|
Name |
Accession |
Description |
Interval |
E-value |
| PolY_Pol_V_umuC |
cd01700 |
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ... |
6-352 |
3.13e-175 |
|
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: 492.83 E-value: 3.13e-175
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 6 ALIDVNNFYVSCERVFNPKLAGKPVVVLSNNDGCAVARSNEAKALGVPMGAPWFKCKPLVQQHQIIALSSNYALYADMSN 85
Cdd:cd01700 1 ALVDCNSFYASCERVFRPLLLGRPLVVLSNNDGCVIARSPEAKALGIKMGSPYFKVPDLLERHGVAVFSSNYALYGDMSR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 86 RVMRILNQFSPDQEVYSIDECFLDLSGFQHL-DLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKKLPEYDGV 164
Cdd:cd01700 81 RIMSILERFSPDVEVYSIDESFLDLTGSLRFgDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLAKKKNPYGGV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 165 CDFnqLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYSVLMEKTVRELNGISCLELEYSI 244
Cdd:cd01700 161 VDL--TDEEVRDKLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGVVGERLVRELNGIDCLPLEEYP 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 245 SDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYREGDAYYGNSMMVALPmaSDDTRV 324
Cdd:cd01700 239 PPKKSIGSSRSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGTSGFSRQPKYYSATNTLPYP--TNDTRE 316
|
330 340
....*....|....*....|....*...
gi 2535551029 325 LVKHALTALKQMYRHGFNYAKAGIMLTE 352
Cdd:cd01700 317 IVKAALRLLYAIYRPGYAYRKAGVMLSD 344
|
|
| umuC |
PRK03609 |
translesion error-prone DNA polymerase V subunit UmuC; |
6-424 |
6.68e-164 |
|
translesion error-prone DNA polymerase V subunit UmuC;
Pssm-ID: 179607 [Multi-domain] Cd Length: 422 Bit Score: 467.32 E-value: 6.68e-164
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 6 ALIDVNNFYVSCERVFNPKLAGKPVVVLSNNDGCAVARSNEAKALGVPMGAPWFKCKPLVQQHQIIALSSNYALYADMSN 85
Cdd:PRK03609 3 ALCDVNSFYASCETVFRPDLRGKPVVVLSNNDGCVIARSAEAKALGIKMGDPWFKQKDLFRRCGVVCFSSNYELYADMSN 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 86 RVMRILNQFSPDQEVYSIDECFLDLSGFQH-LDLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKK-LPEYDG 163
Cdd:PRK03609 83 RVMSTLEELSPRVEIYSIDEAFCDLTGVRNcRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKwQRQTGG 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 164 VCDFNqlSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYSVLMEKTVRELNGISCLELEYS 243
Cdd:PRK03609 163 VVDLS--NLERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADTNIRFIRKHFNVVLERTVRELRGEPCLSLEEF 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 244 ISDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYREGDAYYGNSMMVALPMASDDTR 323
Cdd:PRK03609 241 APTKQEIVCSRSFGERITDYESMRQAICSYAARAAEKLRGEHQYCRFISTFVKTSPFALNEPYYGNSASVKLLTPTQDSR 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 324 VLVKHALTALKQMYRHGFNYAKAGIMLTELQPKSGQQQDLFALNQD-PKSGKLMTVMDNINACMGKDALQLANQGFKRPW 402
Cdd:PRK03609 321 DIIAAATRALDAIWRDGHRYQKAGVMLGDFFSQGVAQLNLFDDNAPrPGSEQLMKVLDTLNAKSGKGTLYFAGQGIAQQW 400
|
410 420
....*....|....*....|..
gi 2535551029 403 KMKQERKSPGYTTRWQDLLSVR 424
Cdd:PRK03609 401 QMKREMLSPRYTTRWSDLLRVK 422
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
3-351 |
7.85e-133 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 384.88 E-value: 7.85e-133
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 3 RSIALIDVNNFYVSCERVFNPKLAGKPVVVLS-NNDGCAVARSNEAKALGVPMGAPWFKCKPLVQQhqIIALSSNYALYA 81
Cdd:COG0389 1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGdNNRGVVAAASYEARAFGVRSGMPLFQARRLCPD--LVVLPPDFELYR 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 82 DMSNRVMRILNQFSPDQEVYSIDECFLDLSGFQHL--DLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKKlp 159
Cdd:COG0389 79 DVSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLfgSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKP-- 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 160 eyDGVCDfnqLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYSVLMEKTVRELNGISCLE 239
Cdd:COG0389 157 --DGLTV---IPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRP 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 240 LEySISDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYREgdayygNSMMVALPMAS 319
Cdd:COG0389 232 VE-PRRPRKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRT------TTRSRTLPEPT 304
|
330 340 350
....*....|....*....|....*....|..
