 168
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 23238219 259 EYNVAVFVTNQM-----------TADPGATMTFQADPKKPIGGHILAHASTTRISLRK 305
Cdd:cd19490 169 RFQLVVIATKQAlfpgksastdnPAANNAVSKASAPSHREYLPRPWQRLVTHRLVLSR 226
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
101-335 |
4.52e-12 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 64.55 E-value: 4.52e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLGGGIE---SMAITeafGEFRTGKTQLSHTLCVtaqlpgAGGYPGGKIIFIDTENtfRPDRLRDIADRF 177
Cdd:COG0467 2 VPTGIPGLDELLGGGLPrgsSTLLS---GPPGTGKTTLALQFLA------EGLRRGEKGLYVSFEE--SPEQLLRRAESL 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 178 NVDHDAVLDN--VLYARAYTSEHQM---ELLDYVAAKFHEEAGifKLLIIDSIMALFRvdfsgrgeLAERQQKLAQMLSR 252
Cdd:COG0467 71 GLDLEEYIESglLRIIDLSPEELGLdleELLARLREAVEEFGA--KRVVIDSLSGLLL--------ALPDPERLREFLHR 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 253 LQKISEEYNVAVFVTNQMTADPGatmtfqadpkkPIGGHILAHASTTRISLRK--GRGE----LRIAKIYDSPeMPENEA 326
Cdd:COG0467 141 LLRYLKKRGVTTLLTSETGGLED-----------EATEGGLSYLADGVILLRYveLGGElrraLSVLKMRGSA-HDRTIR 208
|
....*....
gi 23238219 327 TFAITAGGI 335
Cdd:COG0467 209 EFEITDGGI 217
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
101-335 |
2.29e-09 |
|
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: 56.89 E-value: 2.29e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTqlshTLCvtAQLPGAGGYPGGKIIFIDTENTfrPDRLRDIADRFNVD 180
Cdd:cd01124 1 VKTGIPGLDELLGGGIPKGSVTLLTGGPGTGKT----LFG--LQFLYAGAKNGEPGLFFTFEES--PERLLRNAKSFGWD 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 181 HDA--VLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKL--LIIDSIMALFRvdfsgrgeLAERQQKLAQMLSRLQKI 256
Cdd:cd01124 73 FDEmeDEGKLIIVDAPPTEAGRFSLDELLSRILSIIKSFKAkrVVIDSLSGLRR--------AKEDQMRARRIVIALLNE 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 257 SEEYNVAVFVTNQMTADPGATMTfqadpkkpiGGHILAHASTTRISLRK--GRGE----LRIAKIYDSPEMPEnEATFAI 330
Cdd:cd01124 145 LRAAGVTTIFTSEMRSFLSSESA---------GGGDVSFIVDGVILLRYveIEGElrrtIRVLKMRGTGHDTG-THPFEI 214
|
....*
gi 23238219 331 TAGGI 335
Cdd:cd01124 215 TDKGI 219
|
|
| RecA |
pfam00154 |
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ... |
72-326 |
3.90e-09 |
|
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: 56.64 E-value: 3.90e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 72 KIKEAANKLIEPGF-------LTafeySEKRKMVFHITTGSQEFDKLLG-GGIESMAITEAFGEFRTGKTQLshTLCVTA 143
Cdd:pfam00154 1 KALEAALKQIEKQFgkgsimkLG----DEKKLDVETISTGSLALDIALGiGGYPKGRIIEIYGPESSGKTTL--ALHAIA 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 144 QLPGAGGYpggkIIFIDTENTFRPdrlrDIADRFNVDhdavLDNVLYARAYTSEHQMELLDYVAakfheEAGIFKLLIID 223
Cdd:pfam00154 75 EAQKAGGT----AAFIDAEHALDP----VYAKKLGVD----IDNLLVSQPDTGEQALEIADMLV-----RSGAIDLIVVD 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 224 SIMALF-RVDFSgrGELAERQQKL-AQMLSR-LQKIS---EEYNVAVFVTNQMTADPGatMTFqADPKKPIGGHILAHAS 297
Cdd:pfam00154 138 SVAALVpKAEIE--GEMGDSHVGLqARLMSQaLRKLTgsiSKSNTTVIFINQIREKIG--VMF-GNPETTTGGRALKFYA 212
|
250 260
....*....|....*....|....*....
