|
Name |
Accession |
Description |
Interval |
E-value |
| PRK01810 |
PRK01810 |
DNA polymerase IV; Validated |
3-408 |
0e+00 |
|
DNA polymerase IV; Validated
Pssm-ID: 179337 [Multi-domain] Cd Length: 407 Bit Score: 820.43 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 3 GKGRIIFHIDMNSFYASVEMAYDPALRGKPVAVAGNVKERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFD 82
Cdd:PRK01810 2 KKGRVIFHVDMNSFFASVEIAYDPSLQGKPLAVAGNEKERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFD 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 83 RYRNSSRAMFTILREYTDLVEPVSIDEGYMDMTDTPYSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKP 162
Cdd:PRK01810 82 RYREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYALGSPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKP 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 163 LGITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPER 242
Cdd:PRK01810 162 LGITVLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGINGVRLQRRANGIDDRPVDPEA 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 243 IYEFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKEA 322
Cdd:PRK01810 242 IYQFKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYHDRRTITRSKTLKNPIWEKRDIFQAA 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 323 EHLFFKHWNKNPVRLLGITGTDLVEKEQAYKQLDLFSFNEDAKDEPIQQMMEKLNEKYGSKLIRKGAKVKKEESKTKGTS 402
Cdd:PRK01810 322 SRLFKQHWNGDPVRLLGVTATDLEWKTEAVKQLDLFSFEEDAKEEPLLAVIDQINDKYGMPLLQRGSQLLRKQEKTFGTS 401
|
....*.
gi 545117350 403 FNKDFF 408
Cdd:PRK01810 402 FEKDFM 407
|
|
| PolY_Pol_IV_kappa |
cd03586 |
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ... |
9-345 |
1.44e-164 |
|
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a higher error rate than other Y-family polymerases.
Pssm-ID: 176459 [Multi-domain] Cd Length: 334 Bit Score: 465.07 E-value: 1.44e-164
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 9 FHIDMNSFYASVEMAYDPALRGKPVAVAGNvkERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYRNSS 88
Cdd:cd03586 1 IHIDMDAFYASVEQRDNPELKGKPVAVGGS--SDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVS 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 89 RAMFTILREYTDLVEPVSIDEGYMDMTD-TPYSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPLGITI 167
Cdd:cd03586 79 RQIMEILREYTPLVEPLSIDEAYLDVTDyVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTV 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 168 LRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPERiyEFK 247
Cdd:cd03586 159 IPPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDR--ERK 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 248 SVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKEAEHLFF 327
Cdd:cd03586 237 SIGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLE 316
|
330
....*....|....*...
gi 545117350 328 KHWNKNPVRLLGITGTDL 345
Cdd:cd03586 317 ELLDGRPIRLLGVRLSGL 334
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
6-341 |
1.07e-156 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 445.36 E-value: 1.07e-156
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 6 RIIFHIDMNSFYASVEMAYDPALRGKPVAVAGNvkERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYR 85
Cdd:COG0389 1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGD--NNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYR 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 86 NSSRAMFTILREYTDLVEPVSIDEGYMDMTDTP-YSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPLG 164
Cdd:COG0389 79 DVSRRVMAILERYTPLVEPLSIDEAFLDVTGSArLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDG 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 165 ITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPERiy 244
Cdd:COG0389 159 LTVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPVEPRR-- 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 245 EFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKEAEH 324
Cdd:COG0389 237 PRKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAARE 316
|
330
....*....|....*...
gi 545117350 325 LFFKHWNKN-PVRLLGIT 341
Cdd:COG0389 317 LLERIYRPGrPVRLLGVR 334
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
11-158 |
1.44e-65 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 205.89 E-value: 1.44e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 11 IDMNSFYASVEMAYDPALRGKPVAVAGNVkeRKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYRNSSRA 90
Cdd:pfam00817 1 IDMDAFFASVELLRDPELKGKPVAVGGGN--GRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRK 78
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 91 MFTILREY-TDLVEPVSIDEGYMDMTDTPYSSRALET-AKEIQSRLQKELLLPSSIGIAPNKFLAKMASD 158
Cdd:pfam00817 79 IFEILRRFsTPKVEQASIDEAFLDLTGLEKLFGAEEAlAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
|
|
| TIGR03491 |
TIGR03491 |
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ... |
187-215 |
6.97e-04 |
|
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.
