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Conserved domains on  [gi|1192732408|ref|NP_001338539|]
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DNA polymerase iota isoform b [Homo sapiens]

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 ...
 39-395 2.21e-168

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: 487.75  E-value: 2.21e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  39 GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSP--VVERLGFDENFVDLT 116
Cdd:cd01703    26 GIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLRSYSWndRVERLGFDENFMDVT 105

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 117 EMvekrlqqlqsdelsavtvsghvynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVF 196
Cdd:cd01703   106 EM------------------------------------RLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVN 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 197 KPNQQTVLLPESCQHLI--HSLNHIKEIPGIGYKTAKCLEALGINSVRDLQTFSP---------------KILEKELGIS 259
Cdd:cd01703   150 KPNQQTTLLPPSCADLMdfMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEG 229

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 260 VAQRIQKLSFGEDNSPVI-LSGPPQSFSEEDSFKKCSSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLI 328
Cdd:cd01703   230 IGQRIWKLLFGRDTSPVKpASDFPQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLT 309

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 329 IRRYSSEKH-YGRESRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 395
Cdd:cd01703   310 LRRYTSTKKhYNRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
Rev1_UBM2 super family cl41665
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 663-688 4.34e-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: 35.28  E-value: 4.34e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192732408 663 PSDIDPQVFYELPEAVQKELLAEWKR 688
Cdd:cd19318     9 FSQVDPSVLAALPPDLQEELEAAYAQ 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. ...
 39-395 2.21e-168

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: 487.75  E-value: 2.21e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  39 GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSP--VVERLGFDENFVDLT 116
Cdd:cd01703    26 GIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLRSYSWndRVERLGFDENFMDVT 105

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 117 EMvekrlqqlqsdelsavtvsghvynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVF 196
Cdd:cd01703   106 EM------------------------------------RLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVN 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 197 KPNQQTVLLPESCQHLI--HSLNHIKEIPGIGYKTAKCLEALGINSVRDLQTFSP---------------KILEKELGIS 259
Cdd:cd01703   150 KPNQQTTLLPPSCADLMdfMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEG 229

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 260 VAQRIQKLSFGEDNSPVI-LSGPPQSFSEEDSFKKCSSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLI 328
Cdd:cd01703   230 IGQRIWKLLFGRDTSPVKpASDFPQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLT 309

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 329 IRRYSSEKH-YGRESRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 395
Cdd:cd01703   310 LRRYTSTKKhYNRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 46-331 2.39e-61

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 208.46  E-value: 2.39e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMvekrlqq 125
Cdd:COG0389    39 VAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTGS------- 110

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 126 lqsdelsavtvsghvynnqsinlldvlhiRLLVGS--QIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTV 203
Cdd:COG0389   111 -----------------------------ARLFGSaeAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTV 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 204 LLPESCQHLIHSLnHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQ 283
Cdd:COG0389   162 IPPGEVAAFLAPL-PVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRK 239

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1192732408 284 SFSEEDSFKKcssEVEAKNKIEELLASLLNRVC----QDGRKPHTVRLIIRR 331
Cdd:COG0389   240 SIGVERTFGE---DLTDLEELEAALRRLAERLAerlrRQGLGARTVTVKLRT 288
PRK02406 PRK02406
DNA polymerase IV; Validated
 31-325 1.61e-44

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 162.98  E-value: 1.61e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  31 VGAAASSQGVqqkylVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDE 110
Cdd:PRK02406   23 VGGSPGRRGV-----ISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPG-RFDVYKEVSRQIREIFRRYTDLIEPLSLDE 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 111 NFVDLTEmvEKRLQQlqsdelSAVTvsghvynnqsinlldvlhirllvgsqIAAEMREAMYNQLGLTGCAGVASNKLLAK 190
Cdd:PRK02406   97 AYLDVTD--NKLCIG------SATL--------------------------IAQEIRQDIFEELGLTASAGVAPNKFLAK 142

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 191 LVSGVFKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFG 270
Cdd:PRK02406  143 IASDWNKPNGLFVITPEEVDAFLATLP-VEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARG 220

