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Conserved domains on  [gi|24644984|ref|NP_731214|]
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DNA polymerase iota, isoform B [Drosophila melanogaster]

Protein Classification

DNA polymerase iota( domain architecture ID 10109395)

DNA polymerase iota is an error-prone DNA polymerase specifically involved in DNA repair and plays an important role in translesion synthesis, where the normal high-fidelity DNA polymerases cannot proceed and DNA synthesis stalls

CATH:  3.30.70.270|2.30.40.20|1.10.150.20|3.30.1490.100
Gene Ontology:  GO:0003684|GO:0003887|GO:0046872|GO:0006260|GO:0019985
PubMed:  15680965|24716551|20123134
SCOP:  4000558|4000563

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 18-411 1.89e-170

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: 494.30  E-value: 1.89e-170
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  18 IHLDMDYFYAQVEEIRDPTLRSKALGIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGEDLAPYRQMSQRIF 97
Cdd:cd01703   1 IHLDLDCFYAQVEEIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  98 DLLLNYTP--LVEKLGFDENFMDVTALvelrqahvaeallrppvghtypadgtplsncdcgcaqRLAIGTRIAQEIREEL 175
Cdd:cd01703  81 RLLRSYSWndRVERLGFDENFMDVTEM-------------------------------------RLLVASHIAYEMRERI 123

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 176 KLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFM--RELGDLKRVTGIGQKTQCLLLEAGMSSVEQLQQCD 253
Cdd:cd01703 124 ENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLLPPSCADLMdfMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFS 203

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 254 ---------------MDVMRKKFGFETATRLRDLAFGRDTSLV-RPSGKPKTIGMEDACKPIS------VRTDVEERFRM 311
Cdd:cd01703 204 nrnrqtvgaapslleLLLMVKEFGEGIGQRIWKLLFGRDTSPVkPASDFPQQISIEDSYKKCSleeireARNKIEELLAS 283

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 312 LLKRLVEQV----AEDGRVPIAIKVVLRKFDSQKKSSHRETKQANILPSLFKTSMcpgetgvskvQLADGAQDKLLKIVM 387
Cdd:cd01703 284 LLERMKQDLqevkAGDGRRPHTLRLTLRRYTSTKKHYNRESKQAPIPSHVFQKLT----------GGNEIAARPIEKILM 353

                       410       420
                ....*....|....*....|....*.
gi 24644984 388 RLFERIVDMS--KPFNITLLGLAFSK 411
Cdd:cd01703 354 RLFRELVPPKnvKGFNLTLLNVCFTN 379
 
Name Accession Description Interval E-value
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 18-411 1.89e-170

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: 494.30  E-value: 1.89e-170
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  18 IHLDMDYFYAQVEEIRDPTLRSKALGIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGEDLAPYRQMSQRIF 97
Cdd:cd01703   1 IHLDLDCFYAQVEEIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  98 DLLLNYTP--LVEKLGFDENFMDVTALvelrqahvaeallrppvghtypadgtplsncdcgcaqRLAIGTRIAQEIREEL 175
Cdd:cd01703  81 RLLRSYSWndRVERLGFDENFMDVTEM-------------------------------------RLLVASHIAYEMRERI 123

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 176 KLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFM--RELGDLKRVTGIGQKTQCLLLEAGMSSVEQLQQCD 253
Cdd:cd01703 124 ENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLLPPSCADLMdfMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFS 203

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 254 ---------------MDVMRKKFGFETATRLRDLAFGRDTSLV-RPSGKPKTIGMEDACKPIS------VRTDVEERFRM 311
Cdd:cd01703 204 nrnrqtvgaapslleLLLMVKEFGEGIGQRIWKLLFGRDTSPVkPASDFPQQISIEDSYKKCSleeireARNKIEELLAS 283

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 312 LLKRLVEQV----AEDGRVPIAIKVVLRKFDSQKKSSHRETKQANILPSLFKTSMcpgetgvskvQLADGAQDKLLKIVM 387
Cdd:cd01703 284 LLERMKQDLqevkAGDGRRPHTLRLTLRRYTSTKKHYNRESKQAPIPSHVFQKLT----------GGNEIAARPIEKILM 353

                       410       420
                ....*....|....*....|....*.
gi 24644984 388 RLFERIVDMS--KPFNITLLGLAFSK 411
Cdd:cd01703 354 RLFRELVPPKnvKGFNLTLLNVCFTN 379
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 15-410 2.19e-68

Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 228.10  E-value: 2.19e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  15 RTIIHLDMDYFYAQVEEIRDPTLRSKAL---GIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGeDLAPYRQ 91
Cdd:COG0389   1 RRILHVDMDAFYASVEQRDRPELRGKPVavgGDNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRD 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  92 MSQRIFDLLLNYTPLVEKLGFDENFMDVTalvelrqahvaeallrppvghtypadgtplsncdcGCAQRLAIGTRIAQEI 171
Cdd:COG0389  80 VSRRVMAILERYTPLVEPLSIDEAFLDVT-----------------------------------GSARLFGSAEAIARRI 124

