|
Name |
Accession |
Description |
Interval |
E-value |
| recomb_RAD51 |
TIGR02239 |
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ... |
25-339 |
0e+00 |
|
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: 660.26 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 25 ISRLEQCGINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVPMGFTTATEFHQRRSEIIQITT 104
Cdd:TIGR02239 1 IEKLEGNGITAADIKKLQEAGLHTVESVAYAPKKQLLEIKGISEAKADKILAEAAKLVPMGFTTATEFHQRRQEVIQLTT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 105 GSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSD 184
Cdd:TIGR02239 81 GSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYGLNPED 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 185 VLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVV 264
Cdd:TIGR02239 161 VLDNVAYARAYNTDHQLQLLQQAAAMMSESRFALLIVDSATALYRTDFSGRGELSARQMHLARFLRSLQRLADEFGVAVV 240
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 564342420 265 ITNQVVAQVDGAA-MFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGDAKD 339
Cdd:TIGR02239 241 ITNQVVAQVDGAGsMFAGDPKKPIGGNIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAMFAIYEDGIGDPKE 316
|
|
| PTZ00035 |
PTZ00035 |
Rad51 protein; Provisional |
4-339 |
0e+00 |
|
Rad51 protein; Provisional
Pssm-ID: 185407 [Multi-domain] Cd Length: 337 Bit Score: 622.40 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 4 QMQLEANADTSVEEESfGPQPISRLEQCGINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVP 83
Cdd:PTZ00035 3 ESQNEQQEEEEEEEAE-GFQEIEKLQSAGINAADIKKLKEAGICTVESVAYATKKDLCNIKGISEAKVEKIKEAASKLVP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 84 MGFTTATEFHQRRSEIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTE 163
Cdd:PTZ00035 82 MGFISATEYLEARKNIIRITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTE 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 164 GTFRPERLLAVAERYGLSGSDVLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQM 243
Cdd:PTZ00035 162 GTFRPERIVQIAERFGLDPEDVLDNIAYARAYNHEHQMQLLSQAAAKMAEERFALLIVDSATALFRVDYSGRGELAERQQ 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 244 HLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEA 323
Cdd:PTZ00035 242 HLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVADPKKPIGGHIIAHASTTRLSLRKGRGEQRICKIYDSPNLPES 321
|
330
....*....|....*.
gi 564342420 324 EAMFAINADGVGDAKD 339
Cdd:PTZ00035 322 EAVFAISEGGIIDAKD 337
|
|
| PLN03186 |
PLN03186 |
DNA repair protein RAD51 homolog; Provisional |
1-339 |
0e+00 |
|
DNA repair protein RAD51 homolog; Provisional
Pssm-ID: 178728 [Multi-domain] Cd Length: 342 Bit Score: 610.58 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 1 MAMQMQLEANADTSVEEESFGPQPISRLEQCGINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKADKILAEAAK 80
Cdd:PLN03186 4 AVAAAAAQAMQEEEEEEAAHGPFPIEQLQASGIAALDIKKLKDAGIHTVESLAYAPKKDLLQIKGISEAKVEKILEAASK 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 81 LVPMGFTTATEFHQRRSEIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYI 160
Cdd:PLN03186 84 LVPLGFTTASQLHAQRQEIIQITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYI 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 161 DTEGTFRPERLLAVAERYGLSGSDVLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSA 240
Cdd:PLN03186 164 DTEGTFRPQRLIQIAERFGLNGADVLENVAYARAYNTDHQSELLLEAASMMAETRFALMIVDSATALYRTEFSGRGELSA 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 241 RQMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCL 320
Cdd:PLN03186 244 RQMHLGKFLRSLQRLADEFGVAVVITNQVVAQVDGSAFFAGPQLKPIGGNIMAHASTTRLALRKGRGENRICKVISSPCL 323
|
330
....*....|....*....
