|
Name |
Accession |
Description |
Interval |
E-value |
| XRCC3 |
cd19491 |
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ... |
95-311 |
5.98e-96 |
|
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: 284.95 E-value: 5.98e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 95 LDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFPARRLLQMSKACEKRHPEME-L 173
Cdd:cd19491 1 LDELLGGGIPVGGITEIAGESGAGKTQLCLQLALTVQLPRELGGLGGGAVYICTESSFPSKRLQQLASSLPKRYHLEKaK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 174 NFLGNIFVENHIEAEPLLACVINRIPRLMQQHGIGLIIIDSVAAIFRLYNDY-----LERARHMRRLADALLSYADKYNC 248
Cdd:cd19491 81 NFLDNIFVEHVADLETLEHCLNYQLPALLERGPIRLVVIDSIAALFRSEFDTsrsdlVERAKYLRRLADHLKRLADKYNL 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 249 AVVCVNQVATR--------------------------DGQDEIPCLGLQWAHLGRTRLRVSRVPKQHR-MGDQLITVRKL 301
Cdd:cd19491 161 AVVVVNQVTDRfdsssdasglgvldylsqfssfsggvSGNRKVPALGLTWANLVNTRLMLSRTPKRITdSSAASISVRRL 240
|
250
....*....|
gi 17136506 302 EILYSPETPN 311
Cdd:cd19491 241 EVVFSPHLPP 250
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
108-284 |
1.48e-37 |
|
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: 132.86 E-value: 1.48e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 108 ITELCGAAGVGKTQLLLQLSLCVQLprelggLGKGVAYICTESSFPARRLLQMSKACEKRhPEMELNFLGNIFVENHIEA 187
Cdd:cd01393 3 ITEIYGPPGSGKTQLALQLAANALL------LGGGVVWIDTEGAFPPSRLVQILEASPSS-ELELAEALSRLLYFRPPDT 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 188 EPLLACVINRIPRLMQQHGIGLIIIDSVAAIFRlyNDYL----------ERARHMRRLADALLSYADKYNCAVVCVNQVA 257
Cdd:cd01393 76 LAHLLALDSLPESLFPPPNTSLVVVDSVSALFR--KAFPrggdgdssssLRARLLSQLARALQKLAAQFNLAVVVTNQVT 153
|
170 180 190
....*....|....*....|....*....|..
gi 17136506 258 TRDGQ-----DEIPCLGLQWAHLGRTRLRVSR 284
Cdd:cd01393 154 TKIRGgsgasLVPPALGNTWEHSVSTRLLLYR 185
|
|
| Rad51C |
cd19492 |
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
108-288 |
1.77e-37 |
|
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: 131.96 E-value: 1.77e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 108 ITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFparrllqmskacekrhpemelnflgNIF---VENH 184
Cdd:cd19492 3 ITEICGVPGVGKTQLCMQLAVNVQIPKCFGGLAGEAIYIDTEGSF-------------------------NIHyfrVHDY 57
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 185 IEaepLLAcVINRIPRLMQQH-GIGLIIIDSVAAIFR-LYNDYLERARHMRRLADALLSYADKYNCAVVCVNQVATRDGQ 262
Cdd:cd19492 58 VE---LLA-LINSLPKFLEDHpKVKLIVVDSIAFPFRhDFDDLAQRTRLLNGLAQLLHSLARQHNLAVVLTNQVTTKISE 133
|
170 180 190
....*....|....*....|....*....|
gi 17136506 263 DE----IPCLGLQWAHLGRTRLRVSRVPKQ 288
Cdd:cd19492 134 DGqsqlVPALGESWSHACTTRLFLTWDEKQ 163
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
87-323 |
8.73e-37 |
|
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: 132.81 E-value: 8.73e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 87 RVSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFPARRLLQMSkaceK 166
Cdd:pfam08423 18 QITTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLCVTCQLPLEMGGGEGKALYIDTEGTFRPERLVAIA----E 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 167 RH---PEMELNflgNIFVENHIEAEPLLAcVINRIPRLMQQHGIGLIIIDSVAAIFRlyNDY------LERARHMRRLAD 237
Cdd:pfam08423 94 RYgldPEDVLD---NVAYARAYNSEHQMQ-LLQQAAAMMSESRFALLIVDSATALYR--TDFsgrgelAERQQHLAKFLR 167
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 238 ALLSYADKYNCAVVCVNQVATR-DGQD-------EIPCLGLQWAHLGRTRL--RVSRvpkqhrmGDQlitvRKLEILYSP 307
Cdd:pfam08423 168 TLQRLADEFGVAVVITNQVVAQvDGAAgmfsgdpKKPIGGHIMAHASTTRLslRKGR-------GEQ----RICKIYDSP 236
|
250
....*....|....*.