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 172 REELKLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMSSVEQLQQ 251
Cdd:COG0389 125 RRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPGEVAAFLAPL-PVEKLWGVGPKTAEKLARLGIRTIGDLAA 203

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 252 CDMDVMRKKFGfETATRLRDLAFGRDTSLVRPSGKPKTIGMEDAC-KPISVRTDVEERFRMLLKRLVEQVAEDGRVP--I 328
Cdd:COG0389 204 LPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRKSIGVERTFgEDLTDLEELEAALRRLAERLAERLRRQGLGArtV 282

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 329 AIKVVLRKFDSQKKSshretkqanilpslfktsmcpgetgvskVQLADGAQDK--LLKIVMRLFERIVDMSKPfnITLLG 406
Cdd:COG0389 283 TVKLRTSDFRTTTRS----------------------------RTLPEPTDDTaeLLRAARELLERIYRPGRP--VRLLG 332


                ....
gi 24644984 407 LAFS 410
Cdd:COG0389 333 VRLS 336
PRK01810 PRK01810
DNA polymerase IV; Validated
 11-322 1.08e-48

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 176.76  E-value: 1.08e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   11 EAHQRTIIHLDMDYFYAQVEEIRDPTLRSKALGI-----QQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNgED 85
Cdd:PRK01810   1 PKKGRVIFHVDMNSFFASVEIAYDPSLQGKPLAVagnekERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRR-PN 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   86 LAPYRQMSQRIFDLLLNYTPLVEKLGFDENFMDVTalvelrqahvaeallrppvghTYPADGTPLSncdcgcaqrlaigt 165
Cdd:PRK01810  80 FDRYREASRQMFQILSEFTPLVQPVSIDEGYLDIT---------------------DCYALGSPLE-------------- 124

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  166 rIAQEIREELKLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMSS 245
Cdd:PRK01810 125 -IAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGITVLRKRDVPEMLWPL-PVGEMHGIGEKTAEKLKDIGIQT 202

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24644984  246 VEQLQQCDMDVMRKKFGFeTATRLRDLAFGRDTSLVRPS--GKPKTIGMEDAckpISVRTDVEERFRMLLKRLVEQVAE 322
Cdd:PRK01810 203 IGDLAKADEHILRAKLGI-NGVRLQRRANGIDDRPVDPEaiYQFKSVGNSTT---LSHDMDEEKELLDVLRRLSKSVSK 277
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 20-196 1.04e-45

impB/mucB/samB family; These proteins are involved in UV protection (Swiss).


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 160.05  E-value: 1.04e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984    20 LDMDYFYAQVEEIRDPTLRSKALGIQQKN---IVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVnGEDLAPYRQMSQRI 96
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGGNgrgIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984    97 FDLLLNY-TPLVEKLGFDENFMDVTALVELRQAHVAeallrppvghtypadgtplsncdcgcaqrlaigtrIAQEIREEL 175
Cdd:pfam00817  80 FEILRRFsTPKVEQASIDEAFLDLTGLEKLFGAEEA-----------------------------------LAKRLRREI 124

                         170       180
                  ....*....|....*....|.
gi 24644984   176 KLRLGITCCAGIAYNKLLAKL 196
Cdd:pfam00817 125 AEETGLTCSIGIAPNKLLAKL 145
 
Name Accession Description Interval E-value
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 18-411 1.89e-170

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: 494.30  E-value: 1.89e-170
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  18 IHLDMDYFYAQVEEIRDPTLRSKALGIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGEDLAPYRQMSQRIF 97
Cdd:cd01703   1 IHLDLDCFYAQVEEIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  98 DLLLNYTP--LVEKLGFDENFMDVTALvelrqahvaeallrppvghtypadgtplsncdcgcaqRLAIGTRIAQEIREEL 175
Cdd:cd01703  81 RLLRSYSWndRVERLGFDENFMDVTEM-------------------------------------RLLVASHIAYEMRERI 123

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 176 KLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFM--RELGDLKRVTGIGQKTQCLLLEAGMSSVEQLQQCD 253
Cdd:cd01703 124 ENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLLPPSCADLMdfMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFS 203

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 254 ---------------MDVMRKKFGFETATRLRDLAFGRDTSLV-RPSGKPKTIGMEDACKPIS------VRTDVEERFRM 311
Cdd:cd01703 204 nrnrqtvgaapslleLLLMVKEFGEGIGQRIWKLLFGRDTSPVkPASDFPQQISIEDSYKKCSleeireARNKIEELLAS 283

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 312 LLKRLVEQV----AEDGRVPIAIKVVLRKFDSQKKSSHRETKQANILPSLFKTSMcpgetgvskvQLADGAQDKLLKIVM 387
Cdd:cd01703 284 LLERMKQDLqevkAGDGRRPHTLRLTLRRYTSTKKHYNRESKQAPIPSHVFQKLT----------GGNEIAARPIEKILM 353

                       410       420
                ....*....|....*....|....*.
gi 24644984 388 RLFERIVDMS--KPFNITLLGLAFSK 411
Cdd:cd01703 354 RLFRELVPPKnvKGFNLTLLNVCFTN 379
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 18-412 3.20e-69