gi 564342420 321 PEAEAMFAINADGVGDAKD 339
Cdd:PLN03186 324 PEAEARFSISSEGVTDVKD 342
|
|
| Rad51 |
cd19513 |
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ... |
102-336 |
0e+00 |
|
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: 552.69 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLS 181
Cdd:cd19513 1 ITTGSKELDKLLGGGIETGSITELFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYGLN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 182 GSDVLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGV 261
Cdd:cd19513 81 GEDVLDNVAYARAYNTDHQMQLLIQASAMMAESRYALLIVDSATALYRTDYSGRGELSARQMHLAKFLRMLQRLADEFGV 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 564342420 262 AVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGD 336
Cdd:cd19513 161 AVVITNQVVAQVDGAAMFAGDPKKPIGGNIMAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAVFAITEDGIGD 235
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
84-337 |
0e+00 |
|
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: 524.56 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 84 MGFTTATEFHQRRSEIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTE 163
Cdd:pfam08423 1 MGFTTATELHQRRSELIQITTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLCVTCQLPLEMGGGEGKALYIDTE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 164 GTFRPERLLAVAERYGLSGSDVLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQM 243
Cdd:pfam08423 81 GTFRPERLVAIAERYGLDPEDVLDNVAYARAYNSEHQMQLLQQAAAMMSESRFALLIVDSATALYRTDFSGRGELAERQQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 244 HLARFLRMLLRLADEFGVAVVITNQVVAQVDGAA-MFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPE 322
Cdd:pfam08423 161 HLAKFLRTLQRLADEFGVAVVITNQVVAQVDGAAgMFSGDPKKPIGGHIMAHASTTRLSLRKGRGEQRICKIYDSPCLPE 240
|
250
....*....|....*
gi 564342420 323 AEAMFAINADGVGDA 337
Cdd:pfam08423 241 SEAVFAIGSGGIIDP 255
|
|
| Rad51_DMC1_archRadA |
cd01123 |
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ... |
102-335 |
6.07e-166 |
|
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: 461.61 E-value: 6.07e-166
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLS 181
Cdd:cd01123 1 ITTGSKELDKLLGGGIETGSITEMFGEFRTGKTQLCHTLAVTCQLPIDRGGGEGKAIYIDTEGTFRPERLRAIAQRFGLD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 182 GSDVLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGV 261
Cdd:cd01123 81 PDDVLDNVAYARAFNSDHQTQLLDQAAAMMVESRFKLLIVDSATALYRTDYSGRGELSARQMHLAKFLRMLQRLADEFGV 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 564342420 262 AVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVG 335
Cdd:cd01123 161 AVVVTNQVVAQVDGAMMFAADPKKPIGGNILAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAVFAITADGVG 234
|
|
| PLN03187 |
PLN03187 |
meiotic recombination protein DMC1 homolog; Provisional |
4-339 |
2.22e-153 |
|
meiotic recombination protein DMC1 homolog; Provisional
Pssm-ID: 215620 [Multi-domain] Cd Length: 344 Bit Score: 434.20 E-value: 2.22e-153
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 4 QMQLEANADTSVEEESFgpQPISRLEQCGINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVP 83
Cdd:PLN03187 12 QLQLVEAEEVDEEEDLF--ESIDKLISQGINAGDVKKLQDAGIYTCNGLMMHTKKNLTGIKGLSEAKVDKICEAAEKLLN 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 84 MGFTTATEFHQRRSEIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTE 163
Cdd:PLN03187 90 QGFITGSDALLKRKSVVRITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTE 169
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 164 GTFRPERLLAVAERYGLSGSDVLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQM 243
Cdd:PLN03187 170 GTFRPDRIVPIAERFGMDADAVLDNIIYARAYTYEHQYNLLLGLAAKMAEEPFRLLIVDSVIALFRVDFTGRGELAERQQ 249
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 244 HLARFLRMLLRLADEFGVAVVITNQVVAQvDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEA 323
Cdd:PLN03187 250 KLAQMLSRLTKIAEEFNVAVYMTNQVIAD-PGGGMFISDPKKPAGGHVLAHAATIRLMLRKGKGEQRVCKVFDAPNLPEA 328
|
330
....*....|....*.
gi 564342420 324 EAMFAINADGVGDAKD 339
Cdd:PLN03187 329 EAEFQITSGGIMDAKD 344
|
|
| recomb_DMC1 |
TIGR02238 |
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ... |
25-337 |
1.53e-151 |
|
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: 428.43 E-value: 1.53e-151
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 25 ISRLEQCGINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVPMGFTTATEFHQRRSEIIQITT 104
Cdd:TIGR02238 1 IDKLQAHGINAADIKKLKSAGICTVNGVIMTTRRALCKIKGLSEAKVDKIKEAASKIINPGFITAFEISQKRKKVLKITT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 105 GSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSD 184
Cdd:TIGR02238 81 GSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFGVDPDA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 185 VLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVV 264
Cdd:TIGR02238 161 VLDNILYARAYTSEHQMELLDYLAAKFSEEPFRLLIVDSIMALFRVDFSGRGELSERQQKLAQMLSRLNKISEEFNVAVF 240