Pssm-ID: 274603 [Multi-domain] Cd Length: 457 Bit Score: 41.54 E-value: 6.97e-04
10 20
....*....|....*....|....*....
gi 545117350 187 GVGNKTAEKLKGLGIHTIGELAAADEHSL 215
Cdd:TIGR03491 214 GIGPSRYRLLQELGIHTLEDLAAADPNDL 242
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK01810 |
PRK01810 |
DNA polymerase IV; Validated |
3-408 |
0e+00 |
|
DNA polymerase IV; Validated
Pssm-ID: 179337 [Multi-domain] Cd Length: 407 Bit Score: 820.43 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 3 GKGRIIFHIDMNSFYASVEMAYDPALRGKPVAVAGNVKERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFD 82
Cdd:PRK01810 2 KKGRVIFHVDMNSFFASVEIAYDPSLQGKPLAVAGNEKERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFD 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 83 RYRNSSRAMFTILREYTDLVEPVSIDEGYMDMTDTPYSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKP 162
Cdd:PRK01810 82 RYREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYALGSPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKP 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 163 LGITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPER 242
Cdd:PRK01810 162 LGITVLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGINGVRLQRRANGIDDRPVDPEA 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 243 IYEFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKEA 322
Cdd:PRK01810 242 IYQFKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYHDRRTITRSKTLKNPIWEKRDIFQAA 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 323 EHLFFKHWNKNPVRLLGITGTDLVEKEQAYKQLDLFSFNEDAKDEPIQQMMEKLNEKYGSKLIRKGAKVKKEESKTKGTS 402
Cdd:PRK01810 322 SRLFKQHWNGDPVRLLGVTATDLEWKTEAVKQLDLFSFEEDAKEEPLLAVIDQINDKYGMPLLQRGSQLLRKQEKTFGTS 401
|
....*.
gi 545117350 403 FNKDFF 408
Cdd:PRK01810 402 FEKDFM 407
|
|
| PolY_Pol_IV_kappa |
cd03586 |
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ... |
9-345 |
1.44e-164 |
|
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a higher error rate than other Y-family polymerases.
Pssm-ID: 176459 [Multi-domain] Cd Length: 334 Bit Score: 465.07 E-value: 1.44e-164
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 9 FHIDMNSFYASVEMAYDPALRGKPVAVAGNvkERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYRNSS 88
Cdd:cd03586 1 IHIDMDAFYASVEQRDNPELKGKPVAVGGS--SDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVS 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 89 RAMFTILREYTDLVEPVSIDEGYMDMTD-TPYSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPLGITI 167
Cdd:cd03586 79 RQIMEILREYTPLVEPLSIDEAYLDVTDyVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTV 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 168 LRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPERiyEFK 247
Cdd:cd03586 159 IPPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDR--ERK 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 248 SVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKEAEHLFF 327
Cdd:cd03586 237 SIGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLE 316
|
330
....*....|....*...
gi 545117350 328 KHWNKNPVRLLGITGTDL 345
Cdd:cd03586 317 ELLDGRPIRLLGVRLSGL 334
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
6-341 |
1.07e-156 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 445.36 E-value: 1.07e-156
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 6 RIIFHIDMNSFYASVEMAYDPALRGKPVAVAGNvkERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYR 85
Cdd:COG0389 1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGD--NNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYR 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 86 NSSRAMFTILREYTDLVEPVSIDEGYMDMTDTP-YSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPLG 164
Cdd:COG0389 79 DVSRRVMAILERYTPLVEPLSIDEAFLDVTGSArLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDG 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 165 ITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPERiy 244
Cdd:COG0389 159 LTVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPVEPRR-- 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 245 EFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKEAEH 324
Cdd:COG0389 237 PRKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAARE 316
|
330
....*....|....*...
gi 545117350 325 LFFKHWNKN-PVRLLGIT 341
Cdd:COG0389 317 LLERIYRPGrPVRLLGVR 334
|
|
| PRK02406 |
PRK02406 |
DNA polymerase IV; Validated |
13-358 |
6.88e-121 |
|
DNA polymerase IV; Validated
Pssm-ID: 235035 [Multi-domain] Cd Length: 343 Bit Score: 354.42 E-value: 6.88e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 13 MNSFYASVEMAYDPALRGKPVAVAGNVKERkGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYRNSSRAMF 92
Cdd:PRK02406 1 MDCFYAAVEMRDNPELRGKPVAVGGSPGRR-GVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIR 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 93 TILREYTDLVEPVSIDEGYMDMTDTP-YSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPLGITILRKR 171
Cdd:PRK02406 80 EIFRRYTDLIEPLSLDEAYLDVTDNKlCIGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPE 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 172 QVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPERIYefKSVGN 251
Cdd:PRK02406 160 EVDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKFGRRLYERARGIDERPVKPDRER--KSVGV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 252 SSTLSHDSSDEEELLGVFRKLAASVSDRLQRK--EVMASKLFIMIRYADWKTITRSTTlRNPIDQKNDILKEAEHLFFKH 329
Cdd:PRK02406 238 ERTFAEDLYDLEACLAELPRLAEKLERRLERAkpDKRIKTVGVKLKFADFQQTTKEHT-ADPLDKADLIELLAQALLRRL 316
|
330 340
....*....|....*....|....*....
