|
Name |
Accession |
Description |
Interval |
E-value |
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
91-327 |
3.84e-92 |
|
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: 274.58 E-value: 3.84e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 91 DEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAESRFPQYF----NT 166
Cdd:cd19493 1 DTALAGGLPLGAITEITGASGSGKTQFALTLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIAEARFPEAFsgfmEE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 167 EEKLLLTSSRVHLCRELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPKLqGNIKERNKFLGKGASLLKYLA 246
Cdd:cd19493 81 NERAEEMLKRVAVVRVTTLAQLLERLPNLEEHILSSGVRLVVIDSIAALVRREFGGSD-GEVTERHNALAREASSLKRLA 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 247 GEFSIPVILTNQITTHLSGAlpsqadlvspaddlslsegTSGSSCLVAALGNTWGHCVNTRLILQYLDS-ERRQILIAKS 325
Cdd:cd19493 160 EEFRIAVLVTNQATTHFGDA-------------------GDGSSGVTAALGDAWAHAVNTRLRLERCLLqLRRVLEIVKS 220
|
..
gi 31982072 326 PL 327
Cdd:cd19493 221 PL 222
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
101-312 |
1.03e-56 |
|
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: 182.55 E-value: 1.03e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 101 GSLTEITGPPGCGKTQFCIMMSVLATLptslggLEGAVVYIDTESAFTAERLVEIAEsrfpQYFNTEEKLLLTSSRVHLC 180
Cdd:cd01393 1 GKITEIYGPPGSGKTQLALQLAANALL------LGGGVVWIDTEGAFPPSRLVQILE----ASPSSELELAEALSRLLYF 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 181 RELTCEGLLQRLESLEEEIIS-KGVKLVIVDSIASVVRKEFDPKLQG--NIKERNKFLGKGASLLKYLAGEFSIPVILTN 257
Cdd:cd01393 71 RPPDTLAHLLALDSLPESLFPpPNTSLVVVDSVSALFRKAFPRGGDGdsSSSLRARLLSQLARALQKLAAQFNLAVVVTN 150
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*
gi 31982072 258 QITTHLSGAlpsqadlvspaddlslsegtSGSSCLVAALGNTWGHCVNTRLILQY 312
Cdd:cd01393 151 QVTTKIRGG--------------------SGASLVPPALGNTWEHSVSTRLLLYR 185
|
|
| XRCC3 |
cd19491 |
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ... |
90-326 |
1.82e-50 |
|
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: 168.62 E-value: 1.82e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 90 LDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAESRFPQYFNTEEK 169
Cdd:cd19491 1 LDELLGGGIPVGGITEIAGESGAGKTQLCLQLALTVQLPRELGGLGGGAVYICTESSFPSKRLQQLASSLPKRYHLEKAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 170 LLLTSSRVHLCREL----TCegLLQRLESLeeeIISKGVKLVIVDSIASVVRKEFDPKlQGNIKERNKFLGKGASLLKYL 245
Cdd:cd19491 81 NFLDNIFVEHVADLetleHC--LNYQLPAL---LERGPIRLVVIDSIAALFRSEFDTS-RSDLVERAKYLRRLADHLKRL 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 246 AGEFSIPVILTNQITTHLSGALPSQADLVSPADD--LSLSEGTSGSSClVAALGNTWGHCVNTRLILQYLDSERRQILIA 323
Cdd:cd19491 155 ADKYNLAVVVVNQVTDRFDSSSDASGLGVLDYLSqfSSFSGGVSGNRK-VPALGLTWANLVNTRLMLSRTPKRITDSSAA 233
|
...
gi 31982072 324 KSP 326
Cdd:cd19491 234 SIS 236
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
65-341 |
2.90e-48 |
|
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: 163.24 E-value: 2.90e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 65 QTAYELKTRRSAHLSpafLSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTE 144
Cdd:pfam08423 4 TTATELHQRRSELIQ---ITTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLCVTCQLPLEMGGGEGKALYIDTE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 145 SAFTAERLVEIAEsRFPqyFNTEEKLlltsSRVHLCRELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPKl 224
Cdd:pfam08423 81 GTFRPERLVAIAE-RYG--LDPEDVL----DNVAYARAYNSEHQMQLLQQAAAMMSESRFALLIVDSATALYRTDFSGR- 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 225 qGNIKERNKFLGKGASLLKYLAGEFSIPVILTNQITTHLSG-ALPSQADLVSPaddlslsegtsgssclvaALGNTWGHC 303
Cdd:pfam08423 153 -GELAERQQHLAKFLRTLQRLADEFGVAVVITNQVVAQVDGaAGMFSGDPKKP------------------IGGHIMAHA 213
|
250 260 270
....*....|....*....|....*....|....*...