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1192732408 271 EDNSPVILSGPPQSFSEEDSFKK-CSSEVEAKNKIEEL---LASLLNRVcQDGRKPHTV 325
Cdd:PRK02406  221 IDERPVKPDRERKSVGVERTFAEdLYDLEACLAELPRLaekLERRLERA-KPDKRIKTV 278
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 46-193 1.10e-31

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 120.37  E-value: 1.10e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPV-VERLGFDENFVDLTEMVEkrlq 124
Cdd:pfam00817  34 VAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKIFEILRRFSTPkVEQASIDEAFLDLTGLEK---- 108

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1192732408 125 qlqsdelsavtvsghvynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVS 193
Cdd:pfam00817 109 ------------------------------LFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
TIGR03491 TIGR03491
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ...
 218-283 2.08e-04

RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.


Pssm-ID: 274603 [Multi-domain]  Cd Length: 457  Bit Score: 44.24  E-value: 2.08e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 218 HIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEK--ELGISVAQRIQK--LSFGEdNSPVILSGPPQ 283
Cdd:TIGR03491 208 HLSLVPGIGPSRYRLLQELGIHTLEDLAAADPNDLEDfgEQGLGVAEQLVQqaRAQLE-GRPILLAPPKA 276
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 663-688 4.34e-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: 35.28  E-value: 4.34e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192732408 663 PSDIDPQVFYELPEAVQKELLAEWKR 688
Cdd:cd19318     9 FSQVDPSVLAALPPDLQEELEAAYAQ 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. ...
 39-395 2.21e-168

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: 487.75  E-value: 2.21e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  39 GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSP--VVERLGFDENFVDLT 116
Cdd:cd01703    26 GIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLRSYSWndRVERLGFDENFMDVT 105

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 117 EMvekrlqqlqsdelsavtvsghvynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVF 196
Cdd:cd01703   106 EM------------------------------------RLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVN 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 197 KPNQQTVLLPESCQHLI--HSLNHIKEIPGIGYKTAKCLEALGINSVRDLQTFSP---------------KILEKELGIS 259
Cdd:cd01703   150 KPNQQTTLLPPSCADLMdfMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEG 229

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 260 VAQRIQKLSFGEDNSPVI-LSGPPQSFSEEDSFKKCSSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLI 328
Cdd:cd01703   230 IGQRIWKLLFGRDTSPVKpASDFPQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLT 309

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 329 IRRYSSEKH-YGRESRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 395
Cdd:cd01703   310 LRRYTSTKKhYNRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 39-394 1.02e-106

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: 327.78  E-value: 1.02e-106
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  39 GVQQKY----LVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVD 114
Cdd:cd00424    26 VVVPFNsdstCVIACSYEARKYGVKRGMPVREARKMCPNLILVP-ARLDLYRRLSERLLSELEEVAPLVEVASIDELFLD 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 115 LTEMVEKrlqqlqsdelsavtvsghvynnqsinlldvlhirLLVGSQIAAEMREAMYNQLG-LTGCAGVASNKLLAKLVS 193
Cdd:cd00424   105 LTGSARL----------------------------------LGLGSEVALRIKRHIAEQLGgITASIGIASNKLLAKLAA 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 194 GVFKPNQQTVLLPESCQHLIhSLNHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDN 273
Cdd:cd00424   151 KYAKPDGLTILDPEDLPGFL-SKLPLTDLPGIGAVTAKRLEAVGINPIGDLLAASPDALLALWGGVSGERLWYALRGIDD 229

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 274 SPVILSGPPQSFSEEDSFKKCSSEVE-AKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYSSE--KHYGRESRQCPIPSH 350
Cdd:cd00424   230 EPLSPPRPRKSFSHERVLPRDSRNAEdARPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDGRwsGHADIPSRSAPRPIS 309

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 1192732408 351 ViqklgtgnydVMTPMVDILMKLFRNMVNVKMPFHLTLLSVCFC 394
Cdd:cd00424   310 T----------EDGELLHALDKLWRALLDDKGPRRLRRLGVRLS 343
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 46-351 2.12e-62