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: 230.49  E-value: 3.20e-69
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  18 IHLDMDYFYAQVEEIRDPTLRSKALGI---QQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGeDLAPYRQMSQ 94
Cdd:cd03586   1 IHIDMDAFYASVEQRDNPELKGKPVAVggsSDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPP-RFDKYREVSR 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  95 RIFDLLLNYTPLVEKLGFDENFMDVTalvelrqahvaeallrppvghtypadgtplsncdcGCAQRLAIGTRIAQEIREE 174
Cdd:cd03586  80 QIMEILREYTPLVEPLSIDEAYLDVT-----------------------------------DYVRLFGSATEIAKEIRAR 124

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 175 LKLRLGITCCAGIAYNKLLAKlVGSSHE-PNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMSSVEQLQQCD 253
Cdd:cd03586 125 IREETGLTASAGIAPNKFLAK-IASDLNkPNGLTVIPPEDVEEFLAPL-PVRKIPGVGKVTAEKLKELGIKTIGDLAKLD 202

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 254 MDVMRKKFGfETATRLRDLAFGRDTSLVRPSGKPKTIGMEDAC-KPISVRTDVEERFRMLLKRLVEQVAEDGRVPIAIKV 332
Cdd:cd03586 203 VELLKKLFG-KSGRRLYELARGIDNRPVEPDRERKSIGVERTFsEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTV 281

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 333 VLRKFDSQKKSSHRETKQANILPslfktsmcpgetgvskvqladgaqDKLLKIVMRLFERIVDMSkpfNITLLGLAFSKF 412
Cdd:cd03586 282 KLKYADFSTRTRSRTLPEPTDDA------------------------EDIYELALELLEELLDGR---PIRLLGVRLSGL 334
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 15-410 2.19e-68

Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 228.10  E-value: 2.19e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  15 RTIIHLDMDYFYAQVEEIRDPTLRSKAL---GIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGeDLAPYRQ 91
Cdd:COG0389   1 RRILHVDMDAFYASVEQRDRPELRGKPVavgGDNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRD 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  92 MSQRIFDLLLNYTPLVEKLGFDENFMDVTalvelrqahvaeallrppvghtypadgtplsncdcGCAQRLAIGTRIAQEI 171
Cdd:COG0389  80 VSRRVMAILERYTPLVEPLSIDEAFLDVT-----------------------------------GSARLFGSAEAIARRI 124

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 172 REELKLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMSSVEQLQQ 251
Cdd:COG0389 125 RRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPGEVAAFLAPL-PVEKLWGVGPKTAEKLARLGIRTIGDLAA 203

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 252 CDMDVMRKKFGfETATRLRDLAFGRDTSLVRPSGKPKTIGMEDAC-KPISVRTDVEERFRMLLKRLVEQVAEDGRVP--I 328
Cdd:COG0389 204 LPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRKSIGVERTFgEDLTDLEELEAALRRLAERLAERLRRQGLGArtV 282

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 329 AIKVVLRKFDSQKKSshretkqanilpslfktsmcpgetgvskVQLADGAQDK--LLKIVMRLFERIVDMSKPfnITLLG 406
Cdd:COG0389 283 TVKLRTSDFRTTTRS----------------------------RTLPEPTDDTaeLLRAARELLERIYRPGRP--VRLLG 332


                ....
gi 24644984 407 LAFS 410
Cdd:COG0389 333 VRLS 336
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 19-410 1.15e-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: 196.81  E-value: 1.15e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  19 HLDMDYFYAQVEEIRDPTLRSKALGIQQKNI----VVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNgEDLAPYRQMSQ 94
Cdd:cd00424   2 HIDFDNFFASVEQLARPELKGRPVVVVPFNSdstcVIACSYEARKYGVKRGMPVREARKMCPNLILVP-ARLDLYRRLSE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  95 RIFDLLLNYTPLVEKLGFDENFMDVTalvelrqahvaeallrppvghtypadgtplsncdcGCAQRLAIGTRIAQEIREE 174
Cdd:cd00424  81 RLLSELEEVAPLVEVASIDELFLDLT-----------------------------------GSARLLGLGSEVALRIKRH 125

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 175 LKLRLG-ITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMSSVEQLQQCD 253
Cdd:cd00424 126 IAEQLGgITASIGIASNKLLAKLAAKYAKPDGLTILDPEDLPGFLSKL-PLTDLPGIGAVTAKRLEAVGINPIGDLLAAS 204

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 254 MDVMRKKFGFETATRLRDLAFGRDTSLVRPSGKPKTIGMEDACKP-ISVRTDVEERFRMLLKRLVEQVAEDGRVPIAIKV 332
Cdd:cd00424 205 PDALLALWGGVSGERLWYALRGIDDEPLSPPRPRKSFSHERVLPRdSRNAEDARPLLRLLLEKLARRLRRDGRGATRLRL 284