gi 31982072 304 VNTRLILQYLDSERRQILIAKSPLAAFTSFVYTIKGEG 341
Cdd:pfam08423 214 STTRLSLRKGRGEQRICKIYDSPCLPESEAVFAIGSGG 251
|
|
| Rad51C |
cd19492 |
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
101-326 |
4.57e-39 |
|
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: 136.59 E-value: 4.57e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 101 GSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFtaerlveiaesrfpqyfnteekllltssRVHLC 180
Cdd:cd19492 1 GKITEICGVPGVGKTQLCMQLAVNVQIPKCFGGLAGEAIYIDTEGSF----------------------------NIHYF 52
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 181 RELTCEGLLQRLESLEEEIIS-KGVKLVIVDSIASVVRKEFDpklqgNIKERNKFLGKGASLLKYLAGEFSIPVILTNQI 259
Cdd:cd19492 53 RVHDYVELLALINSLPKFLEDhPKVKLIVVDSIAFPFRHDFD-----DLAQRTRLLNGLAQLLHSLARQHNLAVVLTNQV 127
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 31982072 260 TTHLSgalpsqadlvspaddlslsegTSGSSCLVAALGNTWGHCVNTRLILqYLDSERRQILIAKSP 326
Cdd:cd19492 128 TTKIS---------------------EDGQSQLVPALGESWSHACTTRLFL-TWDEKQRFAHLYKSP 172
|
|
| PTZ00035 |
PTZ00035 |
Rad51 protein; Provisional |
37-326 |
6.38e-38 |
|
Rad51 protein; Provisional
Pssm-ID: 185407 [Multi-domain] Cd Length: 337 Bit Score: 138.21 E-value: 6.38e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 37 ELMKVTGLSYRGVHELLHTVSKACAPQMQTAYELKTRRSAHLSpafLSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQ 116
Cdd:PTZ00035 57 DLCNIKGISEAKVEKIKEAASKLVPMGFISATEYLEARKNIIR---ITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQ 133
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 117 FCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAEsRFPqyFNTEEKLlltsSRVHLCRELTCEGLLQRLESLE 196
Cdd:PTZ00035 134 LCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAE-RFG--LDPEDVL----DNIAYARAYNHEHQMQLLSQAA 206
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 197 EEIISKGVKLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGASLLKYLAGEFSIPVILTNQITTHLSGALPSQADLVSP 276
Cdd:PTZ00035 207 AKMAEERFALLIVDSATALFRVDYSGR--GELAERQQHLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVADPKKP 284
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|
gi 31982072 277 ADdlslsegtsgssclvaalGNTWGHCVNTRLILQYLDSERRQILIAKSP 326
Cdd:PTZ00035 285 IG------------------GHIIAHASTTRLSLRKGRGEQRICKIYDSP 316
|
|
| recomb_DMC1 |
TIGR02238 |
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ... |
5-339 |
1.91e-36 |
|
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: 133.75 E-value: 1.91e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 5 KLRRVGLSPELCDRLSRYQIVNCQHFLSLSPLELMKVTGLSYRGVHELLHTVSKACAPQMQTAYELKTRRSAHLSpafLS 84
Cdd:TIGR02238 3 KLQAHGINAADIKKLKSAGICTVNGVIMTTRRALCKIKGLSEAKVDKIKEAASKIINPGFITAFEISQKRKKVLK---IT 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 85 TTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAESrfpqyF 164
Cdd:TIGR02238 80 TGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAER-----F 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 165 NTEEKLLLTSsrVHLCRELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGASLLKY 244
Cdd:TIGR02238 155 GVDPDAVLDN--ILYARAYTSEHQMELLDYLAAKFSEEPFRLLIVDSIMALFRVDFSGR--GELSERQQKLAQMLSRLNK 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 245 LAGEFSIPVILTNQITTHLSGALPSQADLVSPADdlslsegtsgssclvaalGNTWGHCVNTRLILQYLDSERRQILIAK 324
Cdd:TIGR02238 231 ISEEFNVAVFVTNQVQADPGATMTFIADPKKPIG------------------GHVLAHASTTRILLRKGRGEERVAKLYD 292
|
330
....*....|....*..
gi 31982072 325 SP--LAAFTSFVYTIKG 339
Cdd:TIGR02238 293 SPdmPEAEASFQITEGG 309
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
34-259 |
7.55e-34 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 126.92 E-value: 7.55e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 34 SPLELMKVTGLSYRGVHELLHTVSKACA-PQMQTAYELKTRRsahLSPAFLSTTLCALDEALHGGVPCGSLTEITGPPGC 112
Cdd:PRK04301 37 SPKELSEAAGIGESTAAKIIEAAREAADiGGFETALEVLERR---KNVGKITTGSKELDELLGGGIETQSITEFYGEFGS 113
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 113 GKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAESR------------FPQYFNTEEKLLLtssrvhlc 180
Cdd:PRK04301 114 GKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALgldpdevldnihVARAYNSDHQMLL-------- 185
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 181 reltcegllqrLESLeEEIISKG--VKLVIVDSIASVVRKEFdPKlQGNIKERNKFLGKGASLLKYLAGEFSIPVILTNQ 258
Cdd:PRK04301 186 -----------AEKA-EELIKEGenIKLVIVDSLTAHFRAEY-VG-RGNLAERQQKLNKHLHDLLRLADLYNAAVVVTNQ 251
|
.
