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Conserved domains on  [gi|1958782412|ref|XP_038967916|]
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DNA polymerase epsilon subunit 2 isoform X2 [Rattus norvegicus]

Protein Classification

DNA polymerase alpha/epsilon subunit B( domain architecture ID 10513200)

DNA polymerase alpha/epsilon subunit B such as the B subunit of DNA polymerase alpha and the B subunit of DNA polymerase epsilon, which are accessory subunits of their respective DNA polymerase complexes that play roles in DNA replication

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DNA_pol_E_B pfam04042
DNA polymerase alpha/epsilon subunit B; This family contains a number of DNA polymerase ...
 227-429 9.57e-44

DNA polymerase alpha/epsilon subunit B; This family contains a number of DNA polymerase subunits. The B subunit of the DNA polymerase alpha plays an essential role at the initial stage of DNA replication in S. cerevisiae and is phosphorylated in a cell cycle-dependent manner. DNA polymerase epsilon is essential for cell viability and chromosomal DNA replication in budding yeast. In addition, DNA polymerase epsilon may be involved in DNA repair and cell-cycle checkpoint control. The enzyme consists of at least four subunits in mammalian cells as well as in yeast. The largest subunit of DNA polymerase epsilon is responsible for polymerase epsilon is responsible for polymerase activity. In mouse, the DNA polymerase epsilon subunit B is the second largest subunit of the DNA polymerase. A part of the N-terminal was found to be responsible for the interaction with SAP18. Experimental evidence suggests that this subunit may recruit histone deacetylase to the replication fork to modify the chromatin structure.


:

Pssm-ID: 461142  Cd Length: 210  Bit Score: 152.85  E-value: 9.57e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 227 FVIVSDVWLDQ-VQVLEKLHVMFSGY-SPAPPTCFILCGNFSSAPY-----GKNQVQALK---DSLKSLADIIceyPSIH 296
Cdd:pfam04042   1 IVFASGLYLDSdNLSLEALRDLLDGYnEDSPPDRLILAGPFLDSKHnliasGAVAGDTLTynfLFLKLLLSIL---EQLL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 297 QSSRFVFVPGPEDPGFGSILPRPPLAESITQEFRQRVPFsVFTTNPCRIQYCTQEIIIFREDLVNKMCRNCVRFPSSSLD 376
Cdd:pfam04042  78 EKTPVILVPGPNDPANSTVLPQPPFPRCLLPRIKKNNSL-IFVTNPCRFSINGVEVVVTSGDNVSDLLRYELKFSSSDVD 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1958782412 377 IPTHFVKTVLSQGHLAPL-PLYVSPVYWAYDYTLRVYPVPDLLVIADKYDPFTV 429
Cdd:pfam04042 157 RFLRLVETILRQRHLAPLaPDTLRPYPYDKDDAFVLYPLPDVLILGSELPSFAK 210
 
Name Accession Description Interval E-value
DNA_pol_E_B pfam04042
DNA polymerase alpha/epsilon subunit B; This family contains a number of DNA polymerase ...
 227-429 9.57e-44

DNA polymerase alpha/epsilon subunit B; This family contains a number of DNA polymerase subunits. The B subunit of the DNA polymerase alpha plays an essential role at the initial stage of DNA replication in S. cerevisiae and is phosphorylated in a cell cycle-dependent manner. DNA polymerase epsilon is essential for cell viability and chromosomal DNA replication in budding yeast. In addition, DNA polymerase epsilon may be involved in DNA repair and cell-cycle checkpoint control. The enzyme consists of at least four subunits in mammalian cells as well as in yeast. The largest subunit of DNA polymerase epsilon is responsible for polymerase epsilon is responsible for polymerase activity. In mouse, the DNA polymerase epsilon subunit B is the second largest subunit of the DNA polymerase. A part of the N-terminal was found to be responsible for the interaction with SAP18. Experimental evidence suggests that this subunit may recruit histone deacetylase to the replication fork to modify the chromatin structure.