gi 17136506 308 ETPNDFAEFLITAEGV 323
Cdd:pfam08423 237 CLPESEAVFAIGSGGI 252
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
96-307 |
7.69e-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: 124.35 E-value: 7.69e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 96 DRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFPARRLLQM-------SKACEKRH 168
Cdd:cd19493 1 DTALAGGLPLGAITEITGASGSGKTQFALTLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIaearfpeAFSGFMEE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 169 PEMELNFLGNIfvenHIEAEPLLACVINRIPRL---MQQHGIGLIIIDSVAAIFR-----LYNDYLERARHMRRLADALL 240
Cdd:cd19493 81 NERAEEMLKRV----AVVRVTTLAQLLERLPNLeehILSSGVRLVVIDSIAALVRrefggSDGEVTERHNALAREASSLK 156
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 17136506 241 SYADKYNCAVVCVNQVATRDGQDE------IPCLGLQWAHLGRTRLRVSRvpkqhrmgDQLITVRKLEILYSP 307
Cdd:cd19493 157 RLAEEFRIAVLVTNQATTHFGDAGdgssgvTAALGDAWAHAVNTRLRLER--------CLLQLRRVLEIVKSP 221
|
|
| recomb_radA |
TIGR02236 |
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ... |
71-325 |
1.10e-33 |
|
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: 126.01 E-value: 1.10e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 71 QSADSLFKPLVNVRwsRVSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTES 150
Cdd:TIGR02236 62 ETADDVLERRKTIG--KITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN 139
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 151 SFPARRLLQMSKAcEKRHPEmelNFLGNIFV-----ENHieaEPLLAcviNRIPRLMQQH--GIGLIIIDSVAAIFRlyN 223
Cdd:TIGR02236 140 TFRPERIMQMAEA-RGLDPD---EVLKNIYVaraynSNH---QMLLV---EKAEDLIKELnnPVKLLIVDSLTSHFR--A 207
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 224 DYLER----------ARHMrrlADaLLSYADKYNCAVVCVNQVATRD----GQDEIPCLGLQWAHLGRTR--LRVSRVPK 287
Cdd:TIGR02236 208 EYVGRgalaerqqklNKHL---HD-LLRLADLYNAAVVVTNQVMARPdaffGDPTRPIGGHILGHAATFRvyLRKGKGDK 283
|
250 260 270
....*....|....*....|....*....|....*...
gi 17136506 288 qhrmgdqlitvRKLEILYSPETPNDFAEFLITAEGVVN 325
Cdd:TIGR02236 284 -----------RIARLVDSPHLPEGEAVFRITEKGIED 310
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
72-325 |
6.52e-33 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 124.22 E-value: 6.52e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 72 SADSLFKPLVNVRwsRVSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESS 151
Cdd:PRK04301 70 TALEVLERRKNVG--KITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGT 147
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 152 FPARRLLQMSKACEKRhPEmelNFLGNIFV-----ENHieaEPLLACVINRIPRlmQQHGIGLIIIDSVAAIFRlyNDYL 226
Cdd:PRK04301 148 FRPERIEQMAEALGLD-PD---EVLDNIHVaraynSDH---QMLLAEKAEELIK--EGENIKLVIVDSLTAHFR--AEYV 216
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 227 ER----------ARHMrrlaDALLSYADKYNCAVVCVNQVATR-D---GQDEIPCLGLQWAHLG--RTRLRVSRvpkqhr 290
Cdd:PRK04301 217 GRgnlaerqqklNKHL----HDLLRLADLYNAAVVVTNQVMARpDaffGDPTQPIGGHILGHTAtfRIYLRKSK------ 286
|
250 260 270
....*....|....*....|....*....|....*
gi 17136506 291 mGDQLItVRkleILYSPETPNDFAEFLITAEGVVN 325
Cdd:PRK04301 287 -GNKRI-AR---LVDSPHLPEGEAVFRITEEGIRD 316
|
|
| archRadA |
cd19515 |
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ... |
88-324 |
2.40e-32 |
|
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: 120.55 E-value: 2.40e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFPARRLLQMSKACEKr 167
Cdd:cd19515 1 ISTGSKELDKLLGGGIETQAITEVFGEFGSGKTQLCHQLAVNVQLPPEEGGLNGKAVYIDTENTFRPERIMQMAKALGL- 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 168 HPEmelNFLGNIFV-----ENHieaEPLLAcviNRIPRLMQQH-GIGLIIIDSVAAIFRlyNDYLER----------ARH 231
Cdd:cd19515 80 DPD---EVLDNIYVaraynSNH---QMLLV---EKAEDLIKEGnNIKLLIVDSLTSHFR--AEYVGRgtlaerqqklNKH 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 232 MRrladALLSYADKYNCAVVCVNQVATRD----GQDEIPCLGLQWAHLGRTR--LRVSRVPKqhrmgdqlitvRKLEILY 305
Cdd:cd19515 149 LH----DLHRLADLYNIAVLVTNQVMAKPdaffGDPTQAIGGHILGHAATFRvyLRKGKGGK-----------RIARLVD 213
|
250
....*....|....*....