gi 2535551029 320 DDTRVLVKHALTALKQMYRHGFNYAKAGIMLT 351
Cdd:COG0389 305 DDTAELLRAARELLERIYRPGRPVRLLGVRLS 336
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
8-151 |
8.84e-48 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 160.43 E-value: 8.84e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 8 IDVNNFYVSCERVFNPKLAGKPVVVLSNN-DGCAVARSNEAKALGVPMGAPWFKCKPLVqqHQIIALSSNYALYADMSNR 86
Cdd:pfam00817 1 IDMDAFFASVELLRDPELKGKPVAVGGGNgRGIVAAASYEARKYGVRSGMPVFEAKKLC--PNLIVVPPDLELYRRASRK 78
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2535551029 87 VMRILNQFSPDQ-EVYSIDECFLDLSGFQHL--DLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLA 151
Cdd:pfam00817 79 IFEILRRFSTPKvEQASIDEAFLDLTGLEKLfgAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLA 146
|
|
| DUF4113 |
pfam13438 |
Domain of unknown function (DUF4113); Although the function is not known this domain occurs ... |
375-423 |
6.37e-21 |
|
Domain of unknown function (DUF4113); Although the function is not known this domain occurs almost invariably at the very C-terminus of the IMS family DNA-polymerase repair proteins, IMS, pfam00817.
Pssm-ID: 463876 [Multi-domain] Cd Length: 49 Bit Score: 85.23 E-value: 6.37e-21
10 20 30 40
....*....|....*....|....*....|....*....|....*....
gi 2535551029 375 LMTVMDNINACMGKDALQLANQGFKRPWKMKQERKSPGYTTRWQDLLSV 423
Cdd:pfam13438 1 LMAALDAINRRYGRGTVRLAAQGLKRDWKMRREHLSPRYTTRWDELPVV 49
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PolY_Pol_V_umuC |
cd01700 |
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ... |
6-352 |
3.13e-175 |
|
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: 492.83 E-value: 3.13e-175
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 6 ALIDVNNFYVSCERVFNPKLAGKPVVVLSNNDGCAVARSNEAKALGVPMGAPWFKCKPLVQQHQIIALSSNYALYADMSN 85
Cdd:cd01700 1 ALVDCNSFYASCERVFRPLLLGRPLVVLSNNDGCVIARSPEAKALGIKMGSPYFKVPDLLERHGVAVFSSNYALYGDMSR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 86 RVMRILNQFSPDQEVYSIDECFLDLSGFQHL-DLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKKLPEYDGV 164
Cdd:cd01700 81 RIMSILERFSPDVEVYSIDESFLDLTGSLRFgDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLAKKKNPYGGV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 165 CDFnqLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYSVLMEKTVRELNGISCLELEYSI 244
Cdd:cd01700 161 VDL--TDEEVRDKLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGVVGERLVRELNGIDCLPLEEYP 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 245 SDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYREGDAYYGNSMMVALPmaSDDTRV 324
Cdd:cd01700 239 PPKKSIGSSRSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGTSGFSRQPKYYSATNTLPYP--TNDTRE 316
|
330 340
....*....|....*....|....*...
gi 2535551029 325 LVKHALTALKQMYRHGFNYAKAGIMLTE 352
Cdd:cd01700 317 IVKAALRLLYAIYRPGYAYRKAGVMLSD 344
|
|
| umuC |
PRK03609 |
translesion error-prone DNA polymerase V subunit UmuC; |
6-424 |
6.68e-164 |
|
translesion error-prone DNA polymerase V subunit UmuC;
Pssm-ID: 179607 [Multi-domain] Cd Length: 422 Bit Score: 467.32 E-value: 6.68e-164
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 6 ALIDVNNFYVSCERVFNPKLAGKPVVVLSNNDGCAVARSNEAKALGVPMGAPWFKCKPLVQQHQIIALSSNYALYADMSN 85
Cdd:PRK03609 3 ALCDVNSFYASCETVFRPDLRGKPVVVLSNNDGCVIARSAEAKALGIKMGDPWFKQKDLFRRCGVVCFSSNYELYADMSN 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 86 RVMRILNQFSPDQEVYSIDECFLDLSGFQH-LDLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKK-LPEYDG 163
Cdd:PRK03609 83 RVMSTLEELSPRVEIYSIDEAFCDLTGVRNcRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKwQRQTGG 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 164 VCDFNqlSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYSVLMEKTVRELNGISCLELEYS 243
Cdd:PRK03609 163 VVDLS--NLERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADTNIRFIRKHFNVVLERTVRELRGEPCLSLEEF 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 244 ISDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYREGDAYYGNSMMVALPMASDDTR 323
Cdd:PRK03609 241 APTKQEIVCSRSFGERITDYESMRQAICSYAARAAEKLRGEHQYCRFISTFVKTSPFALNEPYYGNSASVKLLTPTQDSR 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 324 VLVKHALTALKQMYRHGFNYAKAGIMLTELQPKSGQQQDLFALNQD-PKSGKLMTVMDNINACMGKDALQLANQGFKRPW 402
Cdd:PRK03609 321 DIIAAATRALDAIWRDGHRYQKAGVMLGDFFSQGVAQLNLFDDNAPrPGSEQLMKVLDTLNAKSGKGTLYFAGQGIAQQW 400
|
410 420
....*....|....*....|..