gi 545117350 330 WNKnPVRLLGITGTDLveKEQAYKQLDLF 358
Cdd:PRK02406 317 GGR-GVRLLGVGVTLL--EPQLERQLLLD 342
|
|
| PRK03103 |
PRK03103 |
DNA polymerase IV; Reviewed |
4-389 |
1.69e-120 |
|
DNA polymerase IV; Reviewed
Pssm-ID: 235104 [Multi-domain] Cd Length: 409 Bit Score: 355.85 E-value: 1.69e-120
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 4 KGRIIFHIDMNSFYASVEMAYDPALRGKPVAVAGNVKERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDR 83
Cdd:PRK03103 1 MERVILLVDMQSFYASVEKAANPELKGRPVIVSGDPERRSGVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVKPRMQR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 84 YRNSSRAMFTILREYTDLVEPVSIDEGYMDMTdtpySSRAL-----ETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASD 158
Cdd:PRK03103 81 YIDVSLQITRILEDFTDLVEPFSIDEQFLDVT----GSQKLfgsplEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACD 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 159 M---KKPLGITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHH 235
Cdd:PRK03103 157 NfakKNPDGLFTLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGINGEVLWRTANGIDY 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 236 APVDPERIYEFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYAD--WKT-ITRSTTLRNPI 312
Cdd:PRK03103 237 SPVTPHSLDRQKAIGHQMTLPRDYRGFEEIKVVLLELCEEVCRRARAKGYMGRTVSVSLRGADfdWPTgFSRQMTLPEPT 316
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 545117350 313 DQKNDILKEAEHLFFKHWNKNPVRLLGITGTDLVekEQAYKQLDLFSFNEdaKDEPIQQMMEKLNEKYGSKLIRKGA 389
Cdd:PRK03103 317 NLAMEVYEAACKLFHRHWDGKPVRRVGVTLSNLV--SDDVWQLSLFGDRE--RKRSLGYVMDDIKNRFGPTAILRAS 389
|
|
| PRK14133 |
PRK14133 |
DNA polymerase IV; Provisional |
6-358 |
1.03e-99 |
|
DNA polymerase IV; Provisional
Pssm-ID: 184529 [Multi-domain] Cd Length: 347 Bit Score: 300.87 E-value: 1.03e-99
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 6 RIIFHIDMNSFYASVEMAYDPALRGKPVAVAGnVKERkGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYR 85
Cdd:PRK14133 3 RVIIHVDMDAFFASVEQMDNPKLKGKPVIVGG-ISER-GVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVRHERYK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 86 NSSRAMFTILREYTDLVEPVSIDEGYMDMTDTpySSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPLGI 165
Cdd:PRK14133 81 EVSKNIFKILYEVTPIVEPVSIDEAYLDITNI--KEEPIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGI 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 166 TILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPERiyE 245
Cdd:PRK14133 159 KIITEDMIPDILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEYFGKFGVEIYERIRGIDYREVEVSR--E 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 246 FKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKEAEHL 325
Cdd:PRK14133 237 RKSIGKETTLKKDTKDKEELKKYLKDFSNIISEELKKRNLYGKTVTVKIKTSDFQTHTKSKTLNDYIRDKEEIYNVACEI 316
|
330 340 350
....*....|....*....|....*....|....
gi 545117350 326 fFKHWN-KNPVRLLGITGTDLveKEQAYKQLDLF 358
Cdd:PRK14133 317 -LEHINiKEPIRLIGLSVSNL--SENKIEQLSFL 347
|
|
| PRK02794 |
PRK02794 |
DNA polymerase IV; Provisional |
8-388 |
5.22e-94 |
|
DNA polymerase IV; Provisional
Pssm-ID: 179473 [Multi-domain] Cd Length: 419 Bit Score: 288.75 E-value: 5.22e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 8 IFHIDMNSFYASVEMAYDPALRGKPVAVAGNvkeRKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYRNS 87
Cdd:PRK02794 38 IAHIDCDAFYASVEKRDNPELRDKPVIIGGG---KRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRV 114
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 88 SRAMFTILREYTDLVEPVSIDEGYMDMTDTP---YSSRALETAKeIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPLG 164
Cdd:PRK02794 115 GREVRAMMQALTPLVEPLSIDEAFLDLSGTErlhGAPPAVVLAR-FARRVEREIGITVSVGLSYNKFLAKIASDLDKPRG 193
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 165 ITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPERiy 244
Cdd:PRK02794 194 FSVIGRAEALAFLAPKPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRFGSMGLRLWRLARGIDDRKVSPDR-- 271
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 245 EFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKEAEH 324
Cdd:PRK02794 272 EAKSVSAETTFETDLSDFEDLEPILWRLSEKVSRRLKAAGLAGRTVTLKLKTADFRLRTRRRTLEDPTQLADRIFRTARE 351
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 545117350 325 LFFKHWNKNPVRLLGITGTDLVEKEQAYKQlDLFSFNED--AKDEpiqQMMEKLNEKYGSKLIRKG 388
Cdd:PRK02794 352 LLEKETDGTAFRLIGIGVSDLSPADEADPP-DLLDPQATrrAAAE---RAIDALRAKFGAAAVETG 413
|
|
| PRK03858 |
PRK03858 |
DNA polymerase IV; Validated |
8-382 |
1.96e-85 |
|
DNA polymerase IV; Validated
Pssm-ID: 179663 [Multi-domain] Cd Length: 396 Bit Score: 265.70 E-value: 1.96e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 8 IFHIDMNSFYASVEMAYDPALRGKPVAVAGnvkerkGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYRNS 87
