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Conserved domains on  [gi|575501584|ref|NP_001276445|]
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DNA polymerase iota isoform 4 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PolY super family cl28996
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 1-345 1.81e-150

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.


The actual alignment was detected with superfamily member cd01703:

Pssm-ID: 452909 [Multi-domain]  Cd Length: 379  Bit Score: 440.37  E-value: 1.81e-150
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   1 MISNPELKDRPLGVQQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGEDLSRYREMSYKVTEMV-----EKRLQ 75
Cdd:cd01703   14 EIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLrsyswNDRVE 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  76 QLPSEEvpsvtvfghvynnqsvNLHNIMHRRLVVGSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQQTVL 155
Cdd:cd01703   94 RLGFDE----------------NFMDVTEMRLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTL 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 156 LPESCQHLI--HSLNHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPI---------------KTLEKELGIAIAQRIQQL 218
Cdd:cd01703  158 LPPSCADLMdfMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKL 237

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 219 SFGEDKSPV-TPSGPPQSFSEEDTFKKCSSEV--EAKAKIEELLSSLLTRVCQ--------DGRKPHTVRLVIRRYSD-- 285
Cdd:cd01703  238 LFGRDTSPVkPASDFPQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTStk 317

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 575501584 286 KHCNRESRQCPIPSHVIQKLGTGNHDSMPPLIDILMKLFRNMVNVK--MPFHLTLMSVCFCN 345
Cdd:cd01703  318 KHYNRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
Rev1_UBM2 super family cl41665
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 613-641 6.19e-03

Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, the second ubiquitin-binding motif of Rev1, a DNA damage tolerance protein. Rev1 acts as a translesion synthesis (TLS) DNA polymerase and may also recruit other TLS polymerases to the site of DNA damage; in that process the UBMs are essential for Rev1 function, triggering TLS activation via recognition of ubiquitin moieties in PCNA, the proliferating cell nuclear antigen.


The actual alignment was detected with superfamily member cd19318:

Pssm-ID: 412037  Cd Length: 36  Bit Score: 34.89  E-value: 6.19e-03
                         10        20
                 ....*....|....*....|....*....
gi 575501584 613 LPFPPDIDPQVFYELPEEVQKELMAEWER 641
Cdd:cd19318    6 LPSFSQVDPSVLAALPPDLQEELEAAYAQ 34
 
Name Accession Description Interval E-value
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 1-345 1.81e-150

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: 440.37  E-value: 1.81e-150
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   1 MISNPELKDRPLGVQQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGEDLSRYREMSYKVTEMV-----EKRLQ 75
Cdd:cd01703   14 EIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLrsyswNDRVE 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  76 QLPSEEvpsvtvfghvynnqsvNLHNIMHRRLVVGSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQQTVL 155
Cdd:cd01703   94 RLGFDE----------------NFMDVTEMRLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTL 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 156 LPESCQHLI--HSLNHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPI---------------KTLEKELGIAIAQRIQQL 218
Cdd:cd01703  158 LPPSCADLMdfMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKL 237

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 219 SFGEDKSPV-TPSGPPQSFSEEDTFKKCSSEV--EAKAKIEELLSSLLTRVCQ--------DGRKPHTVRLVIRRYSD-- 285
Cdd:cd01703  238 LFGRDTSPVkPASDFPQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTStk 317

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 575501584 286 KHCNRESRQCPIPSHVIQKLGTGNHDSMPPLIDILMKLFRNMVNVK--MPFHLTLMSVCFCN 345
Cdd:cd01703  318 KHYNRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 1-336 3.09e-59

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 201.91  E-value: 3.09e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   1 MISNPELKDRPLGV---QQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGeDLSRYREMSYKVTEMVEkrlqql 77
Cdd:COG0389   17 QRDRPELRGKPVAVggdNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRDVSRRVMAILE------ 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  78 psEEVPSVTVFG--HVYnnqsVNLHNIMHRrlvVGS--QIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQQT 153
Cdd:COG0389   90 --RYTPLVEPLSidEAF----LDVTGSARL---FGSaeAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 154 VLLPESCQHLIHSLnHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAiAQRIQQLSFGEDKSPVTPSGPP 233
Cdd:COG0389  161 VIPPGEVAAFLAPL-PVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKV-GERLYRLARGIDPRPVEPRRPR 238