gi 31982072 259 I 259
Cdd:PRK04301 252 V 252
|
|
| DMC1 |
cd19514 |
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ... |
83-326 |
3.63e-33 |
|
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: 122.85 E-value: 3.63e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAESrfpq 162
Cdd:cd19514 1 ISTGSTELDKLLGGGIESMSITEVFGEFRTGKTQLSHTLCVTAQLPGSMGGGGGKVAYIDTEGTFRPDRIRPIAER---- 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 163 yFNTEEKLLLTSsrVHLCRELTCEGLLQRLESLEEEIISKGV-KLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGASL 241
Cdd:cd19514 77 -FGVDHDAVLDN--ILYARAYTSEHQMELLDYVAAKFHEEAVfRLLIIDSIMALFRVDFSGR--GELAERQQKLAQMLSR 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 242 LKYLAGEFSIPVILTNQITTHLSGALPSQADLVSPADdlslsegtsgssclvaalGNTWGHCVNTRLILQYLDSERRQIL 321
Cdd:cd19514 152 LQKISEEYNVAVFITNQVTADPGAAMTFQADPKKPIG------------------GHILAHASTTRISLRKGRGEERIAK 213
|
....*
gi 31982072 322 IAKSP 326
Cdd:cd19514 214 IYDSP 218
|
|
| Rad51_DMC1_archRadA |
cd01123 |
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ... |
83-342 |
3.81e-33 |
|
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: 123.02 E-value: 3.81e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAesrfpQ 162
Cdd:cd01123 1 ITTGSKELDKLLGGGIETGSITEMFGEFRTGKTQLCHTLAVTCQLPIDRGGGEGKAIYIDTEGTFRPERLRAIA-----Q 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 163 YFNTEEKLLLtsSRVHLCRELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGASLL 242
Cdd:cd01123 76 RFGLDPDDVL--DNVAYARAFNSDHQTQLLDQAAAMMVESRFKLLIVDSATALYRTDYSGR--GELSARQMHLAKFLRML 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 243 KYLAGEFSIPVILTNQITTHLSGALPSQADLVSPADdlslsegtsgssclvaalGNTWGHCVNTRLILQYLDSERRQILI 322
Cdd:cd01123 152 QRLADEFGVAVVVTNQVVAQVDGAMMFAADPKKPIG------------------GNILAHASTTRLYLRKGRGETRICKI 213
|
250 260
....*....|....*....|
gi 31982072 323 AKSPLAAFTSFVYTIKGEGL 342
Cdd:cd01123 214 YDSPCLPEAEAVFAITADGV 233
|
|
| PLN03186 |
PLN03186 |
DNA repair protein RAD51 homolog; Provisional |
37-342 |
3.87e-33 |
|
DNA repair protein RAD51 homolog; Provisional
Pssm-ID: 178728 [Multi-domain] Cd Length: 342 Bit Score: 125.62 E-value: 3.87e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 37 ELMKVTGLSYRGVHELLHTVSKACAPQMQTAYELKTRRSAHLSpafLSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQ 116
Cdd:PLN03186 62 DLLQIKGISEAKVEKILEAASKLVPLGFTTASQLHAQRQEIIQ---ITTGSRELDKILEGGIETGSITEIYGEFRTGKTQ 138
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 117 FCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAEsRFPqyFNTEEKLlltsSRVHLCRELTCEGLLQRLESLE 196
Cdd:PLN03186 139 LCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAE-RFG--LNGADVL----ENVAYARAYNTDHQSELLLEAA 211
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 197 EEIISKGVKLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGASLLKYLAGEFSIPVILTNQITTHLSGALPSQADLVSP 276
Cdd:PLN03186 212 SMMAETRFALMIVDSATALYRTEFSGR--GELSARQMHLGKFLRSLQRLADEFGVAVVITNQVVAQVDGSAFFAGPQLKP 289
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 31982072 277 ADdlslsegtsgssclvaalGNTWGHCVNTRLILQYLDSERRQILIAKSPLAAFTSFVYTIKGEGL 342
Cdd:PLN03186 290 IG------------------GNIMAHASTTRLALRKGRGENRICKVISSPCLPEAEARFSISSEGV 337
|
|
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
96-325 |
4.55e-33 |
|
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: 121.97 E-value: 4.55e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 96 GGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGglegaVVYIDTESAFTAERLVEIAESRfpqyFNTEEKLLLTSS 175
Cdd:cd19489 2 GGLRTGEITELVGESSSGKTQLCLTAAANVASRSGQN-----VLYIDTKSSFSARRLAQILKSR----AQDAEEIDKALQ 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 176 RVHLCRELTCEGLLQRLESL------EEEIISKGVKLVIVDSIASVvrkeFDPKLQGNIK-ERNKFLGKGASLLKYLAGE 248
Cdd:cd19489 73 RIRVVRVFDPYELLDLLEELrntlsqQQENLYSRLKLVIIDSLSAL----ISPLLGGSKHsEGHALLASLARLLKKLAAE 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 249 FSIPVILTNQITThlsgalpsqadlvspaddlSLSEGTSGSSClvAALGNTWGHCVNTRLILQYLD-----SERRQILIA 323
Cdd:cd19489 149 YQIAVLVTNLTVR-------------------GGDGGQQGSTK--PALGEYWESVPSTRLLLSRDEndpeeSGVCTATLL 207
|
..