Cdd:PRK03858 6 ILHADLDSFYASVEQRDDPALRGRPVIVGG------GVVLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAYSRA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 88 SRAMFTILREYTDLVEPVSIDEGYMDMTD-TPYSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPLGIT 166
Cdd:PRK03858 80 SKAVFEVFRDTTPLVEGLSIDEAFLDVGGlRRISGTPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLL 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 167 ILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGingprlknKANGVH-HA---PVDPER 242
Cdd:PRK03858 160 VVPPDRELAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVSLLG--------PAAGRHlHAlahNRDPRR 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 243 I---YEFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDIL 319
Cdd:PRK03858 232 VetgRRRRSVGAQRALGRGPNSPAEVDAVVVALVDRVARRMRAAGRTGRTVVLRLRFDDFTRATRSHTLPRPTASTATLL 311
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 545117350 320 KEAEHLFFKHWNKNPVR---LLGITGTDLVekEQAYKQLDLfSFNEDAKDEPIQQMMEKLNEKYGS 382
Cdd:PRK03858 312 AAARDLVAAAAPLIAERgltLVGFAVSNLD--DDGAQQLEL-PFGLRRPGSALDAALDAVRDRFGN 374
|
|
| PRK03348 |
PRK03348 |
DNA polymerase IV; Provisional |
6-358 |
6.01e-84 |
|
DNA polymerase IV; Provisional
Pssm-ID: 235118 [Multi-domain] Cd Length: 454 Bit Score: 263.72 E-value: 6.01e-84
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 6 RIIFHIDMNSFYASVEMAYDPALRGKPVAVAGnVKERkGIVVTCSYEARARGVKTTMPVWQAKRHCPEL-IVLPPNFDRY 84
Cdd:PRK03348 5 RWVLHLDMDAFFASVEQLTRPTLRGRPVLVGG-LGGR-GVVAGASYEARVFGARSAMPMHQARRLVGNGaVVLPPRFVVY 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 85 RNSSRAMFTILREYTDLVEPVSIDEGYMDMTD----TPYSSRALetAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMK 160
Cdd:PRK03348 83 RAASRRVFDTLRELSPVVEQLSFDEAFVEPAElagaSAEEVEAF--AERLRARVREETGLPASVGAGSGKQIAKIASGLA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 161 KPLGITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLG-INGPRLKNKANGVHHAPVD 239
Cdd:PRK03348 161 KPDGIRVVPPGEERELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVANLLGaTVGPALHRLARGIDDRPVA 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 240 PERiyEFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDIL 319
Cdd:PRK03348 241 ERA--EAKQISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKSDFSTLTRSATLPYATDDAAVLA 318
|
330 340 350
....*....|....*....|....*....|....*....
gi 545117350 320 KEAEHLFFKHWNKNPVRLLGITGTDLVEkeqaYKQLDLF 358
Cdd:PRK03348 319 ATARRLLLDPDEIGPIRLVGVGFSGLSD----VRQESLF 353
|
|
| PolY_Pol_V_umuC |
cd01700 |
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ... |
9-341 |
6.12e-80 |
|
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion synthesis (TLS) polymerase that consists of the heterotrimer of one umuC and two umuD subunits. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol V, RecA, single stranded DNA-binding protein, beta sliding clamp, and gamma clamp loading complex are responsible for inducing the SOS response in bacteria to repair UV-induced DNA damage.
Pssm-ID: 176454 [Multi-domain] Cd Length: 344 Bit Score: 249.77 E-value: 6.12e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 9 FHIDMNSFYASVEMAYDPALRGKPVAVAGNVKerkGIVVTCSYEARARGVKTTMPVWQAKRHCPEL--IVLPPNFDRYRN 86
Cdd:cd01700 1 ALVDCNSFYASCERVFRPLLLGRPLVVLSNND---GCVIARSPEAKALGIKMGSPYFKVPDLLERHgvAVFSSNYALYGD 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 87 SSRAMFTILREYTDLVEPVSIDEGYMDMTDTPYSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDM--KKP-- 162
Cdd:cd01700 78 MSRRIMSILERFSPDVEVYSIDESFLDLTGSLRFGDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLakKKNpy 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 163 LGITILRKRQVPD-ILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPE 241
Cdd:cd01700 158 GGVVDLTDEEVRDkLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGVVGERLVRELNGIDCLPLEEY 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 242 RIYEfKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYA----DWKTITRSTTLRNPIDQKND 317
Cdd:cd01700 238 PPPK-KSIGSSRSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGTSgfsrQPKYYSATNTLPYPTNDTRE 316
|
330 340
....*....|....*....|....*
gi 545117350 318 ILKEAEHLFFKHWNKN-PVRLLGIT 341
Cdd:cd01700 317 IVKAALRLLYAIYRPGyAYRKAGVM 341
|
|
| PolY |
cd00424 |
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ... |
9-341 |
3.98e-77 |
|
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Most TLS polymerases are members of the Y-family, including Pol eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is found exclusively in bacteria. In eukaryotes, the B-family polymerase Pol zeta also functions as a TLS polymerase. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention.