gi 17136506 306 SPETPNDFAEFLITAEGVV 324
Cdd:cd19515 214 SPHLPEGEAVFRITEKGIE 232
|
|
| PTZ00035 |
PTZ00035 |
Rad51 protein; Provisional |
58-324 |
6.85e-28 |
|
Rad51 protein; Provisional
Pssm-ID: 185407 [Multi-domain] Cd Length: 337 Bit Score: 111.24 E-value: 6.85e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 58 LKDAAAKWLAEMPQSADSLFKPLVNVRwsRVSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELG 137
Cdd:PTZ00035 72 IKEAASKLVPMGFISATEYLEARKNII--RITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQG 149
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 138 GLGKGVAYICTESSFPARRLLQMSKACeKRHPEMELNflgNIFVE---NHIEAEPLLACVinriPRLMQQHGIGLIIIDS 214
Cdd:PTZ00035 150 GGEGKVLYIDTEGTFRPERIVQIAERF-GLDPEDVLD---NIAYArayNHEHQMQLLSQA----AAKMAEERFALLIVDS 221
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 215 VAAIFRLynDYL------ERARHMRRLADALLSYADKYNCAVVCVNQV-------ATRDGQDEIPCLGLQWAHLGRTRL- 280
Cdd:PTZ00035 222 ATALFRV--DYSgrgelaERQQHLGKFLRALQKLADEFNVAVVITNQVmadvdgaSMFVADPKKPIGGHIIAHASTTRLs 299
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 17136506 281 -RVSRvpkqhrmGDQlitvRKLEILYSPETPNDFAEFLITAEGVV 324
Cdd:PTZ00035 300 lRKGR-------GEQ----RICKIYDSPNLPESEAVFAISEGGII 333
|
|
| Rad51_DMC1_archRadA |
cd01123 |
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ... |
88-323 |
9.33e-26 |
|
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: 102.99 E-value: 9.33e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFPARRLLQMSKACEKR 167
Cdd:cd01123 1 ITTGSKELDKLLGGGIETGSITEMFGEFRTGKTQLCHTLAVTCQLPIDRGGGEGKAIYIDTEGTFRPERLRAIAQRFGLD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 168 HPEMelnfLGNIFVENHIEAEPLLAcVINRIPRLMQQHGIGLIIIDSVAAIFRlyNDYL------ERARHMRRLADALLS 241
Cdd:cd01123 81 PDDV----LDNVAYARAFNSDHQTQ-LLDQAAAMMVESRFKLLIVDSATALYR--TDYSgrgelsARQMHLAKFLRMLQR 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 242 YADKYNCAVVCVNQVATR-------DGQDEIPCLGLQWAHLGRTRLRVSRVPKQHRMGdqlitvrklEILYSPETPNDFA 314
Cdd:cd01123 154 LADEFGVAVVVTNQVVAQvdgammfAADPKKPIGGNILAHASTTRLYLRKGRGETRIC---------KIYDSPCLPEAEA 224
|
....*....
gi 17136506 315 EFLITAEGV 323
Cdd:cd01123 225 VFAITADGV 233
|
|
| Rad51 |
cd19513 |
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ... |
88-323 |
1.38e-24 |
|
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: 99.70 E-value: 1.38e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGlGKGVA-YICTESSFPARRLLQMSkaceK 166
Cdd:cd19513 1 ITTGSKELDKLLGGGIETGSITELFGEFRTGKTQLCHTLAVTCQLPIDQGG-GEGKAlYIDTEGTFRPERLLAIA----E 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 167 RHPEMELNFLGNIFVENHIEAEPLLAcVINRIPRLMQQHGIGLIIIDSVAAIFRlyNDYLER----AR--HMRRLADALL 240
Cdd:cd19513 76 RYGLNGEDVLDNVAYARAYNTDHQMQ-LLIQASAMMAESRYALLIVDSATALYR--TDYSGRgelsARqmHLAKFLRMLQ 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 241 SYADKYNCAVVCVNQV-ATRDGQ------DEIPCLGLQWAHLGRTRLRVsrvpKQHRmGDQlitvRKLEILYSPETPNDF 313
Cdd:cd19513 153 RLADEFGVAVVITNQVvAQVDGAamfagdPKKPIGGNIMAHASTTRLYL----RKGR-GET----RICKIYDSPCLPEAE 223
|
250
....*....|
gi 17136506 314 AEFLITAEGV 323
Cdd:cd19513 224 AVFAITEDGI 233
|
|
| DMC1 |
cd19514 |
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ... |
88-323 |
1.60e-24 |
|
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: 99.74 E-value: 1.60e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFPARRLLQMSKACEKR 167
Cdd:cd19514 1 ISTGSTELDKLLGGGIESMSITEVFGEFRTGKTQLSHTLCVTAQLPGSMGGGGGKVAYIDTEGTFRPDRIRPIAERFGVD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 168 HPEMelnfLGNIFVENHIEAEPLLACvINRIPRLMQQHGI-GLIIIDSVAAIFRLynDYLER----------ARHMRRLA 236
Cdd:cd19514 81 HDAV----LDNILYARAYTSEHQMEL-LDYVAAKFHEEAVfRLLIIDSIMALFRV--DFSGRgelaerqqklAQMLSRLQ 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 237 dallSYADKYNCAVVCVNQV-------ATRDGQDEIPCLGLQWAHLGRTR--LRVSRvpkqhrmGDQlitvRKLEILYSP 307
Cdd:cd19514 154 ----KISEEYNVAVFITNQVtadpgaaMTFQADPKKPIGGHILAHASTTRisLRKGR-------GEE----RIAKIYDSP 218
|
250
....*....|....*.