gi 2535551029 403 KMKQERKSPGYTTRWQDLLSVR 424
Cdd:PRK03609 401 QMKREMLSPRYTTRWSDLLRVK 422
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
3-351 |
7.85e-133 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 384.88 E-value: 7.85e-133
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 3 RSIALIDVNNFYVSCERVFNPKLAGKPVVVLS-NNDGCAVARSNEAKALGVPMGAPWFKCKPLVQQhqIIALSSNYALYA 81
Cdd:COG0389 1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGdNNRGVVAAASYEARAFGVRSGMPLFQARRLCPD--LVVLPPDFELYR 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 82 DMSNRVMRILNQFSPDQEVYSIDECFLDLSGFQHL--DLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKKlp 159
Cdd:COG0389 79 DVSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLfgSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKP-- 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 160 eyDGVCDfnqLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYSVLMEKTVRELNGISCLE 239
Cdd:COG0389 157 --DGLTV---IPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRP 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 240 LEySISDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYREgdayygNSMMVALPMAS 319
Cdd:COG0389 232 VE-PRRPRKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRT------TTRSRTLPEPT 304
|
330 340 350
....*....|....*....|....*....|..
gi 2535551029 320 DDTRVLVKHALTALKQMYRHGFNYAKAGIMLT 351
Cdd:COG0389 305 DDTAELLRAARELLERIYRPGRPVRLLGVRLS 336
|
|
| PolY |
cd00424 |
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ... |
8-297 |
4.98e-56 |
|
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: 188.34 E-value: 4.98e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 8 IDVNNFYVSCERVFNPKLAGKPVVVLSNND--GCAVARSNEAKALGVPMGAPWFKCKPLVQQHQIIAlsSNYALYADMSN 85
Cdd:cd00424 3 IDFDNFFASVEQLARPELKGRPVVVVPFNSdsTCVIACSYEARKYGVKRGMPVREARKMCPNLILVP--ARLDLYRRLSE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 86 RVMRILNQFSPDQEVYSIDECFLDLSGFQHL--DLLQYGQQIRHRVGQWTG-LPVSVGIGASKTLAKLANHCAKKlpeyD 162
Cdd:cd00424 81 RLLSELEEVAPLVEVASIDELFLDLTGSARLlgLGSEVALRIKRHIAEQLGgITASIGIASNKLLAKLAAKYAKP----D 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 163 GVCDfnqLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANA-ETLRRQYSVLMEKTVRELNGISCLELe 241
Cdd:cd00424 157 GLTI---LDPEDLPGFLSKLPLTDLPGIGAVTAKRLEAVGINPIGDLLAASPdALLALWGGVSGERLWYALRGIDDEPL- 232
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....*..
gi 2535551029 242 ySISDKKQILS-SRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRT 297
Cdd:cd00424 233 -SPPRPRKSFShERVLPRDSRNAEDARPLLRLLLEKLARRLRRDGRGATRLRLWLRT 288
|
|
| PolY_Pol_IV_kappa |
cd03586 |
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ... |
8-339 |
2.27e-55 |
|
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: 186.19 E-value: 2.27e-55
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 8 IDVNNFYVSCERVFNPKLAGKPVVVLSNNDGCAVARSN-EAKALGVPMGAPWFKCK---PlvqqhQIIALSSNYALYADM 83
Cdd:cd03586 3 IDMDAFYASVEQRDNPELKGKPVAVGGSSDRGVVSTASyEARKFGVRSAMPIFQAKklcP-----NLIFVPPRFDKYREV 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 84 SNRVMRILNQFSPDQEVYSIDECFLDLSGFQHL--DLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKklPey 161
Cdd:cd03586 78 SRQIMEILREYTPLVEPLSIDEAYLDVTDYVRLfgSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNK--P-- 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 162 DGVCdfnQLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYsvlmEKTVREL----NGISC 237
Cdd:cd03586 154 NGLT---VIPPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLF----GKSGRRLyelaRGIDN 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 238 LELEYSiSDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYRegdayyGNSMMVALPM 317
Cdd:cd03586 227 RPVEPD-RERKSIGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFS------TRTRSRTLPE 299
|
330 340
....*....|....*....|..