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: 211.23  E-value: 2.12e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDltemvekrlqq 125
Cdd:cd03586    36 VSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPP-RFDKYREVSRQIMEILREYTPLVEPLSIDEAYLD----------- 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 126 lqsdelsavtVSGHVYNNQSInlldvlhirllvgSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLL 205
Cdd:cd03586   104 ----------VTDYVRLFGSA-------------TEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVIP 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 206 PESCQHLIHSLnHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSF 285
Cdd:cd03586   161 PEDVEEFLAPL-PVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFG-KSGRRLYELARGIDNRPVEPDRERKSI 238

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1192732408 286 SEEDSF-KKCSSEVEAKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYSSEKHygreSRQCPIPSHV 351
Cdd:cd03586   239 GVERTFsEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTR----TRSRTLPEPT 301
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 46-331 2.39e-61

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 208.46  E-value: 2.39e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMvekrlqq 125
Cdd:COG0389    39 VAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTGS------- 110

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 126 lqsdelsavtvsghvynnqsinlldvlhiRLLVGS--QIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTV 203
Cdd:COG0389   111 -----------------------------ARLFGSaeAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTV 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 204 LLPESCQHLIHSLnHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQ 283
Cdd:COG0389   162 IPPGEVAAFLAPL-PVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRK 239

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1192732408 284 SFSEEDSFKKcssEVEAKNKIEELLASLLNRVC----QDGRKPHTVRLIIRR 331
Cdd:COG0389   240 SIGVERTFGE---DLTDLEELEAALRRLAERLAerlrRQGLGARTVTVKLRT 288
PRK02406 PRK02406
DNA polymerase IV; Validated
 31-325 1.61e-44

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 162.98  E-value: 1.61e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  31 VGAAASSQGVqqkylVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDE 110
Cdd:PRK02406   23 VGGSPGRRGV-----ISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPG-RFDVYKEVSRQIREIFRRYTDLIEPLSLDE 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 111 NFVDLTEmvEKRLQQlqsdelSAVTvsghvynnqsinlldvlhirllvgsqIAAEMREAMYNQLGLTGCAGVASNKLLAK 190
Cdd:PRK02406   97 AYLDVTD--NKLCIG------SATL--------------------------IAQEIRQDIFEELGLTASAGVAPNKFLAK 142

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 191 LVSGVFKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFG 270
Cdd:PRK02406  143 IASDWNKPNGLFVITPEEVDAFLATLP-VEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARG 220

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1192732408 271 EDNSPVILSGPPQSFSEEDSFKK-CSSEVEAKNKIEEL---LASLLNRVcQDGRKPHTV 325
Cdd:PRK02406  221 IDERPVKPDRERKSVGVERTFAEdLYDLEACLAELPRLaekLERRLERA-KPDKRIKTV 278
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 50-395 5.45e-42

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: 156.32  E-value: 5.45e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  50 NYEARKLGVKKLMNVRDAKEKCPQLVLV------NGED----------------LTRYREMSYKVTELLEEFSPVVERLG 107
Cdd:cd01702    37 SYAARAFGVTRFMTIDEAKKKCPDLILAhvatykKGEDeadyhenpsparhkvsLDPYRRASRKILNILKRFGDVVEKAS 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 108 FDENFVDLtemvekrlqqlqsdelsavtvsghvynnqsinlldvlhirllvGSQIAAEMREAMYNQLGLTGCAGVASNKL 187
Cdd:cd01702   117 IDEAYLDL-------------------------------------------GSRIVEEIRQQVYDELGYTCSAGIAHNKM 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 188 LAKLVSGVFKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKCL-EALGINSVRDLQTF--SPKILEKELGISVAQRI 264
Cdd:cd01702   154 LAKLASGMNKPNAQTILRNDAVASFLSSLP-ITSIRGLGGKLGEEIiDLLGLPTEGDVAGFrsSESDLQEHFGEKLGEWL 232