gi 17136506 308 ETPNDFAEFLITAEGV 323
Cdd:cd19514 219 DLPENEATFAITAGGI 234
|
|
| PLN03187 |
PLN03187 |
meiotic recombination protein DMC1 homolog; Provisional |
87-324 |
3.95e-24 |
|
meiotic recombination protein DMC1 homolog; Provisional
Pssm-ID: 215620 [Multi-domain] Cd Length: 344 Bit Score: 101.01 E-value: 3.95e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 87 RVSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFPARRLLQMSkaceK 166
Cdd:PLN03187 107 RITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIA----E 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 167 RHPEMELNFLGNIFVENHIEAEPLLACVINrIPRLMQQHGIGLIIIDSVAAIFRLynDYL------ERARHMRRLADALL 240
Cdd:PLN03187 183 RFGMDADAVLDNIIYARAYTYEHQYNLLLG-LAAKMAEEPFRLLIVDSVIALFRV--DFTgrgelaERQQKLAQMLSRLT 259
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 241 SYADKYNCAVVCVNQVATRDG------QDEIPCLGLQWAHLGRTRLRVsRVPKqhrmGDQlitvRKLEILYSPETPNDFA 314
Cdd:PLN03187 260 KIAEEFNVAVYMTNQVIADPGggmfisDPKKPAGGHVLAHAATIRLML-RKGK----GEQ----RVCKVFDAPNLPEAEA 330
|
250
....*....|
gi 17136506 315 EFLITAEGVV 324
Cdd:PLN03187 331 EFQITSGGIM 340
|
|
| archRadB |
cd01394 |
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ... |
88-323 |
4.09e-24 |
|
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: 98.16 E-value: 4.09e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLcvqlprELGGLGKGVAYICTEsSFPARRLLQMskaCEKR 167
Cdd:cd01394 1 LSTGSKSLDSLLGGGVERGTITQIYGPPGSGKTNICLQLAV------EAAKQGKKVVYIDTE-GLSPERFQQI---AGER 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 168 HPEMelnfLGNIFV-ENHIEAEPLLAcvINRIPRLMQQHGIGLIIIDSVAAIFRL-YNDYLERARHMRRLADALLSYADK 245
Cdd:cd01394 71 FESI----ASNIIVfEPYSFDEQGVA--IQEAEKLLKSDKVDLVVVDSATALYRLeLGDDSEANRELSRQMSKLLSIARK 144
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 17136506 246 YNCAVVCVNQVATRDGQDEI-PCLGLQWAHLGRTRLRVSRvpkqHRMGDQLITVRKLEILysPETPNdfAEFLITAEGV 323
Cdd:cd01394 145 YDIPVVITNQVYSDIDDDRLkPVGGTLLEHWSKAIIRLEK----SPPGLRRATLEKHRSR--PEGQS--AGFRITDRGI 215
|
|
| PLN03186 |
PLN03186 |
DNA repair protein RAD51 homolog; Provisional |
88-323 |
4.13e-22 |
|
DNA repair protein RAD51 homolog; Provisional
Pssm-ID: 178728 [Multi-domain] Cd Length: 342 Bit Score: 95.18 E-value: 4.13e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFPARRLLQMSKacekr 167
Cdd:PLN03186 105 ITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAE----- 179
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 168 hpEMELNF---LGNIF------VENHIEaepllacVINRIPRLMQQHGIGLIIIDSVAAIFRlyNDYLER----AR--HM 232
Cdd:PLN03186 180 --RFGLNGadvLENVAyaraynTDHQSE-------LLLEAASMMAETRFALMIVDSATALYR--TEFSGRgelsARqmHL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 233 RRLADALLSYADKYNCAVVCVNQV-ATRDGQ------DEIPCLGLQWAHLGRTRLRVSRVPKQHRMgdqlitvrkLEILY 305
Cdd:PLN03186 249 GKFLRSLQRLADEFGVAVVITNQVvAQVDGSaffagpQLKPIGGNIMAHASTTRLALRKGRGENRI---------CKVIS 319
|
250
....*....|....*...
gi 17136506 306 SPETPNDFAEFLITAEGV 323
Cdd:PLN03186 320 SPCLPEAEARFSISSEGV 337
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
86-323 |
1.67e-21 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 91.08 E-value: 1.67e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 86 SRVSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLprelggLGKGVAYICTEsSFPARRLLQMSKACE 165
Cdd:PRK09361 3 ERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAK------NGKKVIYIDTE-GLSPERFKQIAGEDF 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 166 KrhpemelNFLGNIFV------ENHIEAepllacvINRIPRLMQQhGIGLIIIDSVAAIFRL-YNDYLERARHMRRLAD- 237
Cdd:PRK09361 76 E-------ELLSNIIIfepssfEEQSEA-------IRKAEKLAKE-NVGLIVLDSATSLYRLeLEDEEDNSKLNRELGRq 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 238 --ALLSYADKYNCAVVCVNQVATRDGQDEIPCLGLQW-AHLGRTRLRVSRVPKqhrmGDQLITVRKLeiLYSPEtpNDFA 314
Cdd:PRK09361 141 ltHLLKLARKHDLAVVITNQVYSDIDSDGLRPLGGHTlEHWSKTILRLEKFRN----GKRRATLEKH--RSRPE--GESA 212
|
....*....