gi 31982072 324 KS 325
Cdd:cd19489 208 KS 209
|
|
| recomb_RAD51 |
TIGR02239 |
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ... |
37-342 |
1.08e-31 |
|
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: 121.37 E-value: 1.08e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 37 ELMKVTGLSYRGVHELLHTVSKACAPQMQTAYELKTRRSAHLSpafLSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQ 116
Cdd:TIGR02239 35 QLLEIKGISEAKADKILAEAAKLVPMGFTTATEFHQRRQEVIQ---LTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQ 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 117 FCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAEsRFPqyFNTEEKLlltsSRVHLCRELTCEGLLQRLESLE 196
Cdd:TIGR02239 112 LCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAE-RYG--LNPEDVL----DNVAYARAYNTDHQLQLLQQAA 184
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 197 EEIISKGVKLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGASLLKYLAGEFSIPVILTNQITTHLSGALPS-QADLVS 275
Cdd:TIGR02239 185 AMMSESRFALLIVDSATALYRTDFSGR--GELSARQMHLARFLRSLQRLADEFGVAVVITNQVVAQVDGAGSMfAGDPKK 262
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 31982072 276 PADdlslsegtsgssclvaalGNTWGHCVNTRLILQYLDSERRQILIAKSPLAAFTSFVYTIKGEGL 342
Cdd:TIGR02239 263 PIG------------------GNIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAMFAIYEDGI 311
|
|
| PLN03187 |
PLN03187 |
meiotic recombination protein DMC1 homolog; Provisional |
5-265 |
4.42e-31 |
|
meiotic recombination protein DMC1 homolog; Provisional
Pssm-ID: 215620 [Multi-domain] Cd Length: 344 Bit Score: 120.27 E-value: 4.42e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 5 KLRRVGLSPELCDRLSRYQIVNCQHFLSLSPLELMKVTGLSYRGVHELLHTVSKACAPQMQTAYELKTRRSAHLSpafLS 84
Cdd:PLN03187 33 KLISQGINAGDVKKLQDAGIYTCNGLMMHTKKNLTGIKGLSEAKVDKICEAAEKLLNQGFITGSDALLKRKSVVR---IT 109
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 85 TTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAESrfpqyF 164
Cdd:PLN03187 110 TGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAER-----F 184
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 165 NTEEKLLLtsSRVHLCRELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGASLLKY 244
Cdd:PLN03187 185 GMDADAVL--DNIIYARAYTYEHQYNLLLGLAAKMAEEPFRLLIVDSVIALFRVDFTGR--GELAERQQKLAQMLSRLTK 260
|
250 260
....*....|....*....|.
gi 31982072 245 LAGEFSIPVILTNQITTHLSG 265
Cdd:PLN03187 261 IAEEFNVAVYMTNQVIADPGG 281
|
|
| Rad51 |
cd19513 |
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ... |
83-341 |
4.72e-31 |
|
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: 117.42 E-value: 4.72e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAEsRFPq 162
Cdd:cd19513 1 ITTGSKELDKLLGGGIETGSITELFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAE-RYG- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 163 yFNTEEKLlltsSRVHLCRELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGASLL 242
Cdd:cd19513 79 -LNGEDVL----DNVAYARAYNTDHQMQLLIQASAMMAESRYALLIVDSATALYRTDYSGR--GELSARQMHLAKFLRML 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 243 KYLAGEFSIPVILTNQITTHLSGALPSQADLVSPADdlslsegtsgssclvaalGNTWGHCVNTRLILQYLDSERRQILI 322
Cdd:cd19513 152 QRLADEFGVAVVITNQVVAQVDGAAMFAGDPKKPIG------------------GNIMAHASTTRLYLRKGRGETRICKI 213
|
250
....*....|....*....
gi 31982072 323 AKSPLAAFTSFVYTIKGEG 341
Cdd:cd19513 214 YDSPCLPEAEAVFAITEDG 232
|
|
| archRadA |
cd19515 |
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ... |
83-259 |
1.15e-30 |
|
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: 116.31 E-value: 1.15e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAESRfpq 162
Cdd:cd19515 1 ISTGSKELDKLLGGGIETQAITEVFGEFGSGKTQLCHQLAVNVQLPPEEGGLNGKAVYIDTENTFRPERIMQMAKAL--- 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 163 YFNTEEKLlltsSRVHLCRELTCEGLLQRLESLeEEIISKG--VKLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGAS 240
Cdd:cd19515 78 GLDPDEVL----DNIYVARAYNSNHQMLLVEKA-EDLIKEGnnIKLLIVDSLTSHFRAEYVGR--GTLAERQQKLNKHLH 150
|
170
....*....|....*....