gi 2535551029 318 ASDDTRVLVKHALTALKQMYRH 339
Cdd:cd03586 300 PTDDAEDIYELALELLEELLDG 321
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
8-151 |
8.84e-48 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 160.43 E-value: 8.84e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 8 IDVNNFYVSCERVFNPKLAGKPVVVLSNN-DGCAVARSNEAKALGVPMGAPWFKCKPLVqqHQIIALSSNYALYADMSNR 86
Cdd:pfam00817 1 IDMDAFFASVELLRDPELKGKPVAVGGGNgRGIVAAASYEARKYGVRSGMPVFEAKKLC--PNLIVVPPDLELYRRASRK 78
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2535551029 87 VMRILNQFSPDQ-EVYSIDECFLDLSGFQHL--DLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLA 151
Cdd:pfam00817 79 IFEILRRFSTPKvEQASIDEAFLDLTGLEKLfgAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLA 146
|
|
| PRK01810 |
PRK01810 |
DNA polymerase IV; Validated |
1-411 |
1.52e-46 |
|
DNA polymerase IV; Validated
Pssm-ID: 179337 [Multi-domain] Cd Length: 407 Bit Score: 165.20 E-value: 1.52e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 1 MSRSIALIDVNNFYVSCERVFNPKLAGKPVVVLSN---NDGCAVARSNEAKALGVPMGAPWFKCKPLVQqhQIIALSSNY 77
Cdd:PRK01810 3 KGRVIFHVDMNSFFASVEIAYDPSLQGKPLAVAGNekeRKGIIVTCSYEARAYGIRTTMPLWEAKRLCP--QLIVRRPNF 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 78 ALYADMSNRVMRILNQFSPDQEVYSIDECFLDLSGFQHL-DLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAK 156
Cdd:PRK01810 81 DRYREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYALgSPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKK 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 157 KLpeydGVcdfNQLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYSVLMEKTVRELNGIS 236
Cdd:PRK01810 161 PL----GI---TVLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGINGVRLQRRANGID 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 237 CLELE-YSISDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYREgdayYGNSMMVAL 315
Cdd:PRK01810 234 DRPVDpEAIYQFKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYHDRRT----ITRSKTLKN 309
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 316 PMasDDTRVLVKHALTALKQMYrHGFNYAKAGIMLTELQPK--SGQQQDLFALNQDPKSGKLMTVMDNINACMGKDALQL 393
Cdd:PRK01810 310 PI--WEKRDIFQAASRLFKQHW-NGDPVRLLGVTATDLEWKteAVKQLDLFSFEEDAKEEPLLAVIDQINDKYGMPLLQR 386
|
410
....*....|....*...
gi 2535551029 394 ANQGFKRPWKMKQERKSP 411
Cdd:PRK01810 387 GSQLLRKQEKTFGTSFEK 404
|
|
| PRK03103 |
PRK03103 |
DNA polymerase IV; Reviewed |
1-394 |
4.38e-42 |
|
DNA polymerase IV; Reviewed
Pssm-ID: 235104 [Multi-domain] Cd Length: 409 Bit Score: 153.23 E-value: 4.38e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 1 MSRSIALIDVNNFYVSCERVFNPKLAGKPVVVL---SNNDGCAVARSNEAKALGVPMGAPWF----KCKPLVqqhqiiAL 73
Cdd:PRK03103 1 MERVILLVDMQSFYASVEKAANPELKGRPVIVSgdpERRSGVVLAACPLAKAYGVKTAERLWeaqqKCPDLV------VV 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 74 SSNYALYADMSNRVMRILNQFSPDQEVYSIDECFLDLSGFQHL--DLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLA 151
Cdd:PRK03103 75 KPRMQRYIDVSLQITRILEDFTDLVEPFSIDEQFLDVTGSQKLfgSPLEIAQKIQQRIMRETGVYARVGIGPNKLLAKMA 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 152 -NHCAKKLPeyDGVcdfNQLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYSVLMEKTVR 230
Cdd:PRK03103 155 cDNFAKKNP--DGL---FTLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGINGEVLWR 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 231 ELNGIsclelEYSISDKKQILSSRSFG--------------IPVTdMNSLAESIslytsraAVKLRRQYSVARMIQVYIR 296
Cdd:PRK03103 230 TANGI-----DYSPVTPHSLDRQKAIGhqmtlprdyrgfeeIKVV-LLELCEEV-------CRRARAKGYMGRTVSVSLR 296
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 297 TSPYREGDayyGNSMMVALPMASDDTRVLVKhalTALKQMYRH--GFNYAKAGIMLTELQPKSGQQQDLFAlNQDPKSgK 374
Cdd:PRK03103 297 GADFDWPT---GFSRQMTLPEPTNLAMEVYE---AACKLFHRHwdGKPVRRVGVTLSNLVSDDVWQLSLFG-DRERKR-S 368
|
410 420
....*....|....*....|
gi 2535551029 375 LMTVMDNINACMGKDALQLA 394
Cdd:PRK03103 369 LGYVMDDIKNRFGPTAILRA 388
|
|
| PRK03858 |
PRK03858 |
DNA polymerase IV; Validated |
4-219 |
6.57e-33 |
|
DNA polymerase IV; Validated
Pssm-ID: 179663 [Multi-domain] Cd Length: 396 Bit Score: 127.80 E-value: 6.57e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 4 SIALIDVNNFYVSCERVFNPKLAGKPVVVlsnNDGCAVARSNEAKALGVPMGAPWFKCKPLVQQhqIIALSSNYALYADM 83