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 234 QSFSEEDTFKKcssEVEAKAKIEELLSSLLTRVC----QDGRKPHTVRLVIrRYSDKHCNRESRQCPIPShviqklgtgn 309
Cdd:COG0389  239 KSIGVERTFGE---DLTDLEELEAALRRLAERLAerlrRQGLGARTVTVKL-RTSDFRTTTRSRTLPEPT---------- 304

                        330       340
                 ....*....|....*....|....*..
gi 575501584 310 hDSMPPLIDILMKLFRNMVNVKMPFHL 336
Cdd:COG0389  305 -DDTAELLRAARELLERIYRPGRPVRL 330
PRK02406 PRK02406
DNA polymerase IV; Validated
 4-285 5.47e-51

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 179.93  E-value: 5.47e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   4 NPELKDRPLGV----QQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGeDLSRYREMSYKV-------TEMVEk 72
Cdd:PRK02406  13 NPELRGKPVAVggspGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPG-RFDVYKEVSRQIreifrryTDLIE- 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  73 rlqqlpseevP-S-------VTVfghvynnqsvNLHNImhrrlvvGS--QIAAEMREAMYNQLGLTGCAGVAPNKLLAKL 142
Cdd:PRK02406  91 ----------PlSldeayldVTD----------NKLCI-------GSatLIAQEIRQDIFEELGLTASAGVAPNKFLAKI 143

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 143 VSGVFKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGiAIAQRIQQLSFGE 222
Cdd:PRK02406 144 ASDWNKPNGLFVITPEEVDAFLATLP-VEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARGI 221

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 575501584 223 DKSPVTPSGPPQSFSEEDTFKK-CSSEVEAKAKIEEL---LSSLLTRVcQDGRKPHTVRLVIrRYSD 285
Cdd:PRK02406 222 DERPVKPDRERKSVGVERTFAEdLYDLEACLAELPRLaekLERRLERA-KPDKRIKTVGVKL-KFAD 286
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 1-144 2.62e-30

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 116.13  E-value: 2.62e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584    1 MISNPELKDRPLGVQQKY---LVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVnGEDLSRYREMSYKVTEMvekrLQQL 77
Cdd:pfam00817  12 LLRDPELKGKPVAVGGGNgrgIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKIFEI----LRRF 86

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 575501584   78 PSEEVPSVTVfGHVYnnqsVNLHNIMHRRLVVgSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVS 144
Cdd:pfam00817  87 STPKVEQASI-DEAF----LDLTGLEKLFGAE-EALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 613-641 6.19e-03

Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, the second ubiquitin-binding motif of Rev1, a DNA damage tolerance protein. Rev1 acts as a translesion synthesis (TLS) DNA polymerase and may also recruit other TLS polymerases to the site of DNA damage; in that process the UBMs are essential for Rev1 function, triggering TLS activation via recognition of ubiquitin moieties in PCNA, the proliferating cell nuclear antigen.


Pssm-ID: 412037  Cd Length: 36  Bit Score: 34.89  E-value: 6.19e-03
                         10        20
                 ....*....|....*....|....*....
gi 575501584 613 LPFPPDIDPQVFYELPEEVQKELMAEWER 641
Cdd:cd19318    6 LPSFSQVDPSVLAALPPDLQEELEAAYAQ 34
 
Name Accession Description Interval E-value
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 1-345 1.81e-150

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: 440.37  E-value: 1.81e-150
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   1 MISNPELKDRPLGVQQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGEDLSRYREMSYKVTEMV-----EKRLQ 75
Cdd:cd01703   14 EIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLrsyswNDRVE 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  76 QLPSEEvpsvtvfghvynnqsvNLHNIMHRRLVVGSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQQTVL 155
Cdd:cd01703   94 RLGFDE----------------NFMDVTEMRLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTL 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 156 LPESCQHLI--HSLNHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPI---------------KTLEKELGIAIAQRIQQL 218
Cdd:cd01703  158 LPPSCADLMdfMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKL 237

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 219 SFGEDKSPV-TPSGPPQSFSEEDTFKKCSSEV--EAKAKIEELLSSLLTRVCQ--------DGRKPHTVRLVIRRYSD-- 285
Cdd:cd01703  238 LFGRDTSPVkPASDFPQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTStk 317

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 575501584 286 KHCNRESRQCPIPSHVIQKLGTGNHDSMPPLIDILMKLFRNMVNVK--MPFHLTLMSVCFCN 345
Cdd:cd01703  318 KHYNRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 1-344 5.62e-98