gi 31982072 241 LLKYLAGEFSIPVILTNQI 259
Cdd:cd19515 151 DLHRLADLYNIAVLVTNQV 169
|
|
| recomb_radA |
TIGR02236 |
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ... |
34-259 |
4.04e-30 |
|
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: 116.77 E-value: 4.04e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 34 SPLELMKVTGLSYRGVHELLHTVSKAC-APQMQTAYELKTRRSahlSPAFLSTTLCALDEALHGGVPCGSLTEITGPPGC 112
Cdd:TIGR02236 30 SPKELSEIAGISEGTAAKIIQAARKAAdLGGFETADDVLERRK---TIGKITTGSKELDELLGGGIETQAITEVFGEFGS 106
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 113 GKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERLVEIAESRfpqYFNTEEKLlltsSRVHLCRELTCEGLLQRL 192
Cdd:TIGR02236 107 GKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEAR---GLDPDEVL----KNIYVARAYNSNHQMLLV 179
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 193 ESLeEEIISKG---VKLVIVDSIASVVRKEFDPKlqGNIKERNKFLGKGASLLKYLAGEFSIPVILTNQI 259
Cdd:TIGR02236 180 EKA-EDLIKELnnpVKLLIVDSLTSHFRAEYVGR--GALAERQQKLNKHLHDLLRLADLYNAAVVVTNQV 246
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
83-261 |
6.13e-27 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 106.10 E-value: 6.13e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLptslggLEGAVVYIDTESaFTAERLVEIAESRFpq 162
Cdd:PRK09361 5 LPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAK------NGKKVIYIDTEG-LSPERFKQIAGEDF-- 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 163 yfnteEKLLltsSRVHLCRELTCEGLLQRLESLeEEIISKGVKLVIVDSIASVVRKEFDPklQGNIKERNKFLGKGASLL 242
Cdd:PRK09361 76 -----EELL---SNIIIFEPSSFEEQSEAIRKA-EKLAKENVGLIVLDSATSLYRLELED--EEDNSKLNRELGRQLTHL 144
|
170
....*....|....*....
gi 31982072 243 KYLAGEFSIPVILTNQITT 261
Cdd:PRK09361 145 LKLARKHDLAVVITNQVYS 163
|
|
| archRadB |
cd01394 |
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ... |
83-261 |
8.46e-26 |
|
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: 102.78 E-value: 8.46e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLAtlpTSLGGLegaVVYIDTEsAFTAERLVEIAESRFPQ 162
Cdd:cd01394 1 LSTGSKSLDSLLGGGVERGTITQIYGPPGSGKTNICLQLAVEA---AKQGKK---VVYIDTE-GLSPERFQQIAGERFES 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 163 YFNTeekllLTSSRVHLCRELtcEGLLQRLESLEEeiiSKGVKLVIVDSIASVVRKEfdpklQGNIKERNKFLGKGASLL 242
Cdd:cd01394 74 IASN-----IIVFEPYSFDEQ--GVAIQEAEKLLK---SDKVDLVVVDSATALYRLE-----LGDDSEANRELSRQMSKL 138
|
170
....*....|....*....
gi 31982072 243 KYLAGEFSIPVILTNQITT 261
Cdd:cd01394 139 LSIARKYDIPVVITNQVYS 157
|
|
| recomb_radB |
TIGR02237 |
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ... |
90-261 |
6.22e-25 |
|
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: 100.18 E-value: 6.22e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 90 LDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATlptslgGLEGAVVYIDTEsAFTAERLVEIAESRFPQYFnteEK 169
Cdd:TIGR02237 1 IDELLGGGVERGTITQIYGPPGSGKTNICMILAVNAA------RQGKKVVYIDTE-GLSPERFKQIAEDRPERAL---SN 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 170 LLLtsSRVHLCRELtcEGLLQRLESLeeeIISKGVKLVIVDSIASVVRKEfdpkLQGNIKERNKFLGKGASLLKYLAGEF 249
Cdd:TIGR02237 71 FIV--FEVFDFDEQ--GVAIQKTSKF---IDRDSASLVVVDSFTALYRLE----LSDDRISRNRELARQLTLLLSLARKK 139
|
170
....*....|..
gi 31982072 250 SIPVILTNQITT 261
Cdd:TIGR02237 140 NLAVVITNQVYT 151
|
|
| XRCC2 |
cd19490 |
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ... |
101-311 |
2.40e-23 |
|
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: 96.26 E-value: 2.40e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 101 GSLTEITGPPGCGKTQFCIMMSVLATLPTS-----LGGLEGAVVYIDTESAFTAERLVEIAESRFPQ----------YFN 165
Cdd:cd19490 1 GDVIEITGPSGSGKTELLYHLAARCILPSSwggvpLGGLEAAVVFIDTDGRFDILRLRSILEARIRAaiqaanssddEED 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 166 TEEKLLLTSSRVHLCRELTCEGLLQRLESLEEEIIS----KGVKLVIVDSIAS---VVRKEFDPKLQGNIKERNkFLGKG 238
Cdd:cd19490 81 VEEIARECLQRLHIFRCHSSLQLLATLLSLENYLLSlsanPELGLLLIDSISAfywQDRFSAELARAAPLLQEA-ALRAI 159
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 31982072 239 ASLLKYLAGEFSIPVILTNQITTHLSGALPSQADLVSPADDLSLSEGTSgssclvaALGNTWGHCVNTRLILQ 311
Cdd:cd19490 160 LRELRRLRRRFQLVVIATKQALFPGKSASTDNPAANNAVSKASAPSHRE-------YLPRPWQRLVTHRLVLS 225
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
94-339 |
1.91e-11 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 64.15 E-value: 1.91e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 94 LHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLE---GAVVYIDTE--SAFTAERLVEIAESRFPQYFNTEE 168
Cdd:COG3598 6 VPGLLPEGGVTLLAGPPGTGKSFLALQLAAAVAAGGPWLGRRvppGKVLYLAAEddRGELRRRLKALGADLGLPFADLDG 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 169 KLLLTSSRVHLCRELTcegllqrLESLEEEIISKGVKLVIVDSIASVVRKEfdpklqgniKERNKFLGKGASLLKYLAGE 248
Cdd:COG3598 86 RLRLLSLAGDLDDTDD-------LEALERAIEEEGPDLVVIDPLARVFGGD---------ENDAEEMRAFLNPLDRLAER 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 249 FSIPVILtnqiTTHlsgalPSQADLVSPADDlslseGTSGSSCLVAAlgntwghcVNTRLILQYL-DSERRQILIAKSPL 327
Cdd:COG3598 150 TGAAVLL----VHH-----TGKGGAGKDSGD-----RARGSSALRGA--------ARSVLVLSREkGEDLRVLTRAKSNY 207
|
250
....*....|..