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 564342420 265 ITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGDA 337
Cdd:TIGR02238 241 VTNQVQADPGATMTFIADPKKPIGGHVLAHASTTRILLRKGRGEERVAKLYDSPDMPEAEASFQITEGGIADA 313
|
|
| DMC1 |
cd19514 |
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ... |
102-336 |
2.31e-137 |
|
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: 389.41 E-value: 2.31e-137
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLS 181
Cdd:cd19514 1 ISTGSTELDKLLGGGIESMSITEVFGEFRTGKTQLSHTLCVTAQLPGSMGGGGGKVAYIDTEGTFRPDRIRPIAERFGVD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 182 GSDVLDNVAYARGFNTDHQTQLLYQASAMMVES-RYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFG 260
Cdd:cd19514 81 HDAVLDNILYARAYTSEHQMELLDYVAAKFHEEaVFRLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYN 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 564342420 261 VAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGD 336
Cdd:cd19514 161 VAVFITNQVTADPGAAMTFQADPKKPIGGHILAHASTTRISLRKGRGEERIAKIYDSPDLPENEATFAITAGGIAD 236
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
32-337 |
1.70e-135 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 387.70 E-value: 1.70e-135
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 32 GINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVPM-GFTTATEFHQRRSEIIQITTGSKELD 110
Cdd:PRK04301 13 GVGPATAEKLREAGYDTVEAIAVASPKELSEAAGIGESTAAKIIEAAREAADIgGFETALEVLERRKNVGKITTGSKELD 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 111 KLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVA 190
Cdd:PRK04301 93 ELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALGLDPDEVLDNIH 172
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 191 YARGFNTDHQTQLLYQASAMMVESR-YALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQV 269
Cdd:PRK04301 173 VARAYNSDHQMLLAEKAEELIKEGEnIKLVIVDSLTAHFRAEYVGRGNLAERQQKLNKHLHDLLRLADLYNAAVVVTNQV 252
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 564342420 270 VAQVDgaaMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGDA 337
Cdd:PRK04301 253 MARPD---AFFGDPTQPIGGHILGHTATFRIYLRKSKGNKRIARLVDSPHLPEGEAVFRITEEGIRDA 317
|
|
| recomb_radA |
TIGR02236 |
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ... |
32-336 |
3.75e-121 |
|
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: 350.97 E-value: 3.75e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 32 GINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVPMG-FTTATEFHQRRSEIIQITTGSKELD 110
Cdd:TIGR02236 6 GVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISEGTAAKIIQAARKAADLGgFETADDVLERRKTIGKITTGSKELD 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 111 KLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVA 190
Cdd:TIGR02236 86 ELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEARGLDPDEVLKNIY 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 191 YARGFNTDHQTQLLYQASAMMVE--SRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQ 268
Cdd:TIGR02236 166 VARAYNSNHQMLLVEKAEDLIKElnNPVKLLIVDSLTSHFRAEYVGRGALAERQQKLNKHLHDLLRLADLYNAAVVVTNQ 245
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 564342420 269 VVAQVDgaaMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGD 336
Cdd:TIGR02236 246 VMARPD---AFFGDPTRPIGGHILGHAATFRVYLRKGKGDKRIARLVDSPHLPEGEAVFRITEKGIED 310
|
|
| archRadA |
cd19515 |
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ... |
102-336 |
5.09e-115 |
|
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: 332.79 E-value: 5.09e-115
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLS 181
Cdd:cd19515 1 ISTGSKELDKLLGGGIETQAITEVFGEFGSGKTQLCHQLAVNVQLPPEEGGLNGKAVYIDTENTFRPERIMQMAKALGLD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 182 GSDVLDNVAYARGFNTDHQTQLLYQASAMMVESR-YALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFG 260
Cdd:cd19515 81 PDEVLDNIYVARAYNSNHQMLLVEKAEDLIKEGNnIKLLIVDSLTSHFRAEYVGRGTLAERQQKLNKHLHDLHRLADLYN 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 564342420 261 VAVVITNQVVAQVDgaaMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGD 336
Cdd:cd19515 161 IAVLVTNQVMAKPD---AFFGDPTQAIGGHILGHAATFRVYLRKGKGGKRIARLVDSPHLPEGEAVFRITEKGIED 233
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
120-304 |
4.06e-49 |
|
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: 162.52 E-value: 4.06e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 120 GSITEMFGEFRTGKTQICHTLAVTCQLpidrggGEGKAMYIDTEGTFRPERLLAVAERYGLSGSD---VLDNVAYARGFN 196
Cdd:cd01393 1 GKITEIYGPPGSGKTQLALQLAANALL------LGGGVVWIDTEGAFPPSRLVQILEASPSSELElaeALSRLLYFRPPD 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 197 TDHQTQLL-YQASAMMVESRYALLIVDSATALYRTDY----SGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQVVA 271
Cdd:cd01393 75 TLAHLLALdSLPESLFPPPNTSLVVVDSVSALFRKAFprggDGDSSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTT 154
|
170 180 190
....*....|....*....|....*....|...