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 265 QKLSFGEDNSPVILSGPPQSFSEEDSF--KKCSSEVEAKNKIEELLASLLNRVCQD----GRKPHTVRLiirRYSSEKHY 338
Cdd:cd01702   233 YNLLRGIDHEPVKPRPLPKSMGSSKNFpgKTALSTEDVQHWLLVLASELNSRLEDDryenNRRPKTLVL---SLRQRGDG 309

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1192732408 339 GRESRQCPIPSHVIQKLgtgnydvMTPMVDILMKLFRNMVNVKMPFHLTLLSVCFCN 395
Cdd:cd01702   310 VRRSRSCALPRYDAQKI-------VKDAFKLIKAINEEGLGLAWNYPLTLLSLSFTK 359
PRK01810 PRK01810
DNA polymerase IV; Validated
 41-340 2.10e-36

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 141.71  E-value: 2.10e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  41 QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVE 120
Cdd:PRK01810   40 ERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRR-PNFDRYREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYA 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 121 KrlqqlqsdelsavtvsGHVYnnqsinlldvlhirllvgsQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQ 200
Cdd:PRK01810  119 L----------------GSPL-------------------EIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLG 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 201 QTVLLPESCQHLIHSLnHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISvAQRIQKLSFGEDNSPVilsg 280
Cdd:PRK01810  164 ITVLRKRDVPEMLWPL-PVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGIN-GVRLQRRANGIDDRPV---- 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1192732408 281 PPQSFSEEDS------FKKCSSEV-EAKNKIEELLASLLNRVCQDGRKPHTVRLIIrRYSSEKHYGR 340
Cdd:PRK01810  238 DPEAIYQFKSvgnsttLSHDMDEEkELLDVLRRLSKSVSKRLQKKTVVSYNVQIMI-RYHDRRTITR 303
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 46-193 1.10e-31

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 120.37  E-value: 1.10e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPV-VERLGFDENFVDLTEMVEkrlq 124
Cdd:pfam00817  34 VAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKIFEILRRFSTPkVEQASIDEAFLDLTGLEK---- 108

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1192732408 125 qlqsdelsavtvsghvynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVS 193
Cdd:pfam00817 109 ------------------------------LFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
PRK03348 PRK03348
DNA polymerase IV; Provisional
 46-332 2.69e-31

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 127.74  E-value: 2.69e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEmvekrlqq 125
Cdd:PRK03348   43 VAGASYEARVFGARSAMPMHQARRLVGNGAVVLPPRFVVYRAASRRVFDTLRELSPVVEQLSFDEAFVEPAE-------- 114

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 126 LQSDELSAVTvsghvynnqsinlldvlhirllvgsQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLL 205
Cdd:PRK03348  115 LAGASAEEVE-------------------------AFAERLRARVREETGLPASVGAGSGKQIAKIASGLAKPDGIRVVP 169

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 206 PESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSF 285
Cdd:PRK03348  170 PGEERELLAPLP-VRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVANLLGATVGPALHRLARGIDDRPVAERAEAKQI 248

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*...
gi 1192732408 286 SEEDSFKK-CSSEVEAKNKIEELLASLLNRVCQDGRKPHTVRLIIRRY 332
Cdd:PRK03348  249 SAESTFAVdLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKS 296
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 49-331 3.00e-30

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: 123.58  E-value: 3.00e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  49 CNYEARKLGVKKLMNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEkrlqqlqs 128
Cdd:cd01701    89 CNYEARSYGIKNGMWVGQAKKLCPQLVTL-PYDFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLE-------- 159

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 129 delsavtvsghvynnQSINLLDVLhirllvGSQIAAEMREAmynqlglTGC---AGVASNKLLAKLVSGVFKPNQQTVLL 205
Cdd:cd01701   160 ---------------ETYELPEEL------AEAIRNEIRET-------TGCsasVGIGPNILLARLATRKAKPDGQYHLS 211