gi 31982072 328 AAFTSFVYTIKG 339
Cdd:COG3598 208 GPEIALRWDNGG 219
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
90-232 |
5.73e-11 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 61.47 E-value: 5.73e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 90 LDEALHGGVPCGSLTEITGPPGCGKTQFCimMSVLAtlptslgglEGA-----VVYIDTESafTAERLVEIAESR---FP 161
Cdd:COG0467 9 LDELLGGGLPRGSSTLLSGPPGTGKTTLA--LQFLA---------EGLrrgekGLYVSFEE--SPEQLLRRAESLgldLE 75
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 31982072 162 QYFNtEEKLLLtssrVHLCRELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPK--------LQGNIKERN 232
Cdd:COG0467 76 EYIE-SGLLRI----IDLSPEELGLDLEELLARLREAVEEFGAKRVVIDSLSGLLLALPDPErlreflhrLLRYLKKRG 149
|
|
| RecA |
COG0468 |
RecA/RadA recombinase [Replication, recombination and repair]; |
89-259 |
5.86e-11 |
|
RecA/RadA recombinase [Replication, recombination and repair];
Pssm-ID: 440236 [Multi-domain] Cd Length: 351 Bit Score: 62.88 E-value: 5.86e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 89 ALDEAL-HGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLptsLGGLegaVVYIDTESAFT---AERL-VEIaesrfpqy 163
Cdd:COG0468 50 ALDIALgVGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK---AGGI---AAFIDAEHALDpeyAKKLgVDI-------- 115
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 164 fnteEKLLLTSSRvhlcrelTCEgllQRLESLEEEIISKGVKLVIVDSIASVVRKEfdpKLQGNIKErnKFLGKGASL-- 241
Cdd:COG0468 116 ----DNLLVSQPD-------TGE---QALEIAETLVRSGAVDLIVVDSVAALVPKA---EIEGEMGD--SHVGLQARLms 176
|
170 180
....*....|....*....|....*
gi 31982072 242 --LKYLAGefSIP-----VILTNQI 259
Cdd:COG0468 177 qaLRKLTG--AISksnttVIFINQL 199
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
90-258 |
9.97e-10 |
|
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: 58.04 E-value: 9.97e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 90 LDEALHGGVPCGSLTEITGPPGCGKTQFCimmsvLATLPTSLgGLEGAVVYIDTESafTAERLVEIAESRFPQY--FNTE 167
Cdd:cd01124 8 LDELLGGGIPKGSVTLLTGGPGTGKTLFG-----LQFLYAGA-KNGEPGLFFTFEE--SPERLLRNAKSFGWDFdeMEDE 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 168 EKLLLTSSRVHLCRELTCEGLLQRLESleeEIISKGVKLVIVDSIASvvrkefdpkLQGNIKERNKFLGKGASLLKYLAG 247
Cdd:cd01124 80 GKLIIVDAPPTEAGRFSLDELLSRILS---IIKSFKAKRVVIDSLSG---------LRRAKEDQMRARRIVIALLNELRA 147
|
170
....*....|.
gi 31982072 248 EFsIPVILTNQ 258
Cdd:cd01124 148 AG-VTTIFTSE 157
|
|
| ATPase |
pfam06745 |
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ... |
90-232 |
5.39e-09 |
|
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: 55.71 E-value: 5.39e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 90 LDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVlatlptslgglEGAV------VYIDTESafTAERLVEIAES---RF 160
Cdd:pfam06745 8 LDEILKGGFPEGRVVLITGGPGTGKTIFGLQFLY-----------NGALkygepgVFVTLEE--PPEDLRENARSfgwDL 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 161 PQYFNtEEKLL---LTSSRVHLCRELTCEGLLQRLESLEEEIISKGVKLVIVDSIAS--------VVRKEFDpKLQGNIK 229
Cdd:pfam06745 75 EKLEE-EGKLAiidASTSGIGIAEVEDRFDLEELIERLREAIREIGAKRVVIDSITTlfyllkpaVAREILR-RLKRVLK 152
|
...