Pssm-ID: 176453 [Multi-domain] Cd Length: 343 Bit Score: 242.65 E-value: 3.98e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 9 FHIDMNSFYASVEMAYDPALRGKPVAVAGNVKERkGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYRNSS 88
Cdd:cd00424 1 LHIDFDNFFASVEQLARPELKGRPVVVVPFNSDS-TCVIACSYEARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLS 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 89 RAMFTILREYTDLVEPVSIDEGYMDMTDTPYSSR-ALETAKEIQSRL-QKELLLPSSIGIAPNKFLAKMASDMKKPLGIT 166
Cdd:cd00424 80 ERLLSELEEVAPLVEVASIDELFLDLTGSARLLGlGSEVALRIKRHIaEQLGGITASIGIASNKLLAKLAAKYAKPDGLT 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 167 ILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLG-INGPRLKNKANGVHHAPVDPERiyE 245
Cdd:cd00424 160 ILDPEDLPGFLSKLPLTDLPGIGAVTAKRLEAVGINPIGDLLAASPDALLALWGgVSGERLWYALRGIDDEPLSPPR--P 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 246 FKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYAD--WKTITRSTTLRNPID---QKNDILK 320
Cdd:cd00424 238 RKSFSHERVLPRDSRNAEDARPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDgrWSGHADIPSRSAPRPistEDGELLH 317
|
330 340
....*....|....*....|....
gi 545117350 321 EAEHLFFKHWNKNP---VRLLGIT 341
Cdd:cd00424 318 ALDKLWRALLDDKGprrLRRLGVR 341
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
11-158 |
1.44e-65 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 205.89 E-value: 1.44e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 11 IDMNSFYASVEMAYDPALRGKPVAVAGNVkeRKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYRNSSRA 90
Cdd:pfam00817 1 IDMDAFFASVELLRDPELKGKPVAVGGGN--GRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRK 78
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 91 MFTILREY-TDLVEPVSIDEGYMDMTDTPYSSRALET-AKEIQSRLQKELLLPSSIGIAPNKFLAKMASD 158
Cdd:pfam00817 79 IFEILRRFsTPKVEQASIDEAFLDLTGLEKLFGAEEAlAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
|
|
| PRK03352 |
PRK03352 |
DNA polymerase IV; Validated |
6-340 |
2.69e-65 |
|
DNA polymerase IV; Validated
Pssm-ID: 179564 [Multi-domain] Cd Length: 346 Bit Score: 212.19 E-value: 2.69e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 6 RIIFHIDMNSFYASVEMAYDPALRGKPVAVAGN--VKERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDR 83
Cdd:PRK03352 5 RWVLHVDLDQFIAAVELLRRPELAGLPVIVGGNgdPTEPRKVVTCASYEARAFGVRAGMPLRTAARRCPDAVFLPSDPAA 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 84 YRNSSRAMFTILREYTDLVEPVSIDEGYMDM-TDTPyssraLETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKP 162
Cdd:PRK03352 85 YDAASEEVMATLRDLGVPVEVWGWDEAFLGVdTDDP-----EALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKP 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 163 LGITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLG-INGPRLKNKANGVHHAPVDPE 241
Cdd:PRK03352 160 AGVFRLTDANWMAVMGDRPTDALWGVGPKTAKRLAALGITTVADLAAADPAELAATFGpTTGPWLLLLARGGGDTEVSAE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 242 RiYEFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKE 321
Cdd:PRK03352 240 P-WVPRSRSREVTFPQDLTDRAEVESAVRELARRVLDEVVAEGRPVTRVAVKVRTATFYTRTKIRKLPEPTTDPDVIEAA 318
|
330
....*....|....*....
gi 545117350 322 AEHLFFKHWNKNPVRLLGI 340
Cdd:PRK03352 319 ALDVLDRFELDRPVRLLGV 337
|
|
| PolY_Rev1 |
cd01701 |
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ... |
2-343 |
3.09e-63 |
|
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Rev1 has both structural and enzymatic roles. Structurally, it is believed to interact with other nonclassical polymerases and replication machinery to act as a scaffold. Enzymatically, it catalyzes the specific insertion of dCMP opposite abasic sites. Rev1 interacts with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7). Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.