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: 303.90  E-value: 5.62e-98
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   1 MISNPELKDRPLGVQQKY----LVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNgEDLSRYREMSYKVTEMVEKrlqQ 76
Cdd:cd00424   14 QLARPELKGRPVVVVPFNsdstCVIACSYEARKYGVKRGMPVREARKMCPNLILVP-ARLDLYRRLSERLLSELEE---V 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  77 LPSEEVPSvtvFGHVYnnqsVNLHnIMHRRLVVGSQIAAEMREAMYNQLG-LTGCAGVAPNKLLAKLVSGVFKPNQQTVL 155
Cdd:cd00424   90 APLVEVAS---IDELF----LDLT-GSARLLGLGSEVALRIKRHIAEQLGgITASIGIASNKLLAKLAAKYAKPDGLTIL 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 156 LPESCQHLIhSLNHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAIAQRIQQLSFGEDKSPVTPSGPPQS 235
Cdd:cd00424  162 DPEDLPGFL-SKLPLTDLPGIGAVTAKRLEAVGINPIGDLLAASPDALLALWGGVSGERLWYALRGIDDEPLSPPRPRKS 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 236 FSEEDTFKKCSSEVE-AKAKIEELLSSLLTRVCQDGRKPHTVRLVIRRYSD---KHCNRESRQCPIPSHViqklgtgnhd 311
Cdd:cd00424  241 FSHERVLPRDSRNAEdARPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDGrwsGHADIPSRSAPRPIST---------- 310

                        330       340       350
                 ....*....|....*....|....*....|...
gi 575501584 312 SMPPLIDILMKLFRNMVNVKMPFHLTLMSVCFC 344
Cdd:cd00424  311 EDGELLHALDKLWRALLDDKGPRRLRRLGVRLS 343
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 1-305 1.53e-60

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: 205.45  E-value: 1.53e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   1 MISNPELKDRPLGV---QQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGeDLSRYREMSYKVTEMVEKrlqQL 77
Cdd:cd03586   14 QRDNPELKGKPVAVggsSDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPP-RFDKYREVSRQIMEILRE---YT 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  78 PSEEVPS-------VTvfGHVYNNQSvnlhnimhrrlvvGSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPN 150
Cdd:cd03586   90 PLVEPLSideayldVT--DYVRLFGS-------------ATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPN 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 151 QQTVLLPESCQHLIHSLnHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGiAIAQRIQQLSFGEDKSPVTPS 230
Cdd:cd03586  155 GLTVIPPEDVEEFLAPL-PVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFG-KSGRRLYELARGIDNRPVEPD 232

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 575501584 231 GPPQSFSEEDTF-KKCSSEVEAKAKIEELLSSLLTRVCQDGRKPHTVRLVIrRYSDKHCNRESRQCPIPSHVIQKL 305
Cdd:cd03586  233 RERKSIGVERTFsEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKL-KYADFSTRTRSRTLPEPTDDAEDI 307
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 1-336 3.09e-59

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 201.91  E-value: 3.09e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   1 MISNPELKDRPLGV---QQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGeDLSRYREMSYKVTEMVEkrlqql 77
Cdd:COG0389   17 QRDRPELRGKPVAVggdNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRDVSRRVMAILE------ 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  78 psEEVPSVTVFG--HVYnnqsVNLHNIMHRrlvVGS--QIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQQT 153
Cdd:COG0389   90 --RYTPLVEPLSidEAF----LDVTGSARL---FGSaeAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 154 VLLPESCQHLIHSLnHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAiAQRIQQLSFGEDKSPVTPSGPP 233
Cdd:COG0389  161 VIPPGEVAAFLAPL-PVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKV-GERLYRLARGIDPRPVEPRRPR 238

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 234 QSFSEEDTFKKcssEVEAKAKIEELLSSLLTRVC----QDGRKPHTVRLVIrRYSDKHCNRESRQCPIPShviqklgtgn 309
Cdd:COG0389  239 KSIGVERTFGE---DLTDLEELEAALRRLAERLAerlrRQGLGARTVTVKL-RTSDFRTTTRSRTLPEPT---------- 304

                        330       340
                 ....*....|....*....|....*..
gi 575501584 310 hDSMPPLIDILMKLFRNMVNVKMPFHL 336
Cdd:COG0389  305 -DDTAELLRAARELLERIYRPGRPVRL 330
PRK02406 PRK02406
DNA polymerase IV; Validated
 4-285 5.47e-51