                       330       340       350       360       370       380       390
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24644984 333 VLRKFDSQK-KSSHRETKQAnilPSLFKTSMCPgetgvskvqladgaqdkLLKIVMRLFERIVDMSKPFNITLLGLAFS 410
Cdd:cd00424 285 WLRTVDGRWsGHADIPSRSA---PRPISTEDGE-----------------LLHALDKLWRALLDDKGPRRLRRLGVRLS 343
PRK01810 PRK01810
DNA polymerase IV; Validated
 11-322 1.08e-48

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 176.76  E-value: 1.08e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   11 EAHQRTIIHLDMDYFYAQVEEIRDPTLRSKALGI-----QQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNgED 85
Cdd:PRK01810   1 PKKGRVIFHVDMNSFFASVEIAYDPSLQGKPLAVagnekERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRR-PN 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   86 LAPYRQMSQRIFDLLLNYTPLVEKLGFDENFMDVTalvelrqahvaeallrppvghTYPADGTPLSncdcgcaqrlaigt 165
Cdd:PRK01810  80 FDRYREASRQMFQILSEFTPLVQPVSIDEGYLDIT---------------------DCYALGSPLE-------------- 124

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  166 rIAQEIREELKLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMSS 245
Cdd:PRK01810 125 -IAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGITVLRKRDVPEMLWPL-PVGEMHGIGEKTAEKLKDIGIQT 202

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24644984  246 VEQLQQCDMDVMRKKFGFeTATRLRDLAFGRDTSLVRPS--GKPKTIGMEDAckpISVRTDVEERFRMLLKRLVEQVAE 322
Cdd:PRK01810 203 IGDLAKADEHILRAKLGI-NGVRLQRRANGIDDRPVDPEaiYQFKSVGNSTT---LSHDMDEEKELLDVLRRLSKSVSK 277
PRK02406 PRK02406
DNA polymerase IV; Validated
 22-338 1.06e-47

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 172.23  E-value: 1.06e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   22 MDYFYAQVEEIRDPTLRSKALGI----QQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGeDLAPYRQMSQRIF 97
Cdd:PRK02406   1 MDCFYAAVEMRDNPELRGKPVAVggspGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPG-RFDVYKEVSRQIR 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   98 DLLLNYTPLVEKLGFDENFMDVTalvelrqahvaeallrppvghtypadgtplsncDCGCAQRLAigTRIAQEIREELKL 177
Cdd:PRK02406  80 EIFRRYTDLIEPLSLDEAYLDVT---------------------------------DNKLCIGSA--TLIAQEIRQDIFE 124

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  178 RLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMSSVEQLQQCDMDVM 257
Cdd:PRK02406 125 ELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEEVDAFLATL-PVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAEL 203

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  258 RKKFG-FetATRLRDLAFGRDTSLVRPSGKPKTIGMEdackpisvRT---------DVEERFRMLLKRLVEQVAEDGRVP 327
Cdd:PRK02406 204 IRHFGkF--GRRLYERARGIDERPVKPDRERKSVGVE--------RTfaedlydleACLAELPRLAEKLERRLERAKPDK 273

                        330
                 ....*....|..
gi 24644984  328 IAIKVVLR-KFD 338
Cdd:PRK02406 274 RIKTVGVKlKFA 285
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 19-411 8.29e-46

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: 167.49  E-value: 8.29e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  19 HLDMDYFYAQVEEIRDPTLRSKALGIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLV------NGED------- 85
Cdd:cd01702   2 HIDMDAFFAQVEQVRLGLLRNDPVAVVQWNSIIAVSYAARAFGVTRFMTIDEAKKKCPDLILAhvatykKGEDeadyhen 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  86 ---------LAPYRQMSQRIFDLLLNYTPLVEKLGFDENFMDVtalvelrqahvaeallrppvghtypadgtplsncdcg 156
Cdd:cd01702  82 psparhkvsLDPYRRASRKILNILKRFGDVVEKASIDEAYLDL------------------------------------- 124

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 157 caqrlaiGTRIAQEIREELKLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQC 236
Cdd:cd01702 125 -------GSRIVEEIRQQVYDELGYTCSAGIAHNKMLAKLASGMNKPNAQTILRNDAVASFLSSL-PITSIRGLGGKLGE 196

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 237 LLLEA----GMSSVEQLQQCDMDVMRKKFGfETATRLRDLAFGRDTSLVRPSGKPKTIGmedACK-----PISVRTDVEE 307
Cdd:cd01702 197 EIIDLlglpTEGDVAGFRSSESDLQEHFGE-KLGEWLYNLLRGIDHEPVKPRPLPKSMG---SSKnfpgkTALSTEDVQH 272

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 308 RFRM----LLKRLVEQVAEDGRVPIAIKVVLRkfdsQKKSSHRETKQanilpslfktsmcpgetgvskVQLADGAQDKLL 383
Cdd:cd01702 273 WLLVlaseLNSRLEDDRYENNRRPKTLVLSLR----QRGDGVRRSRS---------------------CALPRYDAQKIV 327

                       410       420       430
                ....*....|....*....|....*....|...
gi 24644984 384 KIVMRLFeRIVDMSKP-----FNITLLGLAFSK 411
Cdd:cd01702 328 KDAFKLI-KAINEEGLglawnYPLTLLSLSFTK 359
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 20-196 1.04e-45

impB/mucB/samB family; These proteins are involved in UV protection (Swiss).