gi 23238219 298 TTRISLRkgrgelRIAKIYDSPEMPENEA 326
Cdd:pfam00154 213 SVRLDIR------RIGQIKQGEEVIGNKT 235
|
|
| RecA |
cd00983 |
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
101-306 |
7.10e-09 |
|
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: 55.64 E-value: 7.10e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLG-GGIESMAITEAFGEFRTGKTQLshTLCVTAQLPGAGGYpggkIIFIDTENTFRPdrlrDIADRFNV 179
Cdd:cd00983 5 IPTGSLSLDIALGiGGLPRGRIIEIYGPESSGKTTL--ALHAIAEAQKLGGT----AAFIDAEHALDP----EYAKKLGV 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 180 DhdavLDNVLYARAYTSEHQMELLDYVAakfheEAGIFKLLIIDSIMALF-RVDFSgrGELAERQQKL-AQMLSR-LQKI 256
Cdd:cd00983 75 D----IDNLLVSQPDTGEQALEIADTLI-----RSGAVDLIVVDSVAALVpKAEIE--GEMGDSHVGLqARLMSQaLRKL 143
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 23238219 257 S---EEYNVAVFVTNQMTADPGatmTFQADPKKPIGGHILAHASTTRISLRKG 306
Cdd:cd00983 144 TgslSKSKTTVIFINQLREKIG---VMFGNPETTTGGNALKFYASVRLDIRRI 193
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
25-79 |
6.54e-05 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 40.16 E-value: 6.54e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*
gi 23238219 25 DLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANK 79
Cdd:pfam14520 3 ELLSISGIGPKTALALLSAGIGTVEDLAEADVDELAEIPGIGEKTAQRIILELRD 57
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
101-273 |
3.56e-04 |
|
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: 41.75 E-value: 3.56e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLShtLCVTAQLPGAggypGGKIIFIDTENTFRPDRLRdiADRFNVD 180
Cdd:cd01121 64 ISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLL--LQVAARLAQR----GGKVLYVSGEESLSQIKLR--AERLGLG 135
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 181 HDAvldnvLYARAYTSehqmelLDYVAAKFHEEAgiFKLLIIDSIMALFRVDFSGR-GELAE-RQqkLAQMLSRLQKise 258
Cdd:cd01121 136 SDN-----LYLLAETN------LEAILAEIEELK--PSLVVIDSIQTVYSPELTSSpGSVSQvRE--CAAELLRLAK--- 197
|
170
....*....|....*
gi 23238219 259 EYNVAVFVTNQMTAD 273
Cdd:cd01121 198 ETGIPVFLVGHVTKD 212
|
|
| AAA_25 |
pfam13481 |
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins. |
109-267 |
6.54e-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: 6.54e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 109 DKLLGGGIESMAITEAFGEFRTGKT----QLShtLCVTAQLPGAGGYP---GGKIIFIDTENTFR--PDRLRDIADRFNV 179
Cdd:pfam13481 23 RWLIKGLLPAGGLGLLAGAPGTGKTtlalDLA--AAVATGKPWLGGPRvpeQGKVLYVSAEGPADelRRRLRAAGADLDL 100
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 180 D-----HDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIfKLLIIDSIMALFRVDFSGRGElaerqqkLAQMLSRLQ 254
Cdd:pfam13481 101 ParllfLSLVESLPLFFLDRGGPLLDADVDALEAALEEVEDP-DLVVIDPLARALGGDENSNSD-------VGRLVKALD 172
|
170
....*....|...
gi 23238219 255 KISEEYNVAVFVT 267
Cdd:pfam13481 173 RLARRTGATVLLV 185
|
|
| ATPase |
pfam06745 |
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ... |
103-335 |
9.89e-04 |
|
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: 39.92 E-value: 9.89e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 103 TGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTaqlpGAG--GYPGgkiIFIDTENTfrPDRLRDIADRFNVD 180
Cdd:pfam06745 3 TGIPGLDEILKGGFPEGRVVLITGGPGTGKTIFGLQFLYN----GALkyGEPG---VFVTLEEP--PEDLRENARSFGWD 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 181 HDAVLDNVLYARAYTSEHqMELLDYVAAKFHEEAGIFKL-----------LIIDSIMALFrvdfsgrgeLAERQQKLAQM 249
Cdd:pfam06745 74 LEKLEEEGKLAIIDASTS-GIGIAEVEDRFDLEELIERLreaireigakrVVIDSITTLF---------YLLKPAVAREI 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 250 LSRLQKISEEYNVAVFVTNQMTADPGAtmtfqadpkkpIGGHILAH-ASTTRISLRKGRGE------LRIAKIYDSPEMP 322
Cdd:pfam06745 144 LRRLKRVLKGLGVTAIFTSEKPSGEGG-----------IGGYGVEEfIVDGVIRLDLKEIEeervrtIEIVKMRGTPHSM 212
|
250
....*....|...
gi 23238219 323 eNEATFAITAGGI 335
Cdd:pfam06745 213 -KRYPFEITDNGI 224
|
|
| FlaH |
COG2874 |
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility]; |
101-276 |
8.29e-03 |
|
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];
Pssm-ID: 442121 Cd Length: 230 Bit Score: 37.12 E-value: 8.29e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 101 ITTGSQEFDKLLGGGI--ESMAITEafGEFRTGKTQLSHTLCVTAQLPGAggypggKIIFIDTENTFRpDRLR------- 171
Cdd:COG2874 3 ISTGNDELDKRLGGGIplGSLVLIE--GENGTGKSVLSQQFAYGALENGL------SVTYISTELTTK-EFIKqmkslsy 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23238219 172 DIADRFnvdhdavLDNVL-------YARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDfsgrgelaeRQQ 244
Cdd:COG2874 74 DISDYL-------LRGRLlflpvhpLGFEWNSKQRKDLLKRLMKYIASNLWEADVIIIDSLSALLRNA---------EES 137
|
170 180 190
....*....|....*....|....*....|..
gi 23238219 245 KLAQMLSRLQKISEEYNVAVfvtnqMTADPGA 276
Cdd:COG2874 138 AILDFITFFKNLVDLGKTII-----LTVHPSA 164
|
|
| |