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 179.93  E-value: 5.47e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   4 NPELKDRPLGV----QQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGeDLSRYREMSYKV-------TEMVEk 72
Cdd:PRK02406  13 NPELRGKPVAVggspGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPG-RFDVYKEVSRQIreifrryTDLIE- 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  73 rlqqlpseevP-S-------VTVfghvynnqsvNLHNImhrrlvvGS--QIAAEMREAMYNQLGLTGCAGVAPNKLLAKL 142
Cdd:PRK02406  91 ----------PlSldeayldVTD----------NKLCI-------GSatLIAQEIRQDIFEELGLTASAGVAPNKFLAKI 143

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 143 VSGVFKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGiAIAQRIQQLSFGE 222
Cdd:PRK02406 144 ASDWNKPNGLFVITPEEVDAFLATLP-VEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARGI 221

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 575501584 223 DKSPVTPSGPPQSFSEEDTFKK-CSSEVEAKAKIEEL---LSSLLTRVcQDGRKPHTVRLVIrRYSD 285
Cdd:PRK02406 222 DERPVKPDRERKSVGVERTFAEdLYDLEACLAELPRLaekLERRLERA-KPDKRIKTVGVKL-KFAD 286
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 4-345 3.02e-41

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: 153.62  E-value: 3.02e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   4 NPELKDRPLGVQQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLV------NGED----------------LSRYRE 61
Cdd:cd01702   17 LGLLRNDPVAVVQWNSIIAVSYAARAFGVTRFMTIDEAKKKCPDLILAhvatykKGEDeadyhenpsparhkvsLDPYRR 96

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  62 MSYKVTEMVEKRLQQLpseEVPSVTvfgHVYnnqsvnlhnimhrrLVVGSQIAAEMREAMYNQLGLTGCAGVAPNKLLAK 141
Cdd:cd01702   97 ASRKILNILKRFGDVV---EKASID---EAY--------------LDLGSRIVEEIRQQVYDELGYTCSAGIAHNKMLAK 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 142 LVSGVFKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKRL-EVLGINSVHDLQTFPIKT--LEKELGIAIAQRIQQL 218
Cdd:cd01702  157 LASGMNKPNAQTILRNDAVASFLSSLP-ITSIRGLGGKLGEEIiDLLGLPTEGDVAGFRSSEsdLQEHFGEKLGEWLYNL 235

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 219 SFGEDKSPVTPSGPPQSFSEEDTF--KKCSSEVEAKAKIEELLSSLLTRVCQD----GRKPHTVRLVIRRYSDKhcNRES 292
Cdd:cd01702  236 LRGIDHEPVKPRPLPKSMGSSKNFpgKTALSTEDVQHWLLVLASELNSRLEDDryenNRRPKTLVLSLRQRGDG--VRRS 313

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|...
gi 575501584 293 RQCPIPSHVIQKLgtgNHDSMppliDILMKLFRNMVNVKMPFHLTLMSVCFCN 345
Cdd:cd01702  314 RSCALPRYDAQKI---VKDAF----KLIKAINEEGLGLAWNYPLTLLSLSFTK 359
PRK01810 PRK01810
DNA polymerase IV; Validated
 1-285 5.65e-32

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 128.61  E-value: 5.65e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   1 MISNPELKDRPLGV-----QQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNgEDLSRYREMSYKVTEMVEKRlq 75
Cdd:PRK01810  21 IAYDPSLQGKPLAVagnekERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRR-PNFDRYREASRQMFQILSEF-- 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  76 qlpSEEVPSVTV-FGHVYNNQSVNLHNIMHrrlvvgsqIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQQTV 154
Cdd:PRK01810  98 ---TPLVQPVSIdEGYLDITDCYALGSPLE--------IAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGITV 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 155 LLPESCQHLIHSLnHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAiAQRIQQLSFGEDKSPVTPS---- 230
Cdd:PRK01810 167 LRKRDVPEMLWPL-PVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGIN-GVRLQRRANGIDDRPVDPEaiyq 244

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 575501584 231 ----GPPQSFSEE--------DTFKKCSSEVEAKAKIEELLSSlltrvcqdgrkphTVRLVIrRYSD 285
Cdd:PRK01810 245 fksvGNSTTLSHDmdeekellDVLRRLSKSVSKRLQKKTVVSY-------------NVQIMI-RYHD 297
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 1-144 2.62e-30