gi 17136506 315 EFLITAEGV 323
Cdd:PRK09361 213 EFRITDRGI 221
|
|
| recomb_DMC1 |
TIGR02238 |
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ... |
88-325 |
1.88e-21 |
|
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: 92.92 E-value: 1.88e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGKGVAYICTESSFPARRLLQMSKACEKr 167
Cdd:TIGR02238 78 ITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFGV- 156
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 168 HPEMELNflgNIFVENHIEAEPLLAcVINRIPRLMQQHGIGLIIIDSVAAIFRLynDYL------ERARHMRRLADALLS 241
Cdd:TIGR02238 157 DPDAVLD---NILYARAYTSEHQME-LLDYLAAKFSEEPFRLLIVDSIMALFRV--DFSgrgelsERQQKLAQMLSRLNK 230
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 242 YADKYNCAVVCVNQVATRDG-------QDEIPCLGLQWAHLGRTR--LRVSRvpkqhrmGDQlitvRKLEILYSPETPND 312
Cdd:TIGR02238 231 ISEEFNVAVFVTNQVQADPGatmtfiaDPKKPIGGHVLAHASTTRilLRKGR-------GEE----RVAKLYDSPDMPEA 299
|
250
....*....|...
gi 17136506 313 FAEFLITAEGVVN 325
Cdd:TIGR02238 300 EASFQITEGGIAD 312
|
|
| recomb_RAD51 |
TIGR02239 |
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ... |
88-323 |
1.07e-20 |
|
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: 90.94 E-value: 1.07e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLPRELGGlGKGVA-YICTESSFPARRLLQMSkaceK 166
Cdd:TIGR02239 78 LTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGG-GEGKAlYIDTEGTFRPERLLAIA----E 152
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 167 RHPEMELNFLGNIFVENHIEAEPLLAcVINRIPRLMQQHGIGLIIIDSVAAIFRlyNDYLER----AR--HMRRLADALL 240
Cdd:TIGR02239 153 RYGLNPEDVLDNVAYARAYNTDHQLQ-LLQQAAAMMSESRFALLIVDSATALYR--TDFSGRgelsARqmHLARFLRSLQ 229
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 241 SYADKYNCAVVCVNQV-ATRDGQDEI-------PCLGLQWAHLGRTRLRVsrvpKQHRmGDQlitvRKLEILYSPETPND 312
Cdd:TIGR02239 230 RLADEFGVAVVITNQVvAQVDGAGSMfagdpkkPIGGNIMAHASTTRLSL----RKGR-GEQ----RICKIYDSPCLPES 300
|
250
....*....|.
gi 17136506 313 FAEFLITAEGV 323
Cdd:TIGR02239 301 EAMFAIYEDGI 311
|
|
| recomb_radB |
TIGR02237 |
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ... |
95-323 |
1.28e-20 |
|
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: 88.24 E-value: 1.28e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 95 LDRCTGGGVVTRGITELCGAAGVGKTqlllqlSLCVQLPRELGGLGKGVAYICTEsSFPARRLLQMSKACEKRhpemeln 174
Cdd:TIGR02237 1 IDELLGGGVERGTITQIYGPPGSGKT------NICMILAVNAARQGKKVVYIDTE-GLSPERFKQIAEDRPER------- 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 175 FLGNIFVenhIEAEPL--LACVINRIPRLMQQHGIGLIIIDSVAAIFRLY--NDYLERARHMRRLADALLSYADKYNCAV 250
Cdd:TIGR02237 67 ALSNFIV---FEVFDFdeQGVAIQKTSKFIDRDSASLVVVDSFTALYRLElsDDRISRNRELARQLTLLLSLARKKNLAV 143
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 17136506 251 VCVNQVATRDGQDEI-PCLGLQWAHLGRTRLRVSRVPkqhrmGDQLITVRKLeiLYSPEtpNDFAEFLITAEGV 323
Cdd:TIGR02237 144 VITNQVYTDVNNGTLrPLGGHLLEHWSKVILRLEKFR-----GRRLATLEKH--RSRPE--GESVYFRITDDGI 208
|
|
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
100-295 |
1.88e-20 |
|
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: 88.08 E-value: 1.88e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 100 GGGVVTRGITELCGAAGVGKTQLLLQLSLCVQLprelgGLGKGVAYICTESSFPARRLLQMSKACEKRHPEMeLNFLGNI 179
Cdd:cd19489 1 GGGLRTGEITELVGESSSGKTQLCLTAAANVAS-----RSGQNVLYIDTKSSFSARRLAQILKSRAQDAEEI-DKALQRI 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 180 FVENHIEAEPLLACVINRIPRLMQQ-----HGIGLIIIDSVAAIFRLYND---YLERARHMRRLADALLSYADKYNCAVV 251
Cdd:cd19489 75 RVVRVFDPYELLDLLEELRNTLSQQqenlySRLKLVIIDSLSALISPLLGgskHSEGHALLASLARLLKKLAAEYQIAVL 154
|
170 180 190 200
....*....|....*....|....*....|....*....|....*...