gi 564342420 272 QVDGaaMFAADPKKPIGGNIIAHASTTRLYLRK 304
Cdd:cd01393 155 KIRG--GSGASLVPPALGNTWEHSVSTRLLLYR 185
|
|
| XRCC3 |
cd19491 |
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ... |
109-321 |
7.77e-45 |
|
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: 153.60 E-value: 7.77e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 109 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDV--- 185
Cdd:cd19491 1 LDELLGGGIPVGGITEIAGESGAGKTQLCLQLALTVQLPRELGGLGGGAVYICTESSFPSKRLQQLASSLPKRYHLEkak 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 186 --LDNVAYARGFNTDHQTQLL-YQASAMMVESRYALLIVDSATALYRTDY-SGRGELSARQMHLARFLRMLLRLADEFGV 261
Cdd:cd19491 81 nfLDNIFVEHVADLETLEHCLnYQLPALLERGPIRLVVIDSIAALFRSEFdTSRSDLVERAKYLRRLADHLKRLADKYNL 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 262 AVVITNQVVAQVD------------GAAMFAADPKKPIGGNII-------AHASTTRLYLRKGRGET----------RIC 312
Cdd:cd19491 161 AVVVVNQVTDRFDsssdasglgvldYLSQFSSFSGGVSGNRKVpalgltwANLVNTRLMLSRTPKRItdssaasisvRRL 240
|
....*....
gi 564342420 313 KIYDSPCLP 321
Cdd:cd19491 241 EVVFSPHLP 249
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
102-334 |
1.36e-43 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 149.63 E-value: 1.36e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCqlpIDRGggeGKAMYIDTEGtFRPERLLAVAeryGLS 181
Cdd:PRK09361 5 LPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEA---AKNG---KKVIYIDTEG-LSPERFKQIA---GED 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 182 GSDVLDNVAYARGFNTDHQTQLLyQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGV 261
Cdd:PRK09361 75 FEELLSNIIIFEPSSFEEQSEAI-RKAEKLAKENVGLIVLDSATSLYRLELEDEEDNSKLNRELGRQLTHLLKLARKHDL 153
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 564342420 262 AVVITNQVVAQVDGAAMfaadpkKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAE-AMFAINADGV 334
Cdd:PRK09361 154 AVVITNQVYSDIDSDGL------RPLGGHTLEHWSKTILRLEKFRNGKRRATLEKHRSRPEGEsAEFRITDRGI 221
|
|
| archRadB |
cd01394 |
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ... |
102-334 |
1.04e-42 |
|
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: 147.08 E-value: 1.04e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQlpidRGGgeGKAMYIDTEGtFRPERLLAVAeryGLS 181
Cdd:cd01394 1 LSTGSKSLDSLLGGGVERGTITQIYGPPGSGKTNICLQLAVEAA----KQG--KKVVYIDTEG-LSPERFQQIA---GER 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 182 GSDVLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARqmhLARFLRMLLRLADEFGV 261
Cdd:cd01394 71 FESIASNIIVFEPYSFDEQGVAIQEAEKLLKSDKVDLVVVDSATALYRLELGDDSEANRE---LSRQMSKLLSIARKYDI 147
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 564342420 262 AVVITNQVVAQVDgaamfaADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAE-AMFAINADGV 334
Cdd:cd01394 148 PVVITNQVYSDID------DDRLKPVGGTLLEHWSKAIIRLEKSPPGLRRATLEKHRSRPEGQsAGFRITDRGI 215
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
110-318 |
7.04e-38 |
|
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: 134.75 E-value: 7.04e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 110 DKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAER-----------Y 178
Cdd:cd19493 1 DTALAGGLPLGAITEITGASGSGKTQFALTLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIAEArfpeafsgfmeE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 179 GLSGSDVLDNVAYARgfnTDHQTQLLYQASAM---MVESRYALLIVDSATALYRTDYSG-RGELSARQMHLARFLRMLLR 254
Cdd:cd19493 81 NERAEEMLKRVAVVR---VTTLAQLLERLPNLeehILSSGVRLVVIDSIAALVRREFGGsDGEVTERHNALAREASSLKR 157
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 564342420 255 LADEFGVAVVITNQVVAQVDGAAMFAADPKKPIgGNIIAHASTTRLYLRKGRG-ETRICKIYDSP 318
Cdd:cd19493 158 LAEEFRIAVLVTNQATTHFGDAGDGSSGVTAAL-GDAWAHAVNTRLRLERCLLqLRRVLEIVKSP 221
|
|
| recomb_radB |
TIGR02237 |
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ... |
109-334 |
1.82e-36 |
|
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: 130.61 E-value: 1.82e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 109 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQlpidrgGGEGKAMYIDTEGtFRPERLLAVAERyglSGSDVLDN 188
Cdd:TIGR02237 1 IDELLGGGVERGTITQIYGPPGSGKTNICMILAVNAA------RQGKKVVYIDTEG-LSPERFKQIAED---RPERALSN 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 189 VAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSgrGELSARQMHLARFLRMLLRLADEFGVAVVITNQ 268
Cdd:TIGR02237 71 FIVFEVFDFDEQGVAIQKTSKFIDRDSASLVVVDSFTALYRLELS--DDRISRNRELARQLTLLLSLARKKNLAVVITNQ 148
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 564342420 269 VVAQVDGaamfaaDPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGV 334
Cdd:TIGR02237 149 VYTDVNN------GTLRPLGGHLLEHWSKVILRLEKFRGRRLATLEKHRSRPEGESVYFRITDDGI 208
|
|
| Rad51C |
cd19492 |
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
120-318 |
1.62e-31 |
|
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: 116.55 E-value: 1.62e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 120 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFrperllavaeryglsgsdvldNVAYARGFNTDH 199
Cdd:cd19492 1 GKITEICGVPGVGKTQLCMQLAVNVQIPKCFGGLAGEAIYIDTEGSF---------------------NIHYFRVHDYVE 59
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 200 QTQLLYQASAMMVE-SRYALLIVDSATALYRTDYSGrgeLSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQV--DGA 276
Cdd:cd19492 60 LLALINSLPKFLEDhPKVKLIVVDSIAFPFRHDFDD---LAQRTRLLNGLAQLLHSLARQHNLAVVLTNQVTTKIseDGQ 136
|
170 180 190 200
....*....|....*....|....*....|....*....|..