gi 31982072 230 ERN 232
Cdd:pfam06745 153 GLG 155
|
|
| RecA |
cd00983 |
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
82-259 |
5.02e-08 |
|
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: 52.94 E-value: 5.02e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 82 FLSTTLCALDEAL-HGGVPCGSLTEITGPPGCGKTQfcIMMSVLAtlptSLGGLEGAVVYIDTESAFT---AERL-VEIa 156
Cdd:cd00983 4 VIPTGSLSLDIALgIGGLPRGRIIEIYGPESSGKTT--LALHAIA----EAQKLGGTAAFIDAEHALDpeyAKKLgVDI- 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 157 esrfpqyfnteEKLLltssrvhLCRELTCEgllQRLESLEEEIISKGVKLVIVDSIASVVrkefdPK--LQGNIKERN-- 232
Cdd:cd00983 77 -----------DNLL-------VSQPDTGE---QALEIADTLIRSGAVDLIVVDSVAALV-----PKaeIEGEMGDSHvg 130
|
170 180 190
....*....|....*....|....*....|
gi 31982072 233 ---KFLGKGASLLKYLAGEFSIPVILTNQI 259
Cdd:cd00983 131 lqaRLMSQALRKLTGSLSKSKTTVIFINQL 160
|
|
| RecA |
pfam00154 |
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ... |
83-259 |
7.31e-06 |
|
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: 46.62 E-value: 7.31e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALH-GGVPCGSLTEITGPPGCGKTQfcIMMSVLAtlptSLGGLEGAVVYIDTESAFTaerlveiaesrfP 161
Cdd:pfam00154 33 ISTGSLALDIALGiGGYPKGRIIEIYGPESSGKTT--LALHAIA----EAQKAGGTAAFIDAEHALD------------P 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 162 QY-----FNTEEklLLTSsrvhlcRELTCEgllQRLESLEEEIISKGVKLVIVDSIASVVRKEfdpKLQGNIKERNkfLG 236
Cdd:pfam00154 95 VYakklgVDIDN--LLVS------QPDTGE---QALEIADMLVRSGAIDLIVVDSVAALVPKA---EIEGEMGDSH--VG 158
|
170 180 190
....*....|....*....|....*....|
gi 31982072 237 KGASL----LKYLAGEFS---IPVILTNQI 259
Cdd:pfam00154 159 LQARLmsqaLRKLTGSISksnTTVIFINQI 188
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
101-267 |
1.19e-05 |
|
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: 44.67 E-value: 1.19e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 101 GSLTEITGPPGCGKTQFCIMMSVLatlptsLGGLEGAVVYIDTESAFTAERLVEIAESRFPQYFNTEekllltssrvhlc 180
Cdd:smart00382 2 GEVILIVGPPGSGKTTLARALARE------LGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGS------------- 62
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 181 RELTCEGLLQRLESLeeeiiskGVKLVIVDSIASVVRKEFDPKLQGNIKERNKFLgkgasllkyLAGEFSIPVILTNQIT 260
Cdd:smart00382 63 GELRLRLALALARKL-------KPDVLILDEITSLLDAEQEALLLLLEELRLLLL---------LKSEKNLTVILTTNDE 126
|
....*..
gi 31982072 261 THLSGAL 267
Cdd:smart00382 127 KDLGPAL 133
|
|
| AAA_25 |
pfam13481 |
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins. |
78-217 |
1.36e-05 |
|
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: 45.45 E-value: 1.36e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 78 LSPAFLSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLE-----GAVVYIDTE-SAFTAER 151
Cdd:pfam13481 10 VLADGLAAPPPPRRWLIKGLLPAGGLGLLAGAPGTGKTTLALDLAAAVATGKPWLGGPrvpeqGKVLYVSAEgPADELRR 89
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 152 LVEIAESRFPQyfntEEKLLLTSSRVHLC-RELTCEGLL--QRLESLEEEII-SKGVKLVIVDSIASVVR 217
Cdd:pfam13481 90 RLRAAGADLDL----PARLLFLSLVESLPlFFLDRGGPLldADVDALEAALEeVEDPDLVVIDPLARALG 155
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
83-260 |
6.75e-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: 44.06 E-value: 6.75e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQfcIMMSVLAtlptSLGGLEGAVVYIDTEsaftaERLVEIAeSRFpq 162
Cdd:cd01121 64 ISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKST--LLLQVAA----RLAQRGGKVLYVSGE-----ESLSQIK-LRA-- 129
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 163 yfnteEKLLLTSSRVHLCREltcegllQRLESLEEEIISKGVKLVIVDSIASVvrkeFDPKLQG------NIKErnkflg 236
Cdd:cd01121 130 -----ERLGLGSDNLYLLAE-------TNLEAILAEIEELKPSLVVIDSIQTV----YSPELTSspgsvsQVRE------ 187
|
170 180
....*....|....*....|....
gi 31982072 237 kGASLLKYLAGEFSIPVILTNQIT 260
Cdd:cd01121 188 -CAAELLRLAKETGIPVFLVGHVT 210
|
|
| KaiC-like_C |
cd19487 |
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
83-278 |
1.44e-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: 42.67 E-value: 1.44e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFcimmsvlatlptslgglegAVVYIdTESAFTAERLVeiaesrfpq 162
Cdd:cd19487 1 VSSGVPELDELLGGGLERGTSTLLIGPAGVGKSTL-------------------ALQFA-KAAAARGERSV--------- 51
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 163 YFNTEEKLLLTSSRVHL----CRELTCEGLL--QRLESLE-----------EEIISKGVKLVIVDSIASvvrkefdpkLQ 225
Cdd:cd19487 52 LFSFDESIGTLFERSEAlgidLRAMVEKGLLsiEQIDPAElspgefaqrvrTSVEQEDARVVVIDSLNG---------YL 122
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 31982072 226 GNIKERNKFLGKGASLLKYLaGEFSIPVILTNQITTHLSGALPSQADLVSPAD 278
Cdd:cd19487 123 NAMPDERFLILQMHELLSYL-NNQGVTTLLIVAQHGLLGGDMGTPVDISYLAD 174
|
|
| KaiC-N |
cd19485 |
N-terminal domain of Circadian Clock Protein Kaic; KaiC is a circadian clock protein, most ... |
83-232 |
5.99e-04 |
|
N-terminal domain of Circadian Clock Protein Kaic; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.