Pssm-ID: 176455 [Multi-domain] Cd Length: 404 Bit Score: 208.71 E-value: 3.09e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 2 SGKGRIIFHIDMNSFYASVEMAYDPALRGKPVAVAGNVKERKGIVvTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNF 81
Cdd:cd01701 43 PDLQRIIMHVDFDCFFVSVSIRNRPDLKGKPVAVCHGKGPNSEIA-SCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDF 121
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 82 DRYRNSSRAMFTILREYTDLVEPVSIDEGYMDMTDTPYSSRalETAKEIQSRLQKELL----LPSSIGIAPNKFLAKMAS 157
Cdd:cd01701 122 EAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEETY--ELPEELAEAIRNEIRettgCSASVGIGPNILLARLAT 199
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 158 DMKKPLGITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEH--SLKRLLG-INGPRLKNKANGVH 234
Cdd:cd01701 200 RKAKPDGQYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDTCGGLELRSKTkeKLQKVLGpKTGEKLYDYCRGID 279
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 235 HAPVDPERiyEFKSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASK--LFIMIRYAD-------------W 299
Cdd:cd01701 280 DRPVTGEK--ERKSVSAEINYGIRFTNVDDVEQFLQRLSEELSKRLEESNVTGRQitLKLMKRAPGapieppkymghgiC 357
|
330 340 350 360
....*....|....*....|....*....|....*....|....
gi 545117350 300 KTITRSTTLRNPIDQKNDILKEAEHLFFKhWNKNPVRLLGITGT 343
Cdd:cd01701 358 DSFSKSSTLGVATDDSGVIGTEAKKLFRD-LSIPPEELRGVGIQ 400
|
|
| PRK01216 |
PRK01216 |
DNA polymerase IV; Validated |
7-328 |
8.61e-49 |
|
DNA polymerase IV; Validated
Pssm-ID: 179251 [Multi-domain] Cd Length: 351 Bit Score: 169.20 E-value: 8.61e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 7 IIFHIDMNSFYASVEMAYDPALRGKPVAVA--GNVKERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRY 84
Cdd:PRK01216 2 IILFVDFDYFFAQVEEVLNPSLKGKPVVVCvySGRFEDSGAVATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEVY 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 85 RNSSRAMFTILREYTDLVEPVSIDEGYMDMTDTPYSSR-ALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPL 163
Cdd:PRK01216 82 QQVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKNYQdAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPN 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 164 GITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLG-INGPRLKNKANGVHHAPVDPEr 242
Cdd:PRK01216 162 GIKVIDDEEVKRFINELDIADIPGIGDITAEKLKKLGVNKLVDTLRIEFDELKGIIGeAKAKYLFSLARNEYNEPVRAR- 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 243 iyEFKSVGNSSTLSHDSSDEEELLGVFRKlaaSVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIdQKNDILKEA 322
Cdd:PRK01216 241 --VRKSIGRYVTLPRNTRDLEEIKPYLKR---AIEEAYYKLDGIPKAIHVVAIMEDLDIVSRGRTFTHGI-SKETAYREA 314
|
....*.
gi 545117350 323 EHLFFK 328
Cdd:PRK01216 315 VRLLQK 320
|
|
| PolY_Pol_iota |
cd01703 |
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ... |
10-315 |
1.03e-44 |
|
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol iota is thought to be one of the least efficient polymerases, particularly when opposite pyrimidines; it can incorporate the correct nucleotide opposite a purine much more efficiently than opposite a pyrimidine, and prefers to insert guanosine instead of adenosine opposite thymidine. Pol iota is believed to use Hoogsteen rather than Watson-Crick base pairing, which may explain the varying efficiency for different template nucleotides.
Pssm-ID: 176457 [Multi-domain] Cd Length: 379 Bit Score: 159.17 E-value: 1.03e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 10 HIDMNSFYASVEMAYDPALRGKPVAVagnvkERKGIVVTCSYEARARGVKTTMPVWQAKRHCPEL-IVLPPNFDRYRNSS 88
Cdd:cd01703 2 HLDLDCFYAQVEEIRDPSLKSKPLGI-----QQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLvLVNGEDLTPFRDMS 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 89 RAMFTILREYT--DLVEPVSIDEGYMDMTDTpyssRAL---ETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPL 163
Cdd:cd01703 77 KKVYRLLRSYSwnDRVERLGFDENFMDVTEM----RLLvasHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPN 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 164 GITIL---RKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIH----------TIGELAAADEHSLKRLLGI------NGP 224
Cdd:cd01703 153 QQTTLlppSCADLMDFMDLHDLRKIPGIGYKTAAKLEAHGISsvrdlqefsnRNRQTVGAAPSLLELLLMVkefgegIGQ 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 225 RLKNKANGVHHAPVDPERIYEfKSVGNSSTLSHDSSDE-EELLGVFRKLAASVSDRLqRKEVMASKlfimiryADW--KT 301
Cdd:cd01703 233 RIWKLLFGRDTSPVKPASDFP-QQISIEDSYKKCSLEEiREARNKIEELLASLLERM-KQDLQEVK-------AGDgrRP 303
|
330
....*....|....
gi 545117350 302 ITRSTTLRNPIDQK 315
Cdd:cd01703 304 HTLRLTLRRYTSTK 317
|
|
| PolY_Pol_eta |
cd01702 |
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ... |
10-341 |
5.37e-43 |
|
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Unlike other Y-family members, Pol eta can efficiently and accurately replicate DNA past UV-induced lesions. Its activity is initiated by two simultaneous interactions: the PIP box in pol eta interacting with PCNA, and the UBZ (ubiquitin-binding zinc finger) in pol eta interacting with monoubiquitin attached to PCNA. Pol eta is more efficient in copying damaged DNA than undamaged DNA and seems to recognize when a lesion has been passed, facilitating a lesion-dependent dissociation from the DNA.