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 206 PESCQHLIHSLNhIKEIPGIGYKTA-KCLEALG-INSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQ 283
Cdd:cd01701   212 AEKVEEFLSQLK-VGDLPGVGSSLAeKLVKLFGdTCGGLELRSKTKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERK 290

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1192732408 284 SFSEEDS----FKKcssEVEAKNKIEELLASLLNRVCQDGRKPHTVRL-IIRR 331
Cdd:cd01701   291 SVSAEINygirFTN---VDDVEQFLQRLSEELSKRLEESNVTGRQITLkLMKR 340
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 43-355 4.57e-29

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: 118.80  E-value: 4.57e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  43 KYLVV-----TC----NYEARKLGVKKLMNVRDAKEKCPQL-VLVNGEDLTRYREMSYKVTELLEEFSPVVERLGFDENF 112
Cdd:cd01700    23 RPLVVlsnndGCviarSPEAKALGIKMGSPYFKVPDLLERHgVAVFSSNYALYGDMSRRIMSILERFSPDVEVYSIDESF 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 113 VDLTemvekrlqqlqsdelsavtvsgHVYNNQSINlldvlhirllvgsQIAAEMREAMYNQLGLTGCAGVASNKLLAKLV 192
Cdd:cd01700   103 LDLT----------------------GSLRFGDLE-------------ELARKIRRRILQETGIPVTVGIGPTKTLAKLA 147

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 193 SGVFKPNQQT----VLLPESCQHLIHSLNHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGIsVAQRIQKLS 268
Cdd:cd01700   148 NDLAKKKNPYggvvDLTDEEVRDKLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGV-VGERLVREL 226

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 269 FGEDNSPVILSGPP-QSFSEEDSFKKcssEVEAKNKIEELLASLLNRVC----QDGRKPHTVRLIIR--RYSSEKHYGRE 341
Cdd:cd01700   227 NGIDCLPLEEYPPPkKSIGSSRSFGR---DVTDLDELKQALAEYAERAAeklrRQKSVARTISVFIGtsGFSRQPKYYSA 303

                         330
                  ....*....|....
gi 1192732408 342 SRQCPIPSHVIQKL 355
Cdd:cd01700   304 TNTLPYPTNDTREI 317
PRK14133 PRK14133
DNA polymerase IV; Provisional
 39-337 4.13e-26

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 110.19  E-value: 4.13e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  39 GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEdLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEM 118
Cdd:PRK14133   34 GISERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVR-HERYKEVSKNIFKILYEVTPIVEPVSIDEAYLDITNI 112

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 119 VEKrlqqlqsdelsavtvsghvynnqsinlldvlhirllvGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKP 198
Cdd:PRK14133  113 KEE-------------------------------------PIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKP 155

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 199 NQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEK---ELGISVAQRIQklsfGEDNSP 275
Cdd:PRK14133  156 DGIKIITEDMIPDILKPLP-ISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEyfgKFGVEIYERIR----GIDYRE 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1192732408 276 VILSGPPQSFSEEDSFKKcssEVEAKNKIEELLASLLNRVCQDGRKPH----TVRLIIRRYSSEKH 337
Cdd:PRK14133  231 VEVSRERKSIGKETTLKK---DTKDKEELKKYLKDFSNIISEELKKRNlygkTVTVKIKTSDFQTH 293
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 51-350 1.21e-24

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 107.01  E-value: 1.21e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  51 YEARKLGVKKLMNVRDAKEKCPQLVLVNGEdLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTemvekrlqqlqsde 130
Cdd:PRK03103   48 PLAKAYGVKTAERLWEAQQKCPDLVVVKPR-MQRYIDVSLQITRILEDFTDLVEPFSIDEQFLDVT-------------- 112

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 131 lsavtvsghvynnqsinlldvlHIRLLVGS--QIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVF---KPNQQTVLL 205
Cdd:PRK03103  113 ----------------------GSQKLFGSplEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACDNFakkNPDGLFTLD 170

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 206 PESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGIsVAQRIQKLSFGEDNSPVilsgPPQSF 285
Cdd:PRK03103  171 KEDVPADLWPLP-VRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGI-NGEVLWRTANGIDYSPV----TPHSL 244

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1192732408 286 SEEDSFKKCSS---EVEAKNKIEELLASLLNRVCQDGRKPH----TVRLIIRrySSEKHYGRE-SRQCPIPSH 350
Cdd:PRK03103  245 DRQKAIGHQMTlprDYRGFEEIKVVLLELCEEVCRRARAKGymgrTVSVSLR--GADFDWPTGfSRQMTLPEP 315
PRK01216 PRK01216
DNA polymerase IV; Validated
 46-276 5.40e-24

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 104.10  E-value: 5.40e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTrYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKrlqq 125
Cdd:PRK01216   43 VATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEV-YQQVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKN---- 117

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 126 lqsdelsavtvsghvyNNQSINLldvlhirllvgsqiAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLL 205
Cdd:PRK01216  118 ----------------YQDAYNL--------------GLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVID 167

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1192732408 206 PESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPV 276
Cdd:PRK01216  168 DEEVKRFINELD-IADIPGIGDITAEKLKKLGVNKLVDTLRIEFDELKGIIGEAKAKYLFSLARNEYNEPV 237
PRK03858 PRK03858
DNA polymerase IV; Validated
 46-396 9.08e-24

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 104.30  E-value: 9.08e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEdLTRYREMSYKVTELLEEFSPVVERLGFDENFVDltemvekrlqq 125
Cdd:PRK03858   38 VLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPR-MSAYSRASKAVFEVFRDTTPLVEGLSIDEAFLD----------- 105

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 126 lqsdelsavtVSGhvynnqsinlldvlhIRLLVG--SQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTV 203
Cdd:PRK03858  106 ----------VGG---------------LRRISGtpVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLLV 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 204 LLPESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQ 283
Cdd:PRK03858  161 VPPDRELAFLHPLP-VRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVSLLGPAAGRHLHALAHNRDPRRVETGRRRR 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 284 SFSEEDSF-KKCSSEVEaknkIEELLASLLNRVCQDGRKPH------TVRLiirRYSSekhYGRESRqcpipSHVIqklg 356
Cdd:PRK03858  240 SVGAQRALgRGPNSPAE----VDAVVVALVDRVARRMRAAGrtgrtvVLRL---RFDD---FTRATR-----SHTL---- 300

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 1192732408 357 tgnyDVMTPMVDILMKLFRNMVNVKMPFH----LTLLSVCFCNL 396
Cdd:PRK03858  301 ----PRPTASTATLLAAARDLVAAAAPLIaergLTLVGFAVSNL 340
PRK02794 PRK02794
DNA polymerase IV; Provisional
 46-291 5.59e-23

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 101.93  E-value: 5.59e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDL--TEmvekRL 123
Cdd:PRK02794   73 VSTACYIARIHGVRSAMPMFKALKLCPDAVVIKP-DMEKYVRVGREVRAMMQALTPLVEPLSIDEAFLDLsgTE----RL 147

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 124 QqlqsDELSAVTVSghvynnqsinlldvlhiRLlvgsqiAAEMREamynQLGLTGCAGVASNKLLAKLVSGVFKPNQQTV 203
Cdd:PRK02794  148 H----GAPPAVVLA-----------------RF------ARRVER----EIGITVSVGLSYNKFLAKIASDLDKPRGFSV 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 204 LLPESCQHLIHSlNHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQ 283
Cdd:PRK02794  197 IGRAEALAFLAP-KPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRFG-SMGLRLWRLARGIDDRKVSPDREAK 274


                  ....*...
gi 1192732408 284 SFSEEDSF 291
Cdd:PRK02794  275 SVSAETTF 282
PRK03352 PRK03352
DNA polymerase IV; Validated
 46-330 7.80e-23

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 100.48  E-value: 7.80e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTC-NYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVdltemvekrlq 124
Cdd:PRK03352   46 VVTCaSYEARAFGVRAGMPLRTAARRCPDAVFLP-SDPAAYDAASEEVMATLRDLGVPVEVWGWDEAFL----------- 113