gi 17136506 252 CVNQV----ATRDGQDEIPCLGLQWAHLGRTRLRVSRVPKQHRMGDQL 295
Cdd:cd19489 155 VTNLTvrggDGGQQGSTKPALGEYWESVPSTRLLLSRDENDPEESGVC 202
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
87-324 |
1.89e-14 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 71.49 E-value: 1.89e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 87 RVSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLsLCVQLPRelgglGKGVAYICTESSfpARRLLQMSKAcek 166
Cdd:COG0467 1 RVPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTLALQF-LAEGLRR-----GEKGLYVSFEES--PEQLLRRAES--- 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 167 rhpeMELNFL-----GNIFVenhIEAEPLLAC-----VINRIPRLMQQHGIGLIIIDSVAAIFRLYNDYLERARHMRRla 236
Cdd:COG0467 70 ----LGLDLEeyiesGLLRI---IDLSPEELGldleeLLARLREAVEEFGAKRVVIDSLSGLLLALPDPERLREFLHR-- 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 237 daLLSYADKYNCAVVCVNQVATRDGQDEIPCLglqwAHLGRTRLRVSRVPKQHRMgdqlitVRKLEILYSPETP--NDFA 314
Cdd:COG0467 141 --LLRYLKKRGVTTLLTSETGGLEDEATEGGL----SYLADGVILLRYVELGGEL------RRALSVLKMRGSAhdRTIR 208
|
250
....*....|
gi 17136506 315 EFLITAEGVV 324
Cdd:COG0467 209 EFEITDGGIE 218
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
102-253 |
2.25e-13 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 69.93 E-value: 2.25e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 102 GVVTRG-ITELCGAAGVGKTQLLLQLSLCVQLPRELGGL---GKGVAYICTESsfPARRLLQMSKACEKRHPEMELNFLG 177
Cdd:COG3598 8 GLLPEGgVTLLAGPPGTGKSFLALQLAAAVAAGGPWLGRrvpPGKVLYLAAED--DRGELRRRLKALGADLGLPFADLDG 85
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 17136506 178 NIFVENHIEAEPLLACViNRIPRLMQQHGIGLIIIDSVAAIFRLynDyLERARHMRRLADALLSYADKYNCAVVCV 253
Cdd:COG3598 86 RLRLLSLAGDLDDTDDL-EALERAIEEEGPDLVVIDPLARVFGG--D-ENDAEEMRAFLNPLDRLAERTGAAVLLV 157
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
88-324 |
2.22e-11 |
|
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.
Pssm-ID: 410869 [Multi-domain] Cd Length: 222 Bit Score: 62.67 E-value: 2.22e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLsLCVQLPRelgglGKGVAYICTESSfpARRLLQMSKacekr 167
Cdd:cd01124 1 VKTGIPGLDELLGGGIPKGSVTLLTGGPGTGKTLFGLQF-LYAGAKN-----GEPGLFFTFEES--PERLLRNAK----- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 168 hpEMELNF-----LGNIFVENHIEAEPLLAC---VINRIPRLMQQHGIGLIIIDSVAAIFRLYNDylerARHMRRLADAL 239
Cdd:cd01124 68 --SFGWDFdemedEGKLIIVDAPPTEAGRFSldeLLSRILSIIKSFKAKRVVIDSLSGLRRAKED----QMRARRIVIAL 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 240 LSYADKYNCAVVCVNQVatRDGQDEIPCLGLQWAHLGRTRLRVSRVPKQHRMgdqlitVRKLEILYSPETPNDFA--EFL 317
Cdd:cd01124 142 LNELRAAGVTTIFTSEM--RSFLSSESAGGGDVSFIVDGVILLRYVEIEGEL------RRTIRVLKMRGTGHDTGthPFE 213
|
....*..