Pssm-ID: 176456 [Multi-domain] Cd Length: 359 Bit Score: 154.01 E-value: 5.37e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 10 HIDMNSFYASVEMAYDPALRGKPVAVA--GNVkerkgIVVtcSYEARARGVKTTMPVWQAKRHCPELIV----------- 76
Cdd:cd01702 2 HIDMDAFFAQVEQVRLGLLRNDPVAVVqwNSI-----IAV--SYAARAFGVTRFMTIDEAKKKCPDLILahvatykkged 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 77 -------LPPN-----FDRYRNSSRAMFTILREYTDLVEPVSIDEGYMDMtdtpyssrALETAKEIQSRLQKELLLPSSI 144
Cdd:cd01702 75 eadyhenPSPArhkvsLDPYRRASRKILNILKRFGDVVEKASIDEAYLDL--------GSRIVEEIRQQVYDELGYTCSA 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 145 GIAPNKFLAKMASDMKKPLGITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKG-LGIHTIGELAA--ADEHSLKRLLGI 221
Cdd:cd01702 147 GIAHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLPITSIRGLGGKLGEEIIDlLGLPTEGDVAGfrSSESDLQEHFGE 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 222 -NGPRLKNKANGVHHAPVDPeRIYEfKSVGNSSTLS-HDSSDEEELLGVFRKLAASVSDRLQ----RKEVMASKLFIMIR 295
Cdd:cd01702 227 kLGEWLYNLLRGIDHEPVKP-RPLP-KSMGSSKNFPgKTALSTEDVQHWLLVLASELNSRLEddryENNRRPKTLVLSLR 304
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....*.
gi 545117350 296 -YADWKTITRSTTLRNPIDQK---------NDILKEAEHLFfkhWNkNPVRLLGIT 341
Cdd:cd01702 305 qRGDGVRRSRSCALPRYDAQKivkdafkliKAINEEGLGLA---WN-YPLTLLSLS 356
|
|
| PTZ00205 |
PTZ00205 |
DNA polymerase kappa; Provisional |
10-360 |
7.08e-31 |
|
DNA polymerase kappa; Provisional
Pssm-ID: 140232 [Multi-domain] Cd Length: 571 Bit Score: 124.36 E-value: 7.08e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 10 HIDMNSFYASVEMAYDPALRGKPVAVAgnvkeRKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPPNFDRYRNSSR 89
Cdd:PTZ00205 137 HLDMDMFYAAVEIKKHPEYAAIPLAIG-----TMTMLQTANYVARGRGIRQGMPGFLALKICPNLLILPPDFDAYNEESN 211
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 90 AMFTILREYTDLVEPVSIDEGYMDMtdTPYSSR------ALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPL 163
Cdd:PTZ00205 212 TVRRIVAEYDPNYISFGLDELTLEV--SAYIERfegtktAEDVASELRVRVFGETKLTASAGIGPTAALAKIASNINKPN 289
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 164 G---ITILRKRQVPDILWPLPVGEMHGVGNKTAEKLKGLGIHTIG-------ELAAADEHSLKR-LLG-----INGPRLK 227
Cdd:PTZ00205 290 GqhdLNLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKGLGITTLSdiynrrvELCYILHNNLFRfLLGasigiMQWPDAA 369
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 228 NKANGVHhapVDPERIYEFKSVGNSSTLSHDSSdEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTT 307
Cdd:PTZ00205 370 TAANTEN---CEGATGGQRKAISSERSFTTPRT-KEGLQEMVDTVFNGAYEEMRKSELMCRQISLTIRWASYRYQQYTKS 445
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 308 LRNPIDQKNDILKEAEHLFFKHWNK-NPVRLLGITGTDLVE------KEQAYKQLDLFSF 360
Cdd:PTZ00205 446 LIQYSDDSATLRRAVDGLLLPHAAKySEMCLLGVRFLDLISakdfhmKRKGGNQLSISQF 505
|
|
| umuC |
PRK03609 |
translesion error-prone DNA polymerase V subunit UmuC; |
10-211 |
1.00e-28 |
|
translesion error-prone DNA polymerase V subunit UmuC;
Pssm-ID: 179607 [Multi-domain] Cd Length: 422 Bit Score: 116.40 E-value: 1.00e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 10 HIDMNSFYASVEMAYDPALRGKPVAVAGNvkeRKGIVVTCSYEARARGVKTTMPVWQAK--RHCPELIVLPPNFDRYRNS 87
Cdd:PRK03609 4 LCDVNSFYASCETVFRPDLRGKPVVVLSN---NDGCVIARSAEAKALGIKMGDPWFKQKdlFRRCGVVCFSSNYELYADM 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 88 SRAMFTILREYTDLVEPVSIDEGYMDMTDTPYSSRALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPL---- 163
Cdd:PRK03609 81 SNRVMSTLEELSPRVEIYSIDEAFCDLTGVRNCRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKWqrqt 160
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|.