gi 564342420 277 AMFAadpkkPIGGNIIAHASTTRLYLRKGRGEtRICKIYDSP 318
Cdd:cd19492 137 SQLV-----PALGESWSHACTTRLFLTWDEKQ-RFAHLYKSP 172
|
|
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
114-304 |
2.58e-23 |
|
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: 95.78 E-value: 2.58e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 114 QGGIETGSITEMFGEFRTGKTQICHTLA--VTCQLPIdrgggegKAMYIDTEGTFRPERLLAVAE-RYGLSGS--DVLDN 188
Cdd:cd19489 1 GGGLRTGEITELVGESSSGKTQLCLTAAanVASRSGQ-------NVLYIDTKSSFSARRLAQILKsRAQDAEEidKALQR 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 189 VAYARGFNTDHQTQLLYQASAMM------VESRYALLIVDSATAL---YRTDYS---GRGELsarqMHLARFLRmllRLA 256
Cdd:cd19489 74 IRVVRVFDPYELLDLLEELRNTLsqqqenLYSRLKLVIIDSLSALispLLGGSKhseGHALL----ASLARLLK---KLA 146
|
170 180 190 200
....*....|....*....|....*....|....*....|....*...
gi 564342420 257 DEFGVAVVITNQVVaqVDGAAMFAADPkKPIGGNIIAHASTTRLYLRK 304
Cdd:cd19489 147 AEYQIAVLVTNLTV--RGGDGGQQGST-KPALGEYWESVPSTRLLLSR 191
|
|
| RecA |
COG0468 |
RecA/RadA recombinase [Replication, recombination and repair]; |
94-305 |
3.50e-23 |
|
RecA/RadA recombinase [Replication, recombination and repair];
Pssm-ID: 440236 [Multi-domain] Cd Length: 351 Bit Score: 98.32 E-value: 3.50e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 94 QRRSEIIQITTGSKELDKLL-QGGIETGSITEMFGEFRTGKTQICHTLAVTCQLpidRGGGegkAMYIDTEGTFRPERll 172
Cdd:COG0468 36 KARQDVEVISTGSLALDIALgVGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK---AGGI---AAFIDAEHALDPEY-- 107
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 173 avAERYGLSgsdvLDNVAYARGFNTDHQTQLLyqasAMMVESRYALLIV-DSATALY-RTDYSGR-GE----LSARQMHL 245
Cdd:COG0468 108 --AKKLGVD----IDNLLVSQPDTGEQALEIA----ETLVRSGAVDLIVvDSVAALVpKAEIEGEmGDshvgLQARLMSQ 177
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 246 ArfLRMLLRLADEFGVAVVITNQVVAQVDgaAMFaADPKKPIGGNIIAHASTTRLYLRKG 305
Cdd:COG0468 178 A--LRKLTGAISKSNTTVIFINQLREKIG--VMF-GNPETTTGGNALKFYASVRLDIRRI 232
|
|
| XRCC2 |
cd19490 |
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ... |
120-268 |
3.72e-14 |
|
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: 70.84 E-value: 3.72e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 120 GSITEMFGEFRTGKTQICHTLAVTCQLP-----IDRGGGEGKAMYIDTEGTFRPERLLAVAERY-------GLSGSDV-- 185
Cdd:cd19490 1 GDVIEITGPSGSGKTELLYHLAARCILPsswggVPLGGLEAAVVFIDTDGRFDILRLRSILEARiraaiqaANSSDDEed 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 186 --------LDNVAYARGFNTDHQTQLLYQASAMMVESRY----ALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLL 253
Cdd:cd19490 81 veeiarecLQRLHIFRCHSSLQLLATLLSLENYLLSLSAnpelGLLLIDSISAFYWQDRFSAELARAAPLLQEAALRAIL 160
|
170
....*....|....*....