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 116.13  E-value: 2.62e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584    1 MISNPELKDRPLGVQQKY---LVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVnGEDLSRYREMSYKVTEMvekrLQQL 77
Cdd:pfam00817  12 LLRDPELKGKPVAVGGGNgrgIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKIFEI----LRRF 86

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 575501584   78 PSEEVPSVTVfGHVYnnqsVNLHNIMHRRLVVgSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVS 144
Cdd:pfam00817  87 STPKVEQASI-DEAF----LDLTGLEKLFGAE-EALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 5-299 1.13e-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: 118.57  E-value: 1.13e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   5 PELKDRPLGV-QQKYL---VVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVnGEDLSRYREMSYKVTEMVEKRLQQLpse 80
Cdd:cd01701   67 PDLKGKPVAVcHGKGPnseIASCNYEARSYGIKNGMWVGQAKKLCPQLVTL-PYDFEAYEEVSLTFYEILASYTDNI--- 142

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  81 EVPSVTvfgHVYNNQSVNLHNIMHRRLVVGSQIAAEMREAmynqlglTGC---AGVAPNKLLAKLVSGVFKPNQQTVLLP 157
Cdd:cd01701  143 EAVSCD---EALIDITSLLEETYELPEELAEAIRNEIRET-------TGCsasVGIGPNILLARLATRKAKPDGQYHLSA 212

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 158 ESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHD--LQTFPIKTLEKELGIAIAQRIQQLSFGEDKSPVTPSGPPQS 235
Cdd:cd01701  213 EKVEEFLSQLK-VGDLPGVGSSLAEKLVKLFGDTCGGleLRSKTKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERKS 291

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 236 FSEEDT----FKKcssEVEAKAKIEELLSSLLTRVCQDGRKPHTVRLVIRRYSDKH------------CNRESRQCPIPS 299
Cdd:cd01701  292 VSAEINygirFTN---VDDVEQFLQRLSEELSKRLEESNVTGRQITLKLMKRAPGApieppkymghgiCDSFSKSSTLGV 368
PRK03348 PRK03348
DNA polymerase IV; Provisional
 5-283 1.98e-26

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 112.72  E-value: 1.98e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   5 PELKDRPL---GVQQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGEDLSRYREMSYKVTEMVEKR---LQQL- 77
Cdd:PRK03348  25 PTLRGRPVlvgGLGGRGVVAGASYEARVFGARSAMPMHQARRLVGNGAVVLPPRFVVYRAASRRVFDTLRELspvVEQLs 104

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  78 -------PSE----EVPSVTvfghvynnqsvnlhnimhrrlvvgsQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGV 146
Cdd:PRK03348 105 fdeafvePAElagaSAEEVE-------------------------AFAERLRARVREETGLPASVGAGSGKQIAKIASGL 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 147 FKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAIAQRIQQLSFGEDKSP 226
Cdd:PRK03348 160 AKPDGIRVVPPGEERELLAPLP-VRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVANLLGATVGPALHRLARGIDDRP 238

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 575501584 227 VTPSGPPQSFSEEDTFKK-CSSEVEAKAKIEELLSSLLTRVCQDGRKPHTVRLVIRRY 283
Cdd:PRK03348 239 VAERAEAKQISAESTFAVdLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKS 296
PRK02794 PRK02794
DNA polymerase IV; Provisional
 4-242 2.18e-24

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 106.17  E-value: 2.18e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   4 NPELKDRPL--GVQQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGeDLSRYREMSYKVTEMVEK---RLQQLP 78
Cdd:PRK02794  55 NPELRDKPViiGGGKRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKP-DMEKYVRVGREVRAMMQAltpLVEPLS 133

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  79 SEEV---PSVTvfghvynnqsvnlhnimhRRL------VVGSQIAAEMREamynQLGLTGCAGVAPNKLLAKLVSGVFKP 149
Cdd:PRK02794 134 IDEAfldLSGT------------------ERLhgappaVVLARFARRVER----EIGITVSVGLSYNKFLAKIASDLDKP 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 150 NQQTVLLPESCQHLIHSlNHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGiAIAQRIQQLSFGEDKSPVTP 229
Cdd:PRK02794 192 RGFSVIGRAEALAFLAP-KPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRFG-SMGLRLWRLARGIDDRKVSP 269

                        250
                 ....*....|...
gi 575501584 230 SGPPQSFSEEDTF 242
Cdd:PRK02794 270 DREAKSVSAETTF 282
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 4-325 4.27e-24