gi 545117350 164 -GITIL--RKRQVpDILWPLPVGEMHGVGNKTAEKLKGLGIHTIGELAAAD 211
Cdd:PRK03609 161 gGVVDLsnLERQR-KLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADTN 210
|
|
| IMS_C |
pfam11799 |
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss). |
247-349 |
3.10e-27 |
|
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
Pssm-ID: 463354 [Multi-domain] Cd Length: 104 Bit Score: 104.18 E-value: 3.10e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 247 KSVGNSSTLSHDSSDEEELLGVFRKLAASVSDRLQRKEVMASKLFIMIRYADWKTITRSTTLRNPIDQKNDILKEAEHLF 326
Cdd:pfam11799 2 KSIGAERTFGRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYSDFRTITRSVTLPSPTDDTDEIYRAALRLL 81
|
90 100
....*....|....*....|...
gi 545117350 327 FKHWNKNPVRLLGITGTDLVEKE 349
Cdd:pfam11799 82 RRLYRGRPVRLLGVSLSNLVPEG 104
|
|
| PolY_like |
cd03468 |
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ... |
26-242 |
2.15e-19 |
|
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention.
Pssm-ID: 176458 [Multi-domain] Cd Length: 335 Bit Score: 88.59 E-value: 2.15e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 26 PALRGKPVAVAgnVKERKGIVVTCSYEARARGVKTTMPVWQAKRHCPELIVLPpnfdRYRNSSRAMFTILRE----YTDL 101
Cdd:cd03468 18 PADDEAPLAVV--ERKKAGRILACNAAARAAGVRPGMPLAEALALCPNLQVVE----YDPEADARALQELALwllrFTPL 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545117350 102 VEPVSIDEGYMDMTdtpYSSR---ALETAKEIQSRLQKELLLPSSIGIAPNKFLAKMASDMKKPLGI---TILRKRQVpd 175
Cdd:cd03468 92 VALDGPDGLLLDVT---GCLHlfgGEDALAASLRAALATLGLSARAGIADTPGAAWLLARAGGGRGVlrrEALAAALV-- 166
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 545117350 176 ILWPLPVGEMhGVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGINGPRLKNKANGVHHAPVDPER 242
Cdd:cd03468 167 LLAPLPVAAL-RLPPETVELLARLGLRTLGDLAALPRAELARRFGLALLLRLDQAYGRDPEPLLFSP 232
|
|
| IMS_HHH |
pfam11798 |
IMS family HHH motif; These proteins are involved in UV protection, eg. |
173-201 |
6.36e-08 |
|
IMS family HHH motif; These proteins are involved in UV protection, eg.
Pssm-ID: 432081 [Multi-domain] Cd Length: 32 Bit Score: 48.16 E-value: 6.36e-08
10 20
....*....|....*....|....*....
gi 545117350 173 VPDILWPLPVGEMHGVGNKTAEKLKGLGI 201
Cdd:pfam11798 4 VPEFLWPLPISKIPGIGKKLAEKLKALGI 32
|
|
| TIGR03491 |
TIGR03491 |
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ... |
187-215 |
6.97e-04 |
|
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.
Pssm-ID: 274603 [Multi-domain] Cd Length: 457 Bit Score: 41.54 E-value: 6.97e-04
10 20
....*....|....*....|....*....
gi 545117350 187 GVGNKTAEKLKGLGIHTIGELAAADEHSL 215
Cdd:TIGR03491 214 GIGPSRYRLLQELGIHTLEDLAAADPNDL 242
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
187-221 |
6.99e-04 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 37.47 E-value: 6.99e-04
10 20 30
....*....|....*....|....*....|....*
gi 545117350 187 GVGNKTAEKLKGLGIHTIGELAAADEHSLKRLLGI 221
Cdd:pfam14520 9 GIGPKTALALLSAGIGTVEDLAEADVDELAEIPGI 43
|
|
| PRK10917 |
PRK10917 |
ATP-dependent DNA helicase RecG; Provisional |
174-208 |
2.21e-03 |
|
ATP-dependent DNA helicase RecG; Provisional
Pssm-ID: 236794 [Multi-domain] Cd Length: 681 Bit Score: 40.13 E-value: 2.21e-03
10 20 30
....*....|....*....|....*....|....*..
gi 545117350 174 PDILWPL--PVGEMHGVGNKTAEKLKGLGIHTIGELA 208
Cdd:PRK10917 1 PSLLLLLdaPLTSLKGVGPKTAEKLAKLGIHTVQDLL 37
|
|
| RecG |
COG1200 |
RecG-like helicase [Replication, recombination and repair]; |
181-207 |
3.56e-03 |
|
RecG-like helicase [Replication, recombination and repair];
Pssm-ID: 440813 [Multi-domain] Cd Length: 684 Bit Score: 39.65 E-value: 3.56e-03
10 20
....*....|....*....|....*..
gi 545117350 181 PVGEMHGVGNKTAEKLKGLGIHTIGEL 207
Cdd:COG1200 7 PLTYLKGVGPKRAKLLAKLGIRTVGDL 33
|
|
| |