Cdd:PRK03858 5 SILHADLDSFYASVEQRDDPALRGRPVIV---GGGVVLAASYEAKAYGVRTAMGGRQARRLCPQ--AVVVPPRMSAYSRA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 84 SNRVMRILNQFSPDQEVYSIDECFLDLSGFQHLD--LLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKklPey 161
Cdd:PRK03858 80 SKAVFEVFRDTTPLVEGLSIDEAFLDVGGLRRISgtPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAK--P-- 155
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 2535551029 162 DGVCdfnQLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRR 219
Cdd:PRK03858 156 DGLL---VVPPDRELAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVS 210
|
|
| PRK03348 |
PRK03348 |
DNA polymerase IV; Provisional |
1-329 |
6.79e-33 |
|
DNA polymerase IV; Provisional
Pssm-ID: 235118 [Multi-domain] Cd Length: 454 Bit Score: 128.90 E-value: 6.79e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 1 MSRSIALIDVNNFYVSCERVFNPKLAGKPVVV--LSNNDGCAVArSNEAKALGVPMGAPWFKCKPLVQqHQIIALSSNYA 78
Cdd:PRK03348 3 AQRWVLHLDMDAFFASVEQLTRPTLRGRPVLVggLGGRGVVAGA-SYEARVFGARSAMPMHQARRLVG-NGAVVLPPRFV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 79 LYADMSNRVMRILNQFSPDQEVYSIDECFLDLSGFQHLD---LLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCA 155
Cdd:PRK03348 81 VYRAASRRVFDTLRELSPVVEQLSFDEAFVEPAELAGASaeeVEAFAERLRARVREETGLPASVGAGSGKQIAKIASGLA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 156 KklPeyDGVcdfnQLSPKQLNH-LLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRqysvLMEKTVrelnG 234
Cdd:PRK03348 161 K--P--DGI----RVVPPGEEReLLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVAN----LLGATV----G 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 235 ISCLELEYSISDK--------KQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYREgday 306
Cdd:PRK03348 225 PALHRLARGIDDRpvaeraeaKQISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKSDFST---- 300
|
330 340
....*....|....*....|...
gi 2535551029 307 ygNSMMVALPMASDDTRVLVKHA 329
Cdd:PRK03348 301 --LTRSATLPYATDDAAVLAATA 321
|
|
| PRK01216 |
PRK01216 |
DNA polymerase IV; Validated |
5-218 |
2.35e-30 |
|
DNA polymerase IV; Validated
Pssm-ID: 179251 [Multi-domain] Cd Length: 351 Bit Score: 119.89 E-value: 2.35e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 5 IALIDVNNFYVSCERVFNPKLAGKPVVVL----SNNDGCAVARSN-EAKALGVPMGAPWFKCKPLVQQhqIIALSSNYAL 79
Cdd:PRK01216 3 ILFVDFDYFFAQVEEVLNPSLKGKPVVVCvysgRFEDSGAVATANyEARKLGIKAGMPIVEAKKILPN--AVYLPMRKEV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 80 YADMSNRVMRILNQFSPDQEVYSIDECFLDLS----GFQhlDLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCA 155
Cdd:PRK01216 81 YQQVSNRIMKLLREYSEKIEIASIDEAYLDISdkvkNYQ--DAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMA 158
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2535551029 156 KklPEYDGVcdfnqLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLR 218
Cdd:PRK01216 159 K--PNGIKV-----IDDEEVKRFINELDIADIPGIGDITAEKLKKLGVNKLVDTLRIEFDELK 214
|
|
| PRK14133 |
PRK14133 |
DNA polymerase IV; Provisional |
1-298 |
8.36e-28 |
|
DNA polymerase IV; Provisional
Pssm-ID: 184529 [Multi-domain] Cd Length: 347 Bit Score: 112.89 E-value: 8.36e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 1 MSRSIALIDVNNFYVSCERVFNPKLAGKPVVV--LSNNdGCAVARSNEAKALGVPMGAPWFKCKPLVQQHqiIALSSNYA 78
Cdd:PRK14133 1 MDRVIIHVDMDAFFASVEQMDNPKLKGKPVIVggISER-GVVSTCSYEARKYGVHSAMPVFMAKKRCPHG--IFLPVRHE 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 79 LYADMSNRVMRILNQFSPDQEVYSIDECFLDLSGFQHlDLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKKl 158
Cdd:PRK14133 78 RYKEVSKNIFKILYEVTPIVEPVSIDEAYLDITNIKE-EPIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKP- 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 159 peyDGvcdFNQLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRqysvLMEKTVRE----LNG 234
Cdd:PRK14133 156 ---DG---IKIITEDMIPDILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIE----YFGKFGVEiyerIRG 225
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2535551029 235 ISCLELEySISDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTS 298
Cdd:PRK14133 226 IDYREVE-VSRERKSIGKETTLKKDTKDKEELKKYLKDFSNIISEELKKRNLYGKTVTVKIKTS 288