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: 104.17  E-value: 4.27e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   4 NPELKDRPLGVqqkyL------VVTCNYEARKLGVRKLMNVRDAKEKCPQL-VLVNGEDLSRYREMSYKVTEMVEKRlqq 76
Cdd:cd01700   17 RPLLLGRPLVV----LsnndgcVIARSPEAKALGIKMGSPYFKVPDLLERHgVAVFSSNYALYGDMSRRIMSILERF--- 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  77 lpSEEVpsvtvfgHVYnnqSV--------NLHNIMHRRlvvgsQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFK 148
Cdd:cd01700   90 --SPDV-------EVY---SIdesfldltGSLRFGDLE-----ELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLAK 152

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 149 PNQQT----VLLPESCQHLIHSLNHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIaIAQRIQQLSFGEDK 224
Cdd:cd01700  153 KKNPYggvvDLTDEEVRDKLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGV-VGERLVRELNGIDC 231

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 225 SPVTPSGPP-QSFseedtfkkCSSE-----VEAKAKIEELLSSLLTRVC----QDGRKPHTVRLVIRrysdkhCNRESRQ 294
Cdd:cd01700  232 LPLEEYPPPkKSI--------GSSRsfgrdVTDLDELKQALAEYAERAAeklrRQKSVARTISVFIG------TSGFSRQ 297

                        330       340       350
                 ....*....|....*....|....*....|.
gi 575501584 295 CPIPSHViQKLGTGNHDSMppliDILMKLFR 325
Cdd:cd01700  298 PKYYSAT-NTLPYPTNDTR----EIVKAALR 323
PRK14133 PRK14133
DNA polymerase IV; Provisional
 4-244 7.68e-24

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 103.26  E-value: 7.68e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   4 NPELKDRPL---GVQQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGEdLSRYREMS-------YKVTEMVEkr 73
Cdd:PRK14133  22 NPKLKGKPVivgGISERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVR-HERYKEVSknifkilYEVTPIVE-- 98

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  74 lqqlpseevpSVTVfghvyNNQSVNLHNIMHRrlvvGSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQQT 153
Cdd:PRK14133  99 ----------PVSI-----DEAYLDITNIKEE----PIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGIK 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 154 VLLPESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEK---ELGIAIAQRIQqlsfGEDKSPVTPS 230
Cdd:PRK14133 160 IITEDMIPDILKPLP-ISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEyfgKFGVEIYERIR----GIDYREVEVS 234

                        250
                 ....*....|....
gi 575501584 231 GPPQSFSEEDTFKK 244
Cdd:PRK14133 235 RERKSIGKETTLKK 248
PRK01216 PRK01216
DNA polymerase IV; Validated
 2-229 1.82e-23

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 102.18  E-value: 1.82e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   2 ISNPELKDRPLGV-------QQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVlvngedlsrYREMSYKVTEMVEKRL 74
Cdd:PRK01216  18 VLNPSLKGKPVVVcvysgrfEDSGAVATANYEARKLGIKAGMPIVEAKKILPNAV---------YLPMRKEVYQQVSNRI 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  75 QQLPSE-----EVPSVT-----VFGHVYNNQSvnlhnimhrrlvvGSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVS 144
Cdd:PRK01216  89 MKLLREysekiEIASIDeayldISDKVKNYQD-------------AYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAA 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 145 GVFKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAIAQRIQQLSFGEDK 224
Cdd:PRK01216 156 DMAKPNGIKVIDDEEVKRFINELD-IADIPGIGDITAEKLKKLGVNKLVDTLRIEFDELKGIIGEAKAKYLFSLARNEYN 234


                 ....*
gi 575501584 225 SPVTP 229
Cdd:PRK01216 235 EPVRA 239
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 4-300 1.81e-22

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 100.08  E-value: 1.81e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   4 NPELKDRPLGV-----QQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGEdLSRYREMSYKVTEMVEkRLQQL- 77
Cdd:PRK03103  22 NPELKGRPVIVsgdpeRRSGVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVKPR-MQRYIDVSLQITRILE-DFTDLv 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  78 -P---SEEVPSVTvfghvynnQSVNLHnimhrrlvvGS--QIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVF---K 148
Cdd:PRK03103 100 ePfsiDEQFLDVT--------GSQKLF---------GSplEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACDNFakkN 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 149 PNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIaIAQRIQQLSFGEDKSPVT 228
Cdd:PRK03103 163 PDGLFTLDKEDVPADLWPLP-VRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGI-NGEVLWRTANGIDYSPVT 240