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 160.05  E-value: 1.04e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984    20 LDMDYFYAQVEEIRDPTLRSKALGIQQKN---IVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVnGEDLAPYRQMSQRI 96
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGGNgrgIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984    97 FDLLLNY-TPLVEKLGFDENFMDVTALVELRQAHVAeallrppvghtypadgtplsncdcgcaqrlaigtrIAQEIREEL 175
Cdd:pfam00817  80 FEILRRFsTPKVEQASIDEAFLDLTGLEKLFGAEEA-----------------------------------LAKRLRREI 124

                         170       180
                  ....*....|....*....|.
gi 24644984   176 KLRLGITCCAGIAYNKLLAKL 196
Cdd:pfam00817 125 AEETGLTCSIGIAPNKLLAKL 145
PRK14133 PRK14133
DNA polymerase IV; Provisional
 15-352 1.40e-35

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 137.93  E-value: 1.40e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   15 RTIIHLDMDYFYAQVEEIRDPTLRSKAL---GIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGEdLAPYRQ 91
Cdd:PRK14133   3 RVIIHVDMDAFFASVEQMDNPKLKGKPVivgGISERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVR-HERYKE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   92 MSQRIFDLLLNYTPLVEKLGFDENFMDVTalvelrqahvaeallrppvghtypadgtplsNCDcgcaqrlAIGTRIAQEI 171
Cdd:PRK14133  82 VSKNIFKILYEVTPIVEPVSIDEAYLDIT-------------------------------NIK-------EEPIKIAKYI 123

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  172 REELKLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMSSVEQLQQ 251
Cdd:PRK14133 124 KKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGIKIITEDMIPDILKPL-PISKVHGIGKKSVEKLNNIGIYTIEDLLK 202

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  252 CDMDVMRK---KFGFETATRLRdlafGRDTSLVRPSGKPKTIGMEdackpISVRTDVE--ERFRMLLKRLVEQVAED-GR 325
Cdd:PRK14133 203 LSREFLIEyfgKFGVEIYERIR----GIDYREVEVSRERKSIGKE-----TTLKKDTKdkEELKKYLKDFSNIISEElKK 273

                        330       340
                 ....*....|....*....|....*..
gi 24644984  326 VPIAIKVVLRKFDSQKKSSHRETKQAN 352
Cdd:PRK14133 274 RNLYGKTVTVKIKTSDFQTHTKSKTLN 300
PRK02794 PRK02794
DNA polymerase IV; Provisional
 11-321 1.27e-34

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 136.99  E-value: 1.27e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   11 EAHQRTIIHLDMDYFYAQVEEIRDPTLRSKAL--GIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGeDLAP 88
Cdd:PRK02794  32 ELYTLSIAHIDCDAFYASVEKRDNPELRDKPViiGGGKRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKP-DMEK 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   89 YRQMSQRIFDLLLNYTPLVEKLGFDENFMDVTALVELRQAhvaeallrPPvghtypadgtplsncdcgcAQRLAigtRIA 168
Cdd:PRK02794 111 YVRVGREVRAMMQALTPLVEPLSIDEAFLDLSGTERLHGA--------PP-------------------AVVLA---RFA 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  169 QEIREElklrLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRElgdlKRVT---GIGQKTQCLLLEAGMSS 245
Cdd:PRK02794 161 RRVERE----IGITVSVGLSYNKFLAKIASDLDKPRGFSVIGRAEALAFLAP----KPVGiiwGVGPATAARLARDGIRT 232

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  246 VEQLQQCDMDVMRKKFGfETATRLRDLAFGRDTSLVRPSGKPKTIGME-----DackpISVRTDVEErfrmLLKRLVEQV 320
Cdd:PRK02794 233 IGDLQRADEADLMRRFG-SMGLRLWRLARGIDDRKVSPDREAKSVSAEttfetD----LSDFEDLEP----ILWRLSEKV 303


                 .
gi 24644984  321 A 321
Cdd:PRK02794 304 S 304
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 12-322 6.19e-28

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: 117.03  E-value: 6.19e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  12 AHQRTIIHLDMDYFYAQVEEIRDPTLRSKALGI-QQKNI---VVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGEDLA 87
Cdd:cd01701  44 DLQRIIMHVDFDCFFVSVSIRNRPDLKGKPVAVcHGKGPnseIASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDFEA 123

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  88 pYRQMSQRIFDLLLNYTPLVEKLGFDENFMDVTALVElrqahvaeallrppvghtypadgtpLSNCDCgcaqrlaigTRI 167
Cdd:cd01701 124 -YEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLE-------------------------ETYELP---------EEL 168

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 168 AQEIREELKLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMSSVE 247
Cdd:cd01701 169 AEAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDGQYHLSAEKVEEFLSQL-KVGDLPGVGSSLAEKLVKLFGDTCG 247