gi 564342420 254 ----RLADEFGVAVVITNQ 268
Cdd:cd19490 161 relrRLRRRFQLVVIATKQ 179
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
112-310 |
1.74e-11 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 64.15 E-value: 1.74e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 112 LLQGGIETGSITEMFGEFRTGKT----QIChtLAVTCQLP-IDRGGGEGKAMYIDTEGTFRP--ERLLAVAERYGLSGSD 184
Cdd:COG3598 5 LVPGLLPEGGVTLLAGPPGTGKSflalQLA--AAVAAGGPwLGRRVPPGKVLYLAAEDDRGElrRRLKALGADLGLPFAD 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 185 VLDNVAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDysgrgELSARQMhlARFLRMLLRLADEFGVAVV 264
Cdd:COG3598 83 LDGRLRLLSLAGDLDDTDDLEALERAIEEEGPDLVVIDPLARVFGGD-----ENDAEEM--RAFLNPLDRLAERTGAAVL 155
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 564342420 265 ItnqvVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETR 310
Cdd:COG3598 156 L----VHHTGKGGAGKDSGDRARGSSALRGAARSVLVLSREKGEDL 197
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
102-282 |
2.45e-11 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 62.63 E-value: 2.45e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVtcqlpidRGGGEG-KAMYIDTEgtFRPERLLAVAERYGL 180
Cdd:COG0467 2 VPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTLALQFLA-------EGLRRGeKGLYVSFE--ESPEQLLRRAESLGL 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 181 SGSDVLDN------VAYARGFNTDHqTQLLYQASAMMVESRYALLIVDSATALYRtdysgrgeLSARQMHLARFLRMLLR 254
Cdd:COG0467 73 DLEEYIESgllriiDLSPEELGLDL-EELLARLREAVEEFGAKRVVIDSLSGLLL--------ALPDPERLREFLHRLLR 143
|
170 180 190
....*....|....*....|....*....|..
gi 564342420 255 LADEFGVAVVITNQV----VAQVDGAAMFAAD 282
Cdd:COG0467 144 YLKKRGVTTLLTSETggleDEATEGGLSYLAD 175
|
|
| RecA |
cd00983 |
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
102-305 |
3.45e-10 |
|
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: 59.49 E-value: 3.45e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLL-QGGIETGSITEMFGEFRTGKTqichTLAVTCQLPIDRGGgeGKAMYIDTEGTFRPErllaVAERYGL 180
Cdd:cd00983 5 IPTGSLSLDIALgIGGLPRGRIIEIYGPESSGKT----TLALHAIAEAQKLG--GTAAFIDAEHALDPE----YAKKLGV 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 181 SgsdvLDNVAYARgfnTDHQTQLLYQASAMMVESRYALLIVDSATALY-RTDYSgrGELSARQMHL-AR----FLRMLLR 254
Cdd:cd00983 75 D----IDNLLVSQ---PDTGEQALEIADTLIRSGAVDLIVVDSVAALVpKAEIE--GEMGDSHVGLqARlmsqALRKLTG 145
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|.
gi 564342420 255 LADEFGVAVVITNQVVAQVdgAAMFAAdPKKPIGGNIIAHASTTRLYLRKG 305
Cdd:cd00983 146 SLSKSKTTVIFINQLREKI--GVMFGN-PETTTGGNALKFYASVRLDIRRI 193
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
32-80 |
3.53e-08 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 49.41 E-value: 3.53e-08
10 20 30 40
....*....|....*....|....*....|....*....|....*....
gi 564342420 32 GINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKADKILAEAAK 80
Cdd:pfam14520 9 GIGPKTALALLSAGIGTVEDLAEADVDELAEIPGIGEKTAQRIILELRD 57
|
|
| AAA_25 |
pfam13481 |
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins. |
88-266 |
7.09e-08 |
|
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: 52.00 E-value: 7.09e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 88 TATEFHQRRSEIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTC-----QLPIDRGGGEGKAMYIDT 162
Cdd:pfam13481 1 TAEPLELLDVLADGLAAPPPPRRWLIKGLLPAGGLGLLAGAPGTGKTTLALDLAAAVatgkpWLGGPRVPEQGKVLYVSA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 163 EGTFR--PERLLAVAERYGLSGS-DVLDNVAYARGFNTDHQTQLLYQASAMMVES-----RYALLIVDSATALYrtdysG 234
Cdd:pfam13481 81 EGPADelRRRLRAAGADLDLPARlLFLSLVESLPLFFLDRGGPLLDADVDALEAAleeveDPDLVVIDPLARAL-----G 155
|
170 180 190
....*....|....*....|....*....|..