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 575501584 229 PSGPP--QSFSEEDTFKKCSSEVEakaKIEELLSSLLTRVCQDGRKPH----TVRLVIRRYSDKHCNRESRQCPIPSH 300
Cdd:PRK03103 241 PHSLDrqKAIGHQMTLPRDYRGFE---EIKVVLLELCEEVCRRARAKGymgrTVSVSLRGADFDWPTGFSRQMTLPEP 315
PRK03352 PRK03352
DNA polymerase IV; Validated
 5-299 1.04e-21

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 97.02  E-value: 1.04e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   5 PELKDRPLGV------QQKYLVVTC-NYEARKLGVRKLMNVRDAKEKCPQLVLVNgEDLSRYREMSykvtEMVEKRLQQL 77
Cdd:PRK03352  25 PELAGLPVIVggngdpTEPRKVVTCaSYEARAFGVRAGMPLRTAARRCPDAVFLP-SDPAAYDAAS----EEVMATLRDL 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  78 PseeVPsVTVFG--HVYnnqsvnlhnimhrrLVVGS----QIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQ 151
Cdd:PRK03352 100 G---VP-VEVWGwdEAF--------------LGVDTddpeALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKPAG 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 152 QTVLLPESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAIAQRIQQLSFGEDKSPVTpSG 231
Cdd:PRK03352 162 VFRLTDANWMAVMGDRP-TDALWGVGPKTAKRLAALGITTVADLAAADPAELAATFGPTTGPWLLLLARGGGDTEVS-AE 239

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 575501584 232 P--PQSFSEEDTFKK---CSSEVEakAKIEELLSSLLTRVCQDGRKPHTVRLVIrRYSDKHCNRESRQCPIPS 299
Cdd:PRK03352 240 PwvPRSRSREVTFPQdltDRAEVE--SAVRELARRVLDEVVAEGRPVTRVAVKV-RTATFYTRTKIRKLPEPT 309
PRK03858 PRK03858
DNA polymerase IV; Validated
 4-227 1.47e-20

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 94.28  E-value: 1.47e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   4 NPELKDRPL----GVqqkylVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNGEdLSRYREMSYKVTEmvekrlqqlps 79
Cdd:PRK03858  23 DPALRGRPVivggGV-----VLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPR-MSAYSRASKAVFE----------- 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  80 eevpsvtVFGH---VYNNQSVN--LHNIMHRRLVVG--SQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQQ 152
Cdd:PRK03858  86 -------VFRDttpLVEGLSIDeaFLDVGGLRRISGtpVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGL 158

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 575501584 153 TVLLPESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAIAQRIQQLSFGEDKSPV 227
Cdd:PRK03858 159 LVVPPDRELAFLHPLP-VRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVSLLGPAAGRHLHALAHNRDPRRV 232
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 4-195 5.35e-13

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 71.97  E-value: 5.35e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   4 NPELKDRPLGVQQKYLVVTCNYEARKLGVRKLMNVRDAKEKCPQLVLVNgEDLSRYREMSYKVTEMVekrlqqlpSEEVP 83
Cdd:PTZ00205 152 HPEYAAIPLAIGTMTMLQTANYVARGRGIRQGMPGFLALKICPNLLILP-PDFDAYNEESNTVRRIV--------AEYDP 222

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  84 SVTVFGHVYNNQSVNLHNIMHRRLVVGSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKPNQQTVL---LPESC 160
Cdd:PTZ00205 223 NYISFGLDELTLEVSAYIERFEGTKTAEDVASELRVRVFGETKLTASAGIGPTAALAKIASNINKPNGQHDLnlhTRGDV 302

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 575501584 161 QHLIHSLNhIKEIPGIGYKTAKRLEVLGINSVHDL 195
Cdd:PTZ00205 303 MTYVRDLG-LRSVPGVGKVTEALLKGLGITTLSDI 336
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 5-237 1.96e-09

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: 59.70  E-value: 1.96e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   5 PELKDRPLGV--QQKYLVVT-CNYEARKLGVRKLMNVRDAKEKCPQLVLV---------NGEDLSRyreMSYKVTEMVEK 72
Cdd:cd03468   18 PADDEAPLAVveRKKAGRILaCNAAARAAGVRPGMPLAEALALCPNLQVVeydpeadarALQELAL---WLLRFTPLVAL 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  73 RlqqlPSEEVpSVTVFGHVYNNQsvnlhnimhrrlvvGSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSgvFKPNQQ 152
Cdd:cd03468   95 D----GPDGL-LLDVTGCLHLFG--------------GEDALAASLRAALATLGLSARAGIADTPGAAWLLA--RAGGGR 153