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24644984 248 QLQQCD--MDVMRKKFGFETATRLRDLAFGRDTSLVRPSGKPKTIGMEdackpIS--VRTDVEERFRMLLKRLVEQVAE 322
Cdd:cd01701 248 GLELRSktKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERKSVSAE-----INygIRFTNVDDVEQFLQRLSEELSK 321
PRK03858 PRK03858
DNA polymerase IV; Validated
 16-338 2.34e-27

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 115.08  E-value: 2.34e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   16 TIIHLDMDYFYAQVEEIRDPTLRSKALgIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGEdLAPYRQMSQR 95
Cdd:PRK03858   5 SILHADLDSFYASVEQRDDPALRGRPV-IVGGGVVLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPR-MSAYSRASKA 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   96 IFDLLLNYTPLVEKLGFDENFMDVTALvelrqAHVAeallrppvghtypadGTPLsncdcgcaqrlaigtRIAQEIREEL 175
Cdd:PRK03858  83 VFEVFRDTTPLVEGLSIDEAFLDVGGL-----RRIS---------------GTPV---------------QIAARLRRRV 127

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  176 KLRLGITCCAGIAYNKLLAKLVGSSHEPNqQTVLVSTYAE-QFMRELgDLKRVTGIGQKTQCLLLEAGMSSVEQLQQCDM 254
Cdd:PRK03858 128 REEVGLPITVGVARTKFLAKVASQVAKPD-GLLVVPPDRElAFLHPL-PVRRLWGVGPVTAAKLRAHGITTVGDVAELPE 205

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  255 DVMRKKFGFETATRLRDLAFGRDTSLVRPSGKPKTIGMEDAC-KPISVRTDVEERFRMLLKRLVEQVAEDGRVpiAIKVV 333
Cdd:PRK03858 206 SALVSLLGPAAGRHLHALAHNRDPRRVETGRRRRSVGAQRALgRGPNSPAEVDAVVVALVDRVARRMRAAGRT--GRTVV 283


                 ....*.
gi 24644984  334 LR-KFD 338
Cdd:PRK03858 284 LRlRFD 289
PRK03352 PRK03352
DNA polymerase IV; Validated
 15-343 3.03e-26

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 110.50  E-value: 3.03e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   15 RTIIHLDMDYFYAQVEEIRDPTLRSKALGI------QQKNIVVTC-NYVARAKGVTKLMLIAEAQRICPDLVLVNgEDLA 87
Cdd:PRK03352   5 RWVLHVDLDQFIAAVELLRRPELAGLPVIVggngdpTEPRKVVTCaSYEARAFGVRAGMPLRTAARRCPDAVFLP-SDPA 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   88 PYRQMSQRIFDLLLNYTPLVEKLGFDENFMDVTalvelrqahvaeallrppvghtyPADGTPLsncdcgcaqrlaigtri 167
Cdd:PRK03352  84 AYDAASEEVMATLRDLGVPVEVWGWDEAFLGVD-----------------------TDDPEAL----------------- 123

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  168 AQEIREELKLRLGITCCAGIAYNKLLAKLVGSSHEPnqQTVLVSTyAEQFMRELGDlkRVT----GIGQKTQCLLLEAGM 243
Cdd:PRK03352 124 AEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKP--AGVFRLT-DANWMAVMGD--RPTdalwGVGPKTAKRLAALGI 198

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  244 SSVEQLQQCDMDVMRKKFGFETATRLRDLAFGRDTSLVR-----PSGKPKTIGMEdacKPISVRTDVEERFRMLLKRLVE 318
Cdd:PRK03352 199 TTVADLAAADPAELAATFGPTTGPWLLLLARGGGDTEVSaepwvPRSRSREVTFP---QDLTDRAEVESAVRELARRVLD 275

                        330       340
                 ....*....|....*....|....*..
gi 24644984  319 QVAEDGRVP--IAIKVVLRKFDSQKKS 343
Cdd:PRK03352 276 EVVAEGRPVtrVAVKVRTATFYTRTKI 302
PRK03348 PRK03348
DNA polymerase IV; Provisional
 14-338 4.87e-26

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 111.95  E-value: 4.87e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   14 QRTIIHLDMDYFYAQVEEIRDPTLRSKAL---GIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGEDLAPYR 90
Cdd:PRK03348   4 QRWVLHLDMDAFFASVEQLTRPTLRGRPVlvgGLGGRGVVAGASYEARVFGARSAMPMHQARRLVGNGAVVLPPRFVVYR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   91 QMSQRIFDLLLNYTPLVEKLGFDENFMDVTalvELRQAHVAEAllrppvghtypadgtplsncdcgcaqrlaigTRIAQE 170
Cdd:PRK03348  84 AASRRVFDTLRELSPVVEQLSFDEAFVEPA---ELAGASAEEV-------------------------------EAFAER 129

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  171 IREELKLRLGITCCAGIAYNKLLAKLVGSSHEPNQQTVLVstyAEQFMRELGDL--KRVTGIGQKTQCLLLEAGMSSVEQ 248
Cdd:PRK03348 130 LRARVREETGLPASVGAGSGKQIAKIASGLAKPDGIRVVP---PGEERELLAPLpvRRLWGIGPVTEEKLHRLGIETIGD 206