|
|
| PRK03352 |
PRK03352 |
DNA polymerase IV; Validated |
1-333 |
7.55e-27 |
|
DNA polymerase IV; Validated
Pssm-ID: 179564 [Multi-domain] Cd Length: 346 Bit Score: 110.11 E-value: 7.55e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 1 MSRSIALIDVNNFYVSCERVFNPKLAGKPVVVLSNND--------GCAvarSNEAKALGV----PMGAPWFKCKPLVqqh 68
Cdd:PRK03352 3 MPRWVLHVDLDQFIAAVELLRRPELAGLPVIVGGNGDpteprkvvTCA---SYEARAFGVragmPLRTAARRCPDAV--- 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 69 qiiALSSNYALYADMSNRVMRILNQFSPDQEVYSIDECFLdlsGFQHLDLLQYGQQIRHRVGQWTGLPVSVGIGASKTLA 148
Cdd:PRK03352 77 ---FLPSDPAAYDAASEEVMATLRDLGVPVEVWGWDEAFL---GVDTDDPEALAEEIRAAVLERTGLSCSVGIGDNKLRA 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 149 KLANHCAKKlpeyDGVcdfNQLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYSVLMEKT 228
Cdd:PRK03352 151 KIATGFAKP----AGV---FRLTDANWMAVMGDRPTDALWGVGPKTAKRLAALGITTVADLAAADPAELAATFGPTTGPW 223
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 229 VREL-NGISCLEleysISDKKQILSSRS----FGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPyreg 303
Cdd:PRK03352 224 LLLLaRGGGDTE----VSAEPWVPRSRSrevtFPQDLTDRAEVESAVRELARRVLDEVVAEGRPVTRVAVKVRTAT---- 295
|
330 340 350
....*....|....*....|....*....|
gi 2535551029 304 daYYGNSMMVALPMASDDTRVLVKHALTAL 333
Cdd:PRK03352 296 --FYTRTKIRKLPEPTTDPDVIEAAALDVL 323
|
|
| PRK02794 |
PRK02794 |
DNA polymerase IV; Provisional |
4-221 |
3.57e-22 |
|
DNA polymerase IV; Provisional
Pssm-ID: 179473 [Multi-domain] Cd Length: 419 Bit Score: 97.70 E-value: 3.57e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 4 SIALIDVNNFYVSCERVFNPKLAGKPVVVLSNNDG-----CAVARSNeakalGVPMGAPWFKCKPLVQQHQIIAlsSNYA 78
Cdd:PRK02794 37 SIAHIDCDAFYASVEKRDNPELRDKPVIIGGGKRGvvstaCYIARIH-----GVRSAMPMFKALKLCPDAVVIK--PDME 109
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 79 LYADMSNRVMRILNQFSPDQEVYSIDECFLDLSGFQHLD-------LLQYGQQIRHRVGqwtgLPVSVGIGASKTLAKLA 151
Cdd:PRK02794 110 KYVRVGREVRAMMQALTPLVEPLSIDEAFLDLSGTERLHgappavvLARFARRVEREIG----ITVSVGLSYNKFLAKIA 185
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 152 NHCAKklPEydgvcDFNQLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQY 221
Cdd:PRK02794 186 SDLDK--PR-----GFSVIGRAEALAFLAPKPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRF 248
|
|
| IMS_C |
pfam11799 |
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss). |
247-357 |
9.52e-22 |
|
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: 89.16 E-value: 9.52e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 247 KKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYRegdayyGNSMMVALPMASDDTRVLV 326
Cdd:pfam11799 1 RKSIGAERTFGRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYSDFR------TITRSVTLPSPTDDTDEIY 74
|
90 100 110
....*....|....*....|....*....|.
gi 2535551029 327 KHALTALKQMYRhGFNYAKAGIMLTELQPKS 357
Cdd:pfam11799 75 RAALRLLRRLYR-GRPVRLLGVSLSNLVPEG 104
|
|
| PRK02406 |
PRK02406 |
DNA polymerase IV; Validated |
13-220 |
6.32e-21 |
|
DNA polymerase IV; Validated
Pssm-ID: 235035 [Multi-domain] Cd Length: 343 Bit Score: 93.26 E-value: 6.32e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 13 FYVSCERVFNPKLAGKPVVVLSNNDGCAV--ARSNEAKALGV----PMGAPWFKCkPlvqqhQIIALSSNYALYADMSNR 86
Cdd:PRK02406 4 FYAAVEMRDNPELRGKPVAVGGSPGRRGVisTCNYEARKFGVrsamPTAQALKLC-P-----DLIFVPGRFDVYKEVSRQ 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 87 VMRILNQFSPDQEVYSIDECFLDLSgfqhlDLLQYG-------QQIRHRVGQWTGLPVSVGIGASKTLAKLAnhcakklp 159
Cdd:PRK02406 78 IREIFRRYTDLIEPLSLDEAYLDVT-----DNKLCIgsatliaQEIRQDIFEELGLTASAGVAPNKFLAKIA-------- 144
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2535551029 160 eydgvCDFNQ------LSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLRRQ 220
Cdd:PRK02406 145 -----SDWNKpnglfvITPEEVDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRH 206
|
|
| DUF4113 |
pfam13438 |
Domain of unknown function (DUF4113); Although the function is not known this domain occurs ... |
375-423 |
6.37e-21 |
|
Domain of unknown function (DUF4113); Although the function is not known this domain occurs almost invariably at the very C-terminus of the IMS family DNA-polymerase repair proteins, IMS, pfam00817.