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 125 qlqsdelsAVTVSGHVynnqsinlldvlhirllvgsQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVL 204
Cdd:PRK03352  114 --------GVDTDDPE--------------------ALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKPAGVFRL 165

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 205 LPESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVIlSGP--P 282
Cdd:PRK03352  166 TDANWMAVMGDRP-TDALWGVGPKTAKRLAALGITTVADLAAADPAELAATFGPTTGPWLLLLARGGGDTEVS-AEPwvP 243

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1192732408 283 QSFSEEDSFKK---CSSEVEAknKIEELLASLLNRVCQDGRKPHTVRLIIR 330
Cdd:PRK03352  244 RSRSREVTFPQdltDRAEVES--AVRELARRVLDEVVAEGRPVTRVAVKVR 292
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
46-271 1.30e-11

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 67.10  E-value: 1.30e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  46 VVTCNYEARKLGVK---KLMNVRDAKEKCPQLVLVNGEDLtrYREMSYKVTELLEEFSPVVERLGFDENFVDLTemvekr 122
Cdd:PRK03609   37 VIARSAEAKALGIKmgdPWFKQKDLFRRCGVVCFSSNYEL--YADMSNRVMSTLEELSPRVEIYSIDEAFCDLT------ 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 123 lqqlqsdelsavtvsghvynnqsinllDVLHIRLLvgSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKP-NQQ 201
Cdd:PRK03609  109 ---------------------------GVRNCRDL--TDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKwQRQ 159

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1192732408 202 T---VLL--PESCQHLIhSLNHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSfGE 271
Cdd:PRK03609  160 TggvVDLsnLERQRKLL-SLQPVEEVWGVGRRISKKLNAMGIKTALDLADTNIRFIRKHFNVVLERTVRELR-GE 232
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 40-337 5.63e-11

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 65.81  E-value: 5.63e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  40 VQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMV 119
Cdd:PTZ00205  162 IGTMTMLQTANYVARGRGIRQGMPGFLALKICPNLLILP-PDFDAYNEESNTVRRIVAEYDPNYISFGLDELTLEVSAYI 240

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 120 EkRLQQLQSDElsavtvsghvynnqsinlldvlhirllvgsQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPN 199
Cdd:PTZ00205  241 E-RFEGTKTAE------------------------------DVASELRVRVFGETKLTASAGIGPTAALAKIASNINKPN 289

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 200 QQTVL---LPESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDLQT--------FSPKILEKELGISVAqrIQKL- 267
Cdd:PTZ00205  290 GQHDLnlhTRGDVMTYVRDLG-LRSVPGVGKVTEALLKGLGITTLSDIYNrrvelcyiLHNNLFRFLLGASIG--IMQWp 366

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1192732408 268 ----SFGEDNSPVILSGPPQSFSEEDSFKKcsseVEAKNKIEELLASLLNRVCQDGRKPH----TVRLIIrRYSSEKH 337
Cdd:PTZ00205  367 daatAANTENCEGATGGQRKAISSERSFTT----PRTKEGLQEMVDTVFNGAYEEMRKSElmcrQISLTI-RWASYRY 439
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 41-286 1.78e-07

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: 53.54  E-value: 1.78e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408  41 QQKYLVVT-CNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDltemv 119
Cdd:cd03468    30 RKKAGRILaCNAAARAAGVRPGMPLAEALALCPNLQVVE-YDPEADARALQELALWLLRFTPLVALDGPDGLLLD----- 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 120 ekrlqqlqsdelsaVTVSGHVYNNQsINLLDVLHIRLLVgsqiaaemreamynqLGLTGCAGVASNKLLAKLVSgvFKPN 199
Cdd:cd03468   104 --------------VTGCLHLFGGE-DALAASLRAALAT---------------LGLSARAGIADTPGAAWLLA--RAGG 151