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  249 LQQCDMDVMRKKFGFETATRLRDLAFGRDTSLVRPSGKPKTIGMEDACkPISVRTdvEERFRMLLKRLVEQVAE----DG 324
Cdd:PRK03348 207 LAALSEAEVANLLGATVGPALHRLARGIDDRPVAERAEAKQISAESTF-AVDLTT--RAQLREAIERIAEHAHRrllkDG 283

                        330
                 ....*....|....
gi 24644984  325 RVPIAIKVVLRKFD 338
Cdd:PRK03348 284 RGARTVTVKLRKSD 297
PRK01216 PRK01216
DNA polymerase IV; Validated
 17-416 1.77e-25

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 108.34  E-value: 1.77e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   17 IIHLDMDYFYAQVEEIRDPTLRSKALGI-------QQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVngedlaP- 88
Cdd:PRK01216   3 ILFVDFDYFFAQVEEVLNPSLKGKPVVVcvysgrfEDSGAVATANYEARKLGIKAGMPIVEAKKILPNAVYL------Pm 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   89 ----YRQMSQRIFDLLLNYTPLVEKLGFDENFMDVTALVElrqahvaeallrppvghtypadgtplsNCDCGcaqrLAIG 164
Cdd:PRK01216  77 rkevYQQVSNRIMKLLREYSEKIEIASIDEAYLDISDKVK---------------------------NYQDA----YNLG 125

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  165 TRIAQEIREELKLRLGItccaGIAYNKLLAKLVGSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEAGMS 244
Cdd:PRK01216 126 LEIKNKILEKEKITVTV----GISKNKVFAKIAADMAKPNGIKVIDDEEVKRFINEL-DIADIPGIGDITAEKLKKLGVN 200

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  245 SVEQLQQCDMDVMRKKFGFETATRLRDLAFGRDTSLVRPSGKpKTIGmEDACKPISVRtDVEErFRMLLKRLVEQVAE-- 322
Cdd:PRK01216 201 KLVDTLRIEFDELKGIIGEAKAKYLFSLARNEYNEPVRARVR-KSIG-RYVTLPRNTR-DLEE-IKPYLKRAIEEAYYkl 276

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  323 DGrVPIAIKVVLRKFDSQKKSSHRETKqanilpslfktsmcpgeTGVSKvqladgaqDKLLKIVMRLFERIVDMSKPfNI 402
Cdd:PRK01216 277 DG-IPKAIHVVAIMEDLDIVSRGRTFT-----------------HGISK--------ETAYREAVRLLQKILEEDER-KI 329

                        410
                 ....*....|....
gi 24644984  403 TLLGLAFSKFQERK 416
Cdd:PRK01216 330 RRIGVRFSKIIEAI 343
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 14-291 7.67e-25

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 107.78  E-value: 7.67e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   14 QRTIIHLDMDYFYAQVEEIRDPTLRSKALGI-----QQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNgedlaP 88
Cdd:PRK03103   2 ERVILLVDMQSFYASVEKAANPELKGRPVIVsgdpeRRSGVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVK-----P 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   89 YRQM----SQRIFDLLLNYTPLVEKLGFDENFMDVTALVELRqahvaeallrppvghtypadGTPLSncdcgcaqrlaig 164
Cdd:PRK03103  77 RMQRyidvSLQITRILEDFTDLVEPFSIDEQFLDVTGSQKLF--------------------GSPLE------------- 123

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  165 trIAQEIREELKLRLGITCCAGIAYNKLLAKLV---GSSHEPNQQTVLVSTYAEQFMRELgDLKRVTGIGQKTQCLLLEA 241
Cdd:PRK03103 124 --IAQKIQQRIMRETGVYARVGIGPNKLLAKMAcdnFAKKNPDGLFTLDKEDVPADLWPL-PVRKLFGVGSRMEKHLRRM 200

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|..
gi 24644984  242 GMSSVEQLQQCDMDVMRKKFGFeTATRLRDLAFGRDTSLVRPSG--KPKTIG 291
Cdd:PRK03103 201 GIRTIGQLANTPLERLKKRWGI-NGEVLWRTANGIDYSPVTPHSldRQKAIG 251
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 11-249 4.45e-20

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 94.70  E-value: 4.45e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   11 EAHQR--TIIHLDMDYFYAQVEEIRDPTLRSKALGIQQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNGEDLAp 88
Cdd:PTZ00205 127 EATRRlgTYIHLDMDMFYAAVEIKKHPEYAAIPLAIGTMTMLQTANYVARGRGIRQGMPGFLALKICPNLLILPPDFDA- 205

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   89 YRQMSQRIFDLLLNYTPLVEKLGFDENFMDVTALVELRQahvaeallrppvghtypadgtplsncdcgcaqrlaiGTRIA 168
Cdd:PTZ00205 206 YNEESNTVRRIVAEYDPNYISFGLDELTLEVSAYIERFE------------------------------------GTKTA 249