Pssm-ID: 410893 [Multi-domain] Cd Length: 226 Bit Score: 40.81 E-value: 5.99e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFCimMSVLATLPTSLGglEGaVVYIDTESafTAERLVEIAESrFP- 161
Cdd:cd19485 1 LPTGIEGFDDITHGGLPKGRPTLICGTAGTGKTLFA--AQFLVNGIKEFG--EP-GVFVTFEE--SPEDIIKNMAS-FGw 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 162 --QYFNTEEKLLLTSSRVHLCR-----ELTCEGLLQRLESLEEEIiskGVKLVIVDSI---------ASVVRKEFDpKLQ 225
Cdd:cd19485 73 dlPKLVAEGKLLILDASPEPSEeevtgEYDLEALLIRIEYAIRKI---GAKRVSLDSLeavfsglsdSAVVRAELL-RLF 148
|
....*..
gi 31982072 226 GNIKERN 232
Cdd:cd19485 149 AWLKQKG 155
|
|
| RepA_RSF1010_like |
cd01125 |
Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family ... |
101-215 |
2.51e-03 |
|
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: 38.90 E-value: 2.51e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 101 GSLTEITGPPGCGKTQFCIMMSV-LATLPTSLGGLE---GAVVYIdtesafTAERLVEIAESRFPQYFnteekLLLTSSR 176
Cdd:cd01125 1 GTLGMLVGPPGSGKSFLALDLAVaVATGRDWLGERRvkqGRVVYL------AAEDPRDGLRRRLKAIG-----AHLGDED 69
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 31982072 177 VHLCRELTCEGL------LQRLESLEEEIIS--KGVKLVIVDSIASV 215
Cdd:cd01125 70 AALAENLVIENLrgkpvsIDAEAPELERIIEelEGVRLIIIDTLARV 116
|
|
| KaiC_arch |
cd19486 |
KaiC family protein; uncharacterized subfamily similar to Pyrococcus horikoshii PH0284; KaiC ... |
83-118 |
5.72e-03 |
|
KaiC family protein; uncharacterized subfamily similar to Pyrococcus horikoshii PH0284; 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: 410894 Cd Length: 230 Bit Score: 37.84 E-value: 5.72e-03
10 20 30
....*....|....*....|....*....|....*.
gi 31982072 83 LSTTLCALDEALHGGVPCGSLTEITGPPGCGKTQFC 118
Cdd:cd19486 1 VKTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFS 36
|
|
| PRK13853 |
PRK13853 |
type IV secretion system protein VirB4; Provisional |
103-142 |
6.64e-03 |
|
type IV secretion system protein VirB4; Provisional
Pssm-ID: 139913 [Multi-domain] Cd Length: 789 Bit Score: 38.30 E-value: 6.64e-03
10 20 30 40
....*....|....*....|....*....|....*....|
gi 31982072 103 LTEITGPPGCGKTQFciMMSVLATLPTSLGGLEGAVVYID 142
Cdd:PRK13853 428 MTAIFGPIGRGKTTL--MTFILAMLEQSMVDRAGAVVFFD 465
|
|
| PRK09302 |
PRK09302 |
circadian clock protein KaiC; Reviewed |
90-117 |
7.04e-03 |
|
circadian clock protein KaiC; Reviewed
Pssm-ID: 236461 [Multi-domain] Cd Length: 509 Bit Score: 38.32 E-value: 7.04e-03
10 20
....*....|....*....|....*...
gi 31982072 90 LDEALHGGVPCGSLTEITGPPGCGKTQF 117
Cdd:PRK09302 20 FDDITHGGLPKGRPTLVSGTAGTGKTLF 47
|
|
| TniB |
pfam05621 |
Bacterial TniB protein; This family consists of several bacterial TniB NTP-binding proteins. ... |
106-255 |
8.30e-03 |
|
Bacterial TniB protein; This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein which is involved in Tn5053 mercury resistance transposition. This entry represents a P-loop domain.
Pssm-ID: 428547 Cd Length: 189 Bit Score: 36.80 E-value: 8.30e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31982072 106 ITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTAERL-VEIAESRFPQYFNTEEKLLLTSSRVHLCRELt 184
Cdd:pfam05621 40 LVGDSNNGKTMIVERFARLHPPTDDEDAEIVPVVVVQMPPKPDEKRLyVAILEALGAPFRPRDRLSKLEQQVLRLLRAV- 118
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 31982072 185 cegllqrlesleeeiiskGVKLVIVDsiasvvrkEFDPKLQGNIKERNKFLGkgasLLKYLAGEFSIPVIL 255
Cdd:pfam05621 119 ------------------GVRMLIID--------EFHNLLAGSARKQREFLN----VLKSLGNELRIPIVG 159
|
|
| |