gi 564342420 235 RGELSARQMhlARFLRMLLRLADEFGVAVVIT 266
Cdd:pfam13481 156 GDENSNSDV--GRLVKALDRLARRTGATVLLV 185
|
|
| RecA |
pfam00154 |
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ... |
94-304 |
4.37e-07 |
|
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: 50.48 E-value: 4.37e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 94 QRRSEIIQITTGSKELDKLLQ-GGIETGSITEMFGEFRTGKTQIchTLAVTCQlpIDRGGgeGKAMYIDTEGTFRPerll 172
Cdd:pfam00154 25 EKKLDVETISTGSLALDIALGiGGYPKGRIIEIYGPESSGKTTL--ALHAIAE--AQKAG--GTAAFIDAEHALDP---- 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 173 AVAERYGLSgsdvLDNVAYARgfnTDHQTQLLYQASAMMVESRYALLIVDSATALY-RTDYSGR-GE----LSARQMHLA 246
Cdd:pfam00154 95 VYAKKLGVD----IDNLLVSQ---PDTGEQALEIADMLVRSGAIDLIVVDSVAALVpKAEIEGEmGDshvgLQARLMSQA 167
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 564342420 247 rfLRMLLRLADEFGVAVVITNQVVAQVdgAAMFaADPKKPIGGNIIAHASTTRLYLRK 304
Cdd:pfam00154 168 --LRKLTGSISKSNTTVIFINQIREKI--GVMF-GNPETTTGGRALKFYASVRLDIRR 220
|
|
| PRK06067 |
PRK06067 |
flagellar accessory protein FlaH; Validated |
102-266 |
1.60e-06 |
|
flagellar accessory protein FlaH; Validated
Pssm-ID: 180381 Cd Length: 234 Bit Score: 48.43 E-value: 1.60e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTqichtlaVTCQLPIDRGGGEGKAM-YIDTEGTFRpeRLLAVAERYGL 180
Cdd:PRK06067 7 ISTGNEELDRKLGGGIPFPSLILIEGDHGTGKS-------VLSQQFVYGALKQGKKVyVITTENTSK--SYLKQMESVKI 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 181 SGSDVldnvaYARGF-------------NTDHQTQLLYQASAMMVESRYALLIVDSATALyrTDYsgrgelsARQMHLAR 247
Cdd:PRK06067 78 DISDF-----FLWGYlrifplntegfewNSTLANKLLELIIEFIKSKREDVIIIDSLTIF--ATY-------AEEDDILN 143
|
170
....*....|....*....
gi 564342420 248 FLRMLLRLADEfGVAVVIT 266
Cdd:PRK06067 144 FLTEAKNLVDL-GKTILIT 161
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
97-269 |
9.54e-05 |
|
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: 43.29 E-value: 9.54e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 97 SEIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKT----QICHTLAvtcqlpidrgGGEGKAMYIDTEGTfrPERLL 172
Cdd:cd01121 59 EEEERISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKStlllQVAARLA----------QRGGKVLYVSGEES--LSQIK 126
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 173 AVAERYGLSGSDV-------LDNVAyargfntdhqtqllyqasAMMVESRYALLIVDSATALYRTDYSG--------RgE 237
Cdd:cd01121 127 LRAERLGLGSDNLyllaetnLEAIL------------------AEIEELKPSLVVIDSIQTVYSPELTSspgsvsqvR-E 187
|
170 180 190
....*....|....*....|....*....|..
gi 564342420 238 LSARqmhlarflrmLLRLADEFGVAVVITNQV 269
Cdd:cd01121 188 CAAE----------LLRLAKETGIPVFLVGHV 209
|
|
| RepA_RSF1010_like |
cd01125 |
Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family ... |
155-265 |
1.99e-04 |
|
Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family includes the homo-hexameric replicative helicase RepA encoded by plasmid RSF1010. RSF1010 is found in most Gram-negative bacteria and some Gram-positive bacteria . The RepA protein of Plasmid RSF1010 is a 5'-3' DNA helicase which can utilize ATP, dATP, GTP and dGTP (and CTP and dCTP to a lesser extent).