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  169 QEIREELKLRL----GITCCAGIAYNKLLAKLVGSSHEPNQQTVL-------VSTYaeqfMRELGdLKRVTGIGQKTQCL 237
Cdd:PTZ00205 250 EDVASELRVRVfgetKLTASAGIGPTAALAKIASNINKPNGQHDLnlhtrgdVMTY----VRDLG-LRSVPGVGKVTEAL 324

                        250
                 ....*....|..
gi 24644984  238 LLEAGMSSVEQL 249
Cdd:PTZ00205 325 LKGLGITTLSDI 336
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 20-325 1.32e-19

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: 90.68  E-value: 1.32e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  20 LDMDYFYAQVEEIRDPTLRSKALgiqqkniVVTCN----YVAR-----AKGVTKLMLIAEAQRICPDL-VLVNGEDLAPY 89
Cdd:cd01700   3 VDCNSFYASCERVFRPLLLGRPL-------VVLSNndgcVIARspeakALGIKMGSPYFKVPDLLERHgVAVFSSNYALY 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  90 RQMSQRIFDLLLNYTPLVEKLGFDENFMDVTAlvelrqahvaeallrppvghtYPADGTPlsncdcgcaqrlaigTRIAQ 169
Cdd:cd01700  76 GDMSRRIMSILERFSPDVEVYSIDESFLDLTG---------------------SLRFGDL---------------EELAR 119

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 170 EIREELKLRLGITCCAGIAYNKLLAKL---VGSSHEPNqQTVLVSTYAEQFMRELG--DLKRVTGIGQKTQCLLLEAGMS 244
Cdd:cd01700 120 KIRRRILQETGIPVTVGIGPTKTLAKLandLAKKKNPY-GGVVDLTDEEVRDKLLKilPVGDVWGIGRRTAKKLNAMGIH 198

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 245 SVEQLQQCDMDVMRKKFGFeTATRLRDLAFGRDTSLVRPSgKPKTIGMedaCKPISVRTDVEERFRML--LKRLVEQVAE 322
Cdd:cd01700 199 TAGDLAQADPDLLRKKFGV-VGERLVRELNGIDCLPLEEY-PPPKKSI---GSSRSFGRDVTDLDELKqaLAEYAERAAE 273


                ...
gi 24644984 323 DGR 325
Cdd:cd01700 274 KLR 276
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 45-323 1.71e-08

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: 57.01  E-value: 1.71e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  45 QQKNIVVTCNYVARAKGVTKLMLIAEAQRICPDLVLVNgEDLAPYRQMSQRIFDLLLNYTPLVEKLGFDENFMDVTalve 124
Cdd:cd03468  31 KKAGRILACNAAARAAGVRPGMPLAEALALCPNLQVVE-YDPEADARALQELALWLLRFTPLVALDGPDGLLLDVT---- 105

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 125 lrqahvaeallrppvghtypadgtplsncdcGCAqRLAIGTRIAQEIREELKLRLGITCCAGIAYNKLLAKLV---GSSH 201
Cdd:cd03468 106 -------------------------------GCL-HLFGGEDALAASLRAALATLGLSARAGIADTPGAAWLLaraGGGR 153

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984 202 EPNQQTVLvSTYAEQFMRELGDLKRVtgiGQKTQCLLLEAGMSSVEQLQQCDMDVMRKKFGFETATRLrDLAFGRDtslv 281
Cdd:cd03468 154 GVLRREAL-AAALVLLAPLPVAALRL---PPETVELLARLGLRTLGDLAALPRAELARRFGLALLLRL-DQAYGRD---- 224

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|
gi 24644984 282 rpsgkPKTIGMEDACKPISVRtdVEERFRM--------LLKRLVEQVAED 323
Cdd:cd03468 225 -----PEPLLFSPPPPAFDFR--LELQLEEpiargllfPLRRLLEQLCAF 267
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
21-261 6.40e-06

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 49.38  E-value: 6.40e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   21 DMDYFYAQVEEIRDPTLRSKALGIQQKN--IVVTCNYVARAKGV---TKLMLIAEAQRICPdlVLVNGEDLAPYRQMSQR 95
Cdd:PRK03609   6 DVNSFYASCETVFRPDLRGKPVVVLSNNdgCVIARSAEAKALGIkmgDPWFKQKDLFRRCG--VVCFSSNYELYADMSNR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984   96 IFDLLLNYTPLVEKLGFDENFMDVTALVELRQAhvaeallrppvghtypadgtplsncdcgcaqrlaigTRIAQEIREEL 175
Cdd:PRK03609  84 VMSTLEELSPRVEIYSIDEAFCDLTGVRNCRDL------------------------------------TDFGREIRATV 127

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24644984  176 KLRLGITCCAGIAYNKLLAKLVG-SSHEPNQQT--VLVSTYAEQFMRELGDL--KRVTGIGQKTQCLLLEAGMSSVEQLQ 250
Cdd:PRK03609 128 LQRTHLTVGVGIAQTKTLAKLANhAAKKWQRQTggVVDLSNLERQRKLLSLQpvEEVWGVGRRISKKLNAMGIKTALDLA 207

                        250
                 ....*....|.
gi 24644984  251 QCDMDVMRKKF 261
Cdd:PRK03609 208 DTNIRFIRKHF 218
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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