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 200 QQTVLLPESCQHLIHSLNH-IKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLsFGEDNSPVIL 278
Cdd:cd03468   152 GRGVLRREALAAALVLLAPlPVAALRLPPETVELLARLGLRTLGDLAALPRAELARRFGLALLLRLDQA-YGRDPEPLLF 230


                  ....*...
gi 1192732408 279 SGPPQSFS 286
Cdd:cd03468   231 SPPPPAFD 238
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 282-396 1.45e-06

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: 47.17  E-value: 1.45e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 282 PQSFSEEDSF-KKCSSEVEAKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYssekHYGRESRQCPIPSHviqklgTGNY 360
Cdd:pfam11799   1 RKSIGAERTFgRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYS----DFRTITRSVTLPSP------TDDT 70

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1192732408 361 DVMTpmvDILMKLFRNMVNvkmPFHLTLLSVCFCNL 396
Cdd:pfam11799  71 DEIY---RAALRLLRRLYR---GRPVRLLGVSLSNL 100
TIGR03491 TIGR03491
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ...
 218-283 2.08e-04

RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.


Pssm-ID: 274603 [Multi-domain]  Cd Length: 457  Bit Score: 44.24  E-value: 2.08e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732408 218 HIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEK--ELGISVAQRIQK--LSFGEdNSPVILSGPPQ 283
Cdd:TIGR03491 208 HLSLVPGIGPSRYRLLQELGIHTLEDLAAADPNDLEDfgEQGLGVAEQLVQqaRAQLE-GRPILLAPPKA 276
IMS_HHH pfam11798
IMS family HHH motif; These proteins are involved in UV protection, eg.
 206-238 2.53e-04

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


Pssm-ID: 432081 [Multi-domain]  Cd Length: 32  Bit Score: 38.53  E-value: 2.53e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1192732408 206 PESCQHLIHSLNhIKEIPGIGYKTAKCLEALGI 238
Cdd:pfam11798   1 PDDVPEFLWPLP-ISKIPGIGKKLAEKLKALGI 32
HHH_5 pfam14520
Helix-hairpin-helix domain;
221-264 1.59e-03

Helix-hairpin-helix domain;


Pssm-ID: 434010 [Multi-domain]  Cd Length: 57  Bit Score: 37.08  E-value: 1.59e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1192732408 221 EIPGIGYKTAKCLEALGINSVRDLQTFSPKILEK--ELGISVAQRI 264
Cdd:pfam14520   6 SISGIGPKTALALLSAGIGTVEDLAEADVDELAEipGIGEKTAQRI 51
radA PRK04301
DNA repair and recombination protein RadA; Validated
 219-266 3.84e-03

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 39.86  E-value: 3.84e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1192732408 219 IKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGIS--VAQRIQK 266
Cdd:PRK04301    8 LEDLPGVGPATAEKLREAGYDTVEAIAVASPKELSEAAGIGesTAAKIIE 57
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 663-688 4.34e-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: 35.28  E-value: 4.34e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192732408 663 PSDIDPQVFYELPEAVQKELLAEWKR 688
Cdd:cd19318     9 FSQVDPSVLAALPPDLQEELEAAYAQ 34
RecG COG1200
RecG-like helicase [Replication, recombination and repair];
219-244 7.92e-03

RecG-like helicase [Replication, recombination and repair];


Pssm-ID: 440813 [Multi-domain]  Cd Length: 684  Bit Score: 39.65  E-value: 7.92e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192732408 219 IKEIPGIGYKTAKCLEALGINSVRDL 244
Cdd:COG1200     8 LTYLKGVGPKRAKLLAKLGIRTVGDL 33
PRK10917 PRK10917
ATP-dependent DNA helicase RecG; Provisional
 219-244 8.04e-03

ATP-dependent DNA helicase RecG; Provisional


Pssm-ID: 236794 [Multi-domain]  Cd Length: 681  Bit Score: 39.36  E-value: 8.04e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192732408 219 IKEIPGIGYKTAKCLEALGINSVRDL 244
Cdd:PRK10917   11 LTSLKGVGPKTAEKLAKLGIHTVQDL 36
 
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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