Pssm-ID: 463876 [Multi-domain] Cd Length: 49 Bit Score: 85.23 E-value: 6.37e-21
10 20 30 40
....*....|....*....|....*....|....*....|....*....
gi 2535551029 375 LMTVMDNINACMGKDALQLANQGFKRPWKMKQERKSPGYTTRWQDLLSV 423
Cdd:pfam13438 1 LMAALDAINRRYGRGTVRLAAQGLKRDWKMRREHLSPRYTTRWDELPVV 49
|
|
| PolY_Rev1 |
cd01701 |
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ... |
3-295 |
2.16e-20 |
|
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: 92.38 E-value: 2.16e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 3 RSIALIDVNNFYVSCERVFNPKLAGKPVVVLSNNDGCA-VARSN-EAKALGVPMGApWFK-----CKPLVqqhqiiALSS 75
Cdd:cd01701 47 RIIMHVDFDCFFVSVSIRNRPDLKGKPVAVCHGKGPNSeIASCNyEARSYGIKNGM-WVGqakklCPQLV------TLPY 119
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 76 NYALYADMSNRVMRILNQFSPDQEVYSIDECFLDLSGFQH---LDLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLAN 152
Cdd:cd01701 120 DFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEetyELPEELAEAIRNEIRETTGCSASVGIGPNILLARLAT 199
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 153 HCAKklPeyDGVCdfnQLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGIlSVLDLKQANAETLRRQYSVLMEKT---- 228
Cdd:cd01701 200 RKAK--P--DGQY---HLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFG-DTCGGLELRSKTKEKLQKVLGPKTgekl 271
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 229 VRELNGISCLELEYSiSDKKQILSSRSFGI---PVTDMNSLAESISLYTSRaavKLRRQYSVARMIQVYI 295
Cdd:cd01701 272 YDYCRGIDDRPVTGE-KERKSVSAEINYGIrftNVDDVEQFLQRLSEELSK---RLEESNVTGRQITLKL 337
|
|
| PolY_Pol_eta |
cd01702 |
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ... |
6-261 |
2.85e-16 |
|
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: 79.66 E-value: 2.85e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 6 ALIDVNNFYVSCERVFNPKLAGKPVVVLSNNDGCAVarSNEAKALGV-----------------PMGAPWFKC------- 61
Cdd:cd01702 1 AHIDMDAFFAQVEQVRLGLLRNDPVAVVQWNSIIAV--SYAARAFGVtrfmtideakkkcpdliLAHVATYKKgedeady 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 62 --KPLVQQHQIiALSsnyaLYADMSNRVMRILNQFSPDQEVYSIDECFLDLSGfqhldllQYGQQIRHRVGQWTGLPVSV 139
Cdd:cd01702 79 heNPSPARHKV-SLD----PYRRASRKILNILKRFGDVVEKASIDEAYLDLGS-------RIVEEIRQQVYDELGYTCSA 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 140 GIGASKTLAKLAnhCAKKLPeydgvcdfNQ---LSPKQLNHLLADLDVGEVWGVGRKL------AVKLKTQG-----ILS 205
Cdd:cd01702 147 GIAHNKMLAKLA--SGMNKP--------NAqtiLRNDAVASFLSSLPITSIRGLGGKLgeeiidLLGLPTEGdvagfRSS 216
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....*.