gi 17136506 318 ITAEGVV 324
Cdd:cd01124 214 ITDKGIV 220
|
|
| AAA_25 |
pfam13481 |
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins. |
111-253 |
3.03e-10 |
|
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: 58.93 E-value: 3.03e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 111 LCGAAGVGKTQLLLQLSLCV-----QLPRELGGLGKGVAYICTESSFP--ARRLLQMskaCEKRHPEMELNFL---GNIF 180
Cdd:pfam13481 38 LAGAPGTGKTTLALDLAAAVatgkpWLGGPRVPEQGKVLYVSAEGPADelRRRLRAA---GADLDLPARLLFLslvESLP 114
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 17136506 181 VENHIEAEPLLACVINRIPRLMQQ-HGIGLIIIDSVAAIFRlyNDyLERARHMRRLADALLSYADKYNCAVVCV 253
Cdd:pfam13481 115 LFFLDRGGPLLDADVDALEAALEEvEDPDLVVIDPLARALG--GD-ENSNSDVGRLVKALDRLARRTGATVLLV 185
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
86-262 |
1.60e-09 |
|
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: 57.93 E-value: 1.60e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 86 SRVSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLcvqlprELGGLGKGVAYICTESSfP------ARRLlq 159
Cdd:cd01121 62 ERISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAA------RLAQRGGKVLYVSGEES-LsqiklrAERL-- 132
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 160 mskacEKRHPEMELnflgniFVENHIEAepllacvinrIPRLMQQHGIGLIIIDSVAAIfrlYNDYLERA----RHMRRL 235
Cdd:cd01121 133 -----GLGSDNLYL------LAETNLEA----------ILAEIEELKPSLVVIDSIQTV---YSPELTSSpgsvSQVREC 188
|
170 180
....*....|....*....|....*..
gi 17136506 236 ADALLSYADKYNCAVVCVNQVaTRDGQ 262
Cdd:cd01121 189 AAELLRLAKETGIPVFLVGHV-TKDGA 214
|
|
| XRCC2 |
cd19490 |
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ... |
108-255 |
6.29e-09 |
|
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: 55.43 E-value: 6.29e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 108 ITELCGAAGVGKTQLLLQL-SLCVqLPRE-----LGGLGKGVAYICTESSFPARRLLQM-------------SKACEKRH 168
Cdd:cd19490 3 VIEITGPSGSGKTELLYHLaARCI-LPSSwggvpLGGLEAAVVFIDTDGRFDILRLRSIleariraaiqaanSSDDEEDV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 169 PEMELNFLGNIFVENHIEAEPLLACVI---NRIPRLMQQHGIGLIIIDSVAAIFRLY----NDYLERARHMRRLADALL- 240
Cdd:cd19490 82 EEIARECLQRLHIFRCHSSLQLLATLLsleNYLLSLSANPELGLLLIDSISAFYWQDrfsaELARAAPLLQEAALRAILr 161
|
170
....*....|....*...
gi 17136506 241 ---SYADKYNCAVVCVNQ 255
Cdd:cd19490 162 elrRLRRRFQLVVIATKQ 179
|
|
| RepA_RSF1010_like |
cd01125 |
Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family ... |
106-265 |
2.33e-08 |
|
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: 53.92 E-value: 2.33e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 106 RGITELCGAAGVGKTQLLLQLSLCVQLPRELGGLGK----GVAYICTESSFPA--RRLlqmsKACEKRHPEMELNFLGNI 179
Cdd:cd01125 1 GTLGMLVGPPGSGKSFLALDLAVAVATGRDWLGERRvkqgRVVYLAAEDPRDGlrRRL----KAIGAHLGDEDAALAENL 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 180 FVENHIEAEPLLACVINRIPRLMQQH-GIGLIIIDSVAAIFRL--YNDylerARHMRRLADALLSYADKYNCAVVCV--- 253
Cdd:cd01125 77 VIENLRGKPVSIDAEAPELERIIEELeGVRLIIIDTLARVLHGgdEND----AADMGAFVAGLDRIARETGAAVLLVhht 152
|
170
....*....|..
gi 17136506 254 NQVATRDGQDEI 265
Cdd:cd01125 153 GKDAAGDSQQAA 164
|
|
| RecA |
COG0468 |
RecA/RadA recombinase [Replication, recombination and repair]; |
88-256 |
2.89e-07 |
|
RecA/RadA recombinase [Replication, recombination and repair];
Pssm-ID: 440236 [Multi-domain] Cd Length: 351 Bit Score: 51.32 E-value: 2.89e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVVTRG-ITELCGAAGVGKTQLLLQLslCVQLPRElgglGKGVAYICTESSF-P--ARRLlqmska 163
Cdd:COG0468 44 ISTGSLALDIALGVGGLPRGrIVEIYGPESSGKTTLALHA--IAEAQKA----GGIAAFIDAEHALdPeyAKKL------ 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 164 cekrhpemelnflgNIFVENHIEAEP------LLACVInriprLMQQHGIGLIIIDSVAAIFRlyNDYLE---------- 227
Cdd:COG0468 112 --------------GVDIDNLLVSQPdtgeqaLEIAET-----LVRSGAVDLIVVDSVAALVP--KAEIEgemgdshvgl 170
|
170 180 190
....*....|....*....|....*....|...