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584 153 TVLLPESCQHLIHSLNH-IKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAIAQRIQQLsFGEDKSPVTPSG 231
Cdd:cd03468  154 GVLRREALAAALVLLAPlPVAALRLPPETVELLARLGLRTLGDLAALPRAELARRFGLALLLRLDQA-YGRDPEPLLFSP 232


                 ....*.
gi 575501584 232 PPQSFS 237
Cdd:cd03468  233 PPPAFD 238
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 233-346 4.46e-08

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: 51.41  E-value: 4.46e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  233 PQSFSEEDTF-KKCSSEVEAKAKIEELLSSLLTRVCQDGRKPHTVRLVIrRYSDKHcnRESRQCPIPSHViqklgtgnhD 311
Cdd:pfam11799   1 RKSIGAERTFgRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKI-RYSDFR--TITRSVTLPSPT---------D 68

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 575501584  312 SMPPLIDILMKLFRNMVNvkmPFHLTLMSVCFCNL 346
Cdd:pfam11799  69 DTDEIYRAALRLLRRLYR---GRPVRLLGVSLSNL 100
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
5-222 9.29e-08

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 54.77  E-value: 9.29e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584   5 PELKDRPLGV--QQKYLVVTCNYEARKLGVR---KLMNVRDAKEKCPQLVLVNGEDLsrYREMSYKVTEMVEkrlqqlps 79
Cdd:PRK03609  20 PDLRGKPVVVlsNNDGCVIARSAEAKALGIKmgdPWFKQKDLFRRCGVVCFSSNYEL--YADMSNRVMSTLE-------- 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 575501584  80 EEVPSVTVFGhvYNNQSVNLHNIMHRRLVvgSQIAAEMREAMYNQLGLTGCAGVAPNKLLAKLVSGVFKP-NQQT---VL 155
Cdd:PRK03609  90 ELSPRVEIYS--IDEAFCDLTGVRNCRDL--TDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKwQRQTggvVD 165

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 575501584 156 L--PESCQHLIhSLNHIKEIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEKELGIAIAQRIQQLSfGE 222
Cdd:PRK03609 166 LsnLERQRKLL-SLQPVEEVWGVGRRISKKLNAMGIKTALDLADTNIRFIRKHFNVVLERTVRELR-GE 232
IMS_HHH pfam11798
IMS family HHH motif; These proteins are involved in UV protection, eg.
 157-189 1.11e-05

IMS family HHH motif; These proteins are involved in UV protection, eg.


Pssm-ID: 432081 [Multi-domain]  Cd Length: 32  Bit Score: 42.38  E-value: 1.11e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 575501584  157 PESCQHLIHSLNhIKEIPGIGYKTAKRLEVLGI 189
Cdd:pfam11798   1 PDDVPEFLWPLP-ISKIPGIGKKLAEKLKALGI 32
HHH_5 pfam14520
Helix-hairpin-helix domain;
172-215 7.07e-04

Helix-hairpin-helix domain;


Pssm-ID: 434010 [Multi-domain]  Cd Length: 57  Bit Score: 37.85  E-value: 7.07e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 575501584  172 EIPGIGYKTAKRLEVLGINSVHDLQTFPIKTLEK--ELGIAIAQRI 215
Cdd:pfam14520   6 SISGIGPKTALALLSAGIGTVEDLAEADVDELAEipGIGEKTAQRI 51
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 613-641 6.19e-03

Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, the second ubiquitin-binding motif of Rev1, a DNA damage tolerance protein. Rev1 acts as a translesion synthesis (TLS) DNA polymerase and may also recruit other TLS polymerases to the site of DNA damage; in that process the UBMs are essential for Rev1 function, triggering TLS activation via recognition of ubiquitin moieties in PCNA, the proliferating cell nuclear antigen.


Pssm-ID: 412037  Cd Length: 36  Bit Score: 34.89  E-value: 6.19e-03
                         10        20
                 ....*....|....*....|....*....
gi 575501584 613 LPFPPDIDPQVFYELPEEVQKELMAEWER 641
Cdd:cd19318    6 LPSFSQVDPSVLAALPPDLQEELEAAYAQ 34
 
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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