gi 2535551029 206 VLDLKQANAETLRrqysvlmEKTVRELNGISCLELEySISDKKQILSSRSFGIPVT 261
Cdd:cd01702 217 ESDLQEHFGEKLG-------EWLYNLLRGIDHEPVK-PRPLPKSMGSSKNFPGKTA 264
|
|
| PolY_Pol_iota |
cd01703 |
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ... |
9-283 |
6.68e-15 |
|
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: 75.58 E-value: 6.68e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 9 DVNNFYVSCERVFNPKLAGKPVVVLSNNdgcAVARSN-EAKALGVP----MGAPWFKCKPLVqqhqiIALSSNYALYADM 83
Cdd:cd01703 4 DLDCFYAQVEEIRDPSLKSKPLGIQQKY---IVVTCNyEARRLGVKklmsIKDAKEICPDLV-----LVNGEDLTPFRDM 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 84 SNRVMRILNQFSPDQEV--YSIDECFLDLSGFQHLDLLQYGQQIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKklPEy 161
Cdd:cd01703 76 SKKVYRLLRSYSWNDRVerLGFDENFMDVTEMRLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNK--PN- 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 162 dgvcdfNQ-----LSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLkQANAETLRRQYSV--------LMEKT 228
Cdd:cd01703 153 ------QQttllpPSCADLMDFMDLHDLRKIPGIGYKTAAKLEAHGISSVRDL-QEFSNRNRQTVGAapsllellLMVKE 225
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....*
gi 2535551029 229 VRELNGISCLELEYSIsDKKQILSSRSFGIPVTDMNSLAESISLYTSRAAVKLRR 283
Cdd:cd01703 226 FGEGIGQRIWKLLFGR-DTSPVKPASDFPQQISIEDSYKKCSLEEIREARNKIEE 279
|
|
| PTZ00205 |
PTZ00205 |
DNA polymerase kappa; Provisional |
8-353 |
1.69e-13 |
|
DNA polymerase kappa; Provisional
Pssm-ID: 140232 [Multi-domain] Cd Length: 571 Bit Score: 72.36 E-value: 1.69e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 8 IDVNNFYVSCERVFNPKLAGKPVVVLSNNdgcAVARSNE-AKALGVPMGAPWF---KCKPlvqqhQIIALSSNYALYADM 83
Cdd:PTZ00205 138 LDMDMFYAAVEIKKHPEYAAIPLAIGTMT---MLQTANYvARGRGIRQGMPGFlalKICP-----NLLILPPDFDAYNEE 209
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 84 SNRVMRILNQFSPDQEVYSIDECFLDLSGF-QHLDLLQYGQ----QIRHRVGQWTGLPVSVGIGASKTLAKLANHCAKKl 158
Cdd:PTZ00205 210 SNTVRRIVAEYDPNYISFGLDELTLEVSAYiERFEGTKTAEdvasELRVRVFGETKLTASAGIGPTAALAKIASNINKP- 288
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 159 peyDGVCDFNQLSPKQLNHLLADLDVGEVWGVGRKLAVKLKTQGILSVLDLKQANAETLrrqySVLMEKTVRELNGISCL 238
Cdd:PTZ00205 289 ---NGQHDLNLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKGLGITTLSDIYNRRVELC----YILHNNLFRFLLGASIG 361
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 239 ELEY----------SISD-----KKQILSSRSFGIPVTDmNSLAESISLYTSRAAVKLRRQYSVARMIQVYIRTSPYREg 303
Cdd:PTZ00205 362 IMQWpdaataanteNCEGatggqRKAISSERSFTTPRTK-EGLQEMVDTVFNGAYEEMRKSELMCRQISLTIRWASYRY- 439
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|...
gi 2535551029 304 dayygNSMMVALPMASDDTRVLvKHALTALkqMYRHGFNYAKA---GIMLTEL 353
Cdd:PTZ00205 440 -----QQYTKSLIQYSDDSATL-RRAVDGL--LLPHAAKYSEMcllGVRFLDL 484
|
|
| IMS_HHH |
pfam11798 |
IMS family HHH motif; These proteins are involved in UV protection, eg. |
175-203 |
1.76e-04 |
|
IMS family HHH motif; These proteins are involved in UV protection, eg.
Pssm-ID: 432081 [Multi-domain] Cd Length: 32 Bit Score: 38.53 E-value: 1.76e-04
10 20
....*....|....*....|....*....
gi 2535551029 175 LNHLLADLDVGEVWGVGRKLAVKLKTQGI 203
Cdd:pfam11798 4 VPEFLWPLPISKIPGIGKKLAEKLKALGI 32
|
|
| PolY_like |
cd03468 |
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ... |
23-222 |
1.94e-04 |
|
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: 43.14 E-value: 1.94e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 23 PKLAGKPVVVLS-NNDGCAVARSNEAKALGVPMGAPwfkckplvqQHQIIALSSNYALY-------ADMSNRVMRILNQF 94
Cdd:cd03468 18 PADDEAPLAVVErKKAGRILACNAAARAAGVRPGMP---------LAEALALCPNLQVVeydpeadARALQELALWLLRF 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2535551029 95 SPDQEVYSIDECFLDLSGFQHLD-----LLQygQQIRHRVGQwtGLPVSVGIGASKTLAKLANHCAKKLPeydgvcDFNQ 169
Cdd:cd03468 89 TPLVALDGPDGLLLDVTGCLHLFggedaLAA--SLRAALATL--GLSARAGIADTPGAAWLLARAGGGRG------VLRR 158
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 2535551029 170 LSPKQLNHLLADLDVGEVwGVGRKLAVKLKTQGILSVLDLKQANAETLRRQYS 222
Cdd:cd03468 159 EALAAALVLLAPLPVAAL-RLPPETVELLARLGLRTLGDLAALPRAELARRFG 210
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
189-219 |
3.97e-03 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 35.54 E-value: 3.97e-03
10 20 30
....*....|....*....|....*....|.
gi 2535551029 189 GVGRKLAVKLKTQGILSVLDLKQANAETLRR 219
Cdd:pfam14520 9 GIGPKTALALLSAGIGTVEDLAEADVDELAE 39
|
|
| |