gi 17136506 228 RAR----HMRRLADALlsyaDKYNCAVVCVNQV 256
Cdd:COG0468 171 QARlmsqALRKLTGAI----SKSNTTVIFINQL 199
|
|
| Sms |
COG1066 |
DNA repair protein RadA/Sms, contains AAA+ ATPase domain [Replication, recombination and ... |
87-262 |
1.15e-05 |
|
DNA repair protein RadA/Sms, contains AAA+ ATPase domain [Replication, recombination and repair];
Pssm-ID: 440685 [Multi-domain] Cd Length: 453 Bit Score: 46.97 E-value: 1.15e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 87 RVSFGCSALDRCTGGGVVTRGITELCGAAGVGKTQLLLQLSLcvqlprELGGLGKGVAYICTESSFP-----ARRLLQMS 161
Cdd:COG1066 70 RISTGIGELDRVLGGGLVPGSVVLIGGEPGIGKSTLLLQVAA------RLAKKGGKVLYVSGEESASqiklrAERLGLLS 143
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 162 KacekrhpemelnflgNIFV--ENHIEAepllacvinrIPRLMQQHGIGLIIIDSVAAIfrlYNDYLERA-------RHM 232
Cdd:COG1066 144 D---------------NLYLlaETDLEA----------ILATIEELKPDLLVIDSIQTM---YSEELESApgsvsqvREC 195
|
170 180 190
....*....|....*....|....*....|
gi 17136506 233 rrlADALLSYADKYNCAVVCVNQVaTRDGQ 262
Cdd:COG1066 196 ---AAELIRLAKETGIAVFLVGHV-TKEGS 221
|
|
| KaiC-like_C |
cd19487 |
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
88-323 |
1.04e-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: 43.06 E-value: 1.04e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 88 VSFGCSALDRCTGGGVvTRG-ITELCGAAGVGKTQLLLQLSLcvqlprELGGLGKGVAYICTESSFPA--RRLLQMSKAC 164
Cdd:cd19487 1 VSSGVPELDELLGGGL-ERGtSTLLIGPAGVGKSTLALQFAK------AAAARGERSVLFSFDESIGTlfERSEALGIDL 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 165 EKRHPEmelnflGNIFVENHIEAEPLLACVINRIPRLMQQHGIGLIIIDSVaaifrlyNDYLERARHMRRL---ADALLS 241
Cdd:cd19487 74 RAMVEK------GLLSIEQIDPAELSPGEFAQRVRTSVEQEDARVVVIDSL-------NGYLNAMPDERFLilqMHELLS 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 242 YADKYNCAVVCVNQ-----VATRDGQDEIPCLG-----LQWA-HLGRTRLRVSRVPKqhRMGDQLITVRkleilyspetp 310
Cdd:cd19487 141 YLNNQGVTTLLIVAqhgllGGDMGTPVDISYLAdtvvlLRYFeAEGEVRKAISVLKK--RTGDHERTIR----------- 207
|
250
....*....|...
gi 17136506 311 ndfaEFLITAEGV 323
Cdd:cd19487 208 ----EFRITRSGL 216
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
105-265 |
8.36e-04 |
|
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: 39.28 E-value: 8.36e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 105 TRGITELCGAAGVGKTQLLLQLSlcvqlpRELGGLGKGVAYICTESSFPARRLLQmskacekRHPEMELNFLGNIFVEnh 184
Cdd:smart00382 1 PGEVILIVGPPGSGKTTLARALA------RELGPPGGGVIYIDGEDILEEVLDQL-------LLIIVGGKKASGSGEL-- 65
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 185 ieaepllacVINRIPRLMQQHGIGLIIIDSvaaIFRLYNDYLERARHMRRLADALLSYADKYNCAVVCVNQVATRDGQDE 264
Cdd:smart00382 66 ---------RLRLALALARKLKPDVLILDE---ITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPAL 133
|
.
gi 17136506 265 I 265
Cdd:smart00382 134 L 134
|
|
| RecA-like_Gp4D_helicase |
cd19483 |
RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the ... |
111-254 |
8.48e-03 |
|
RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the RecA-like domain of the Gp4D fragment of the Gene4 helicase-primase (Gp4) from bacteriophage T7. Gp4D (residues 241-566) is the minimal fragment of the Gp4 that forms hexameric rings, it contains the helicase domain and the linker connecting the helicase and primase domains. Helicases are ring-shaped oligomeric enzymes that unwind DNA at the replication fork; they couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands. This family belongs to the RecA-like NTPase superfamily which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410891 [Multi-domain] Cd Length: 231 Bit Score: 37.16 E-value: 8.48e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 111 LCGAAGVGKTQLLLQLSLCVqlpreLGGLGKGVAYICTESSFP--ARRLLQM--SKACEKRHPEMELNF----------- 175
Cdd:cd19483 3 IGAGSGIGKSTIVRELAYHL-----ITEHGEKVGIISLEESVEetAKGLAGKhlGKPEPLELPRDDITEeeeddafdnel 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17136506 176 -LGNIFVENHIEAEPlLACVINRIPRLMQQHGIGLIIIDSVAAIFRLYNDYLER---ARHMRRLAdallSYADKYNCAVV 251
Cdd:cd19483 78 gSGRFFLYDHFGSLD-WDNLKEKIRYMVKVLGCKVIVLDHLTILVSGLDSSDERkelDEIMTELA----ALVKELGVTII 152
|
...
gi 17136506 252 CVN 254
Cdd:cd19483 153 LVS 155
|
|
| |