Pssm-ID: 410870 Cd Length: 238 Bit Score: 42.37 E-value: 1.99e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 155 GKAMYIDTEGTFR--PERLLAVAERYGLSGSDVLDN--VAYARGFNTDHQTQLLYQASAMMVESRYALLIVDSataLYRT 230
Cdd:cd01125 40 GRVVYLAAEDPRDglRRRLKAIGAHLGDEDAALAENlvIENLRGKPVSIDAEAPELERIIEELEGVRLIIIDT---LARV 116
|
90 100 110
....*....|....*....|....*....|....*
gi 564342420 231 DYSGRgELSARQMhlARFLRMLLRLADEFGVAVVI 265
Cdd:cd01125 117 LHGGD-ENDAADM--GAFVAGLDRIARETGAAVLL 148
|
|
| PRK09302 |
PRK09302 |
circadian clock protein KaiC; Reviewed |
88-163 |
4.70e-04 |
|
circadian clock protein KaiC; Reviewed
Pssm-ID: 236461 [Multi-domain] Cd Length: 509 Bit Score: 41.79 E-value: 4.70e-04
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 564342420 88 TATEFHQRRSEIIqITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQI-CHTLAVTCQlpidrgGGEgKAMYIDTE 163
Cdd:PRK09302 242 TAMRLTQRSSNER-ISSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLaSKFAEAACR------RGE-RCLLFAFE 310
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
102-310 |
8.17e-04 |
|
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.
Pssm-ID: 410869 [Multi-domain] Cd Length: 222 Bit Score: 40.32 E-value: 8.17e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTcQLPIDrgggeGKAMYIDTEGTfrPERLLAVAERYG-- 179
Cdd:cd01124 1 VKTGIPGLDELLGGGIPKGSVTLLTGGPGTGKTLFGLQFLYA-GAKNG-----EPGLFFTFEES--PERLLRNAKSFGwd 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564342420 180 LSGSDVLDNVAY-------ARGFNTDHQTQLLYQASAMMVESRyalLIVDSATALYRtdysgrgeLSARQMHLARFLRML 252
Cdd:cd01124 73 FDEMEDEGKLIIvdappteAGRFSLDELLSRILSIIKSFKAKR---VVIDSLSGLRR--------AKEDQMRARRIVIAL 141
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 564342420 253 LRLADEFGVAVVITNQV------VAQVDGAAMFAADpkkpiggNIIahasttRLYLRKGRGETR 310
Cdd:cd01124 142 LNELRAAGVTTIFTSEMrsflssESAGGGDVSFIVD-------GVI------LLRYVEIEGELR 192
|
|
| FlaH |
COG2874 |
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility]; |
102-137 |
1.22e-03 |
|
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];
Pssm-ID: 442121 Cd Length: 230 Bit Score: 39.82 E-value: 1.22e-03
10 20 30
....*....|....*....|....*....|....*.
gi 564342420 102 ITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQIC 137
Cdd:COG2874 3 ISTGNDELDKRLGGGIPLGSLVLIEGENGTGKSVLS 38
|
|
| MUS81 |
COG1948 |
ERCC4-type crossover junction endonuclease [Replication, recombination and repair]; |
41-74 |
3.11e-03 |
|
ERCC4-type crossover junction endonuclease [Replication, recombination and repair];
Pssm-ID: 441551 [Multi-domain] Cd Length: 214 Bit Score: 38.23 E-value: 3.11e-03
10 20 30
....*....|....*....|....*....|....
gi 564342420 41 LEEagYHTVEAVAYAPKKELINIKGISEAKADKI 74
Cdd:COG1948 172 LEH--FGSVEAVFNASEEELMKVEGIGEKTAERI 203
|
|
| nusA_Cterm_rpt |
TIGR01954 |
transcription termination factor NusA, C-terminal duplication; NusA is a bacterial ... |
33-78 |
4.47e-03 |
|
transcription termination factor NusA, C-terminal duplication; NusA is a bacterial transcription termination factor. It is named for its interaction with phage lambda protein N, as part of the N utilization substance. Some members of the NusA family have a long C-terminal extension. This model represents an acidic 50-residue region found in two copies toward the C-terminus of most Proteobacterial NusA proteins, spaced about 26 residues apart. Analogous C-terminal extensions in some other bacterial lineages lack apparent homology but appear similarly acidic. [Transcription, Transcription factors]
Pssm-ID: 273894 [Multi-domain] Cd Length: 50 Bit Score: 34.97 E-value: 4.47e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 564342420 33 INANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKADKILAEA 78
Cdd:TIGR01954 1 INEEIAQLLVEEGFTTVEDLAYVPIDELLSIEGFDEETAKELINRA 46
|
|
| PRK08533 |
PRK08533 |
flagellar accessory protein FlaH; Reviewed |
98-141 |
6.16e-03 |
|
flagellar accessory protein FlaH; Reviewed
Pssm-ID: 181459 Cd Length: 230 Bit Score: 37.74 E-value: 6.16e-03
10 20 30 40
....*....|....*....|....*....|....*....|....
gi 564342420 98 EIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLA 141
Cdd:PRK08533 2 ELAKIELSRDELHKRLGGGIPAGSLILIEGDESTGKSILSQRLA 45
|
|
| |