Pssm-ID: 461142  Cd Length: 210  Bit Score: 152.85  E-value: 9.57e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 227 FVIVSDVWLDQ-VQVLEKLHVMFSGY-SPAPPTCFILCGNFSSAPY-----GKNQVQALK---DSLKSLADIIceyPSIH 296
Cdd:pfam04042   1 IVFASGLYLDSdNLSLEALRDLLDGYnEDSPPDRLILAGPFLDSKHnliasGAVAGDTLTynfLFLKLLLSIL---EQLL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 297 QSSRFVFVPGPEDPGFGSILPRPPLAESITQEFRQRVPFsVFTTNPCRIQYCTQEIIIFREDLVNKMCRNCVRFPSSSLD 376
Cdd:pfam04042  78 EKTPVILVPGPNDPANSTVLPQPPFPRCLLPRIKKNNSL-IFVTNPCRFSINGVEVVVTSGDNVSDLLRYELKFSSSDVD 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1958782412 377 IPTHFVKTVLSQGHLAPL-PLYVSPVYWAYDYTLRVYPVPDLLVIADKYDPFTV 429
Cdd:pfam04042 157 RFLRLVETILRQRHLAPLaPDTLRPYPYDKDDAFVLYPLPDVLILGSELPSFAK 210
PTZ00235 PTZ00235
DNA polymerase epsilon subunit B; Provisional
 218-422 1.12e-16

DNA polymerase epsilon subunit B; Provisional


Pssm-ID: 185521  Cd Length: 291  Bit Score: 80.43  E-value: 1.12e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 218 LEEENKDAMFVIVSDVWLDQVQVLEKLHVMFSGY-SPAP----PTCFILCGNFSSAP--YGKNQVQALKDSLKSLAD-II 289
Cdd:PTZ00235   21 VRKNDKRHNWIIMHDVYLDSPYTFEVLDKMLSLYvNTYPenelPVGFIFMGDFISLKfdYNRNFHKVYIKGFEKLSVmLI 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 290 CEYPSIHQSSRFVFVPGPEDP-GFGSILPRPPLAESITQEFRQRVP--FS-----VFTTNPCRIQYCTQEIIIFREDLVN 361
Cdd:PTZ00235  101 SKFKLILEHCYLIFIPGINDPcACKNSIPKMPILPYYIRKFKQNIEsfFSskrniIFATNPCRIRHLSKKMIFFRHDILN 180

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1958782412 362 KMcrncvrFPSSSLDIPTH--------FVKTVLSQGHLAPLPlYVSPVYWAYDYTLRVYPVPDLLVIAD 422
Cdd:PTZ00235  181 DL------IWSSTINATNNernnlqniLVSTIVGQSHIYPIP-HDNRILKRYSPFLFLYPLPHFICVCD 242
 
Name Accession Description Interval E-value
DNA_pol_E_B pfam04042
DNA polymerase alpha/epsilon subunit B; This family contains a number of DNA polymerase ...
 227-429 9.57e-44

DNA polymerase alpha/epsilon subunit B; This family contains a number of DNA polymerase subunits. The B subunit of the DNA polymerase alpha plays an essential role at the initial stage of DNA replication in S. cerevisiae and is phosphorylated in a cell cycle-dependent manner. DNA polymerase epsilon is essential for cell viability and chromosomal DNA replication in budding yeast. In addition, DNA polymerase epsilon may be involved in DNA repair and cell-cycle checkpoint control. The enzyme consists of at least four subunits in mammalian cells as well as in yeast. The largest subunit of DNA polymerase epsilon is responsible for polymerase epsilon is responsible for polymerase activity. In mouse, the DNA polymerase epsilon subunit B is the second largest subunit of the DNA polymerase. A part of the N-terminal was found to be responsible for the interaction with SAP18. Experimental evidence suggests that this subunit may recruit histone deacetylase to the replication fork to modify the chromatin structure.


Pssm-ID: 461142  Cd Length: 210  Bit Score: 152.85  E-value: 9.57e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 227 FVIVSDVWLDQ-VQVLEKLHVMFSGY-SPAPPTCFILCGNFSSAPY-----GKNQVQALK---DSLKSLADIIceyPSIH 296
Cdd:pfam04042   1 IVFASGLYLDSdNLSLEALRDLLDGYnEDSPPDRLILAGPFLDSKHnliasGAVAGDTLTynfLFLKLLLSIL---EQLL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 297 QSSRFVFVPGPEDPGFGSILPRPPLAESITQEFRQRVPFsVFTTNPCRIQYCTQEIIIFREDLVNKMCRNCVRFPSSSLD 376
Cdd:pfam04042  78 EKTPVILVPGPNDPANSTVLPQPPFPRCLLPRIKKNNSL-IFVTNPCRFSINGVEVVVTSGDNVSDLLRYELKFSSSDVD 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1958782412 377 IPTHFVKTVLSQGHLAPL-PLYVSPVYWAYDYTLRVYPVPDLLVIADKYDPFTV 429
Cdd:pfam04042 157 RFLRLVETILRQRHLAPLaPDTLRPYPYDKDDAFVLYPLPDVLILGSELPSFAK 210
PTZ00235 PTZ00235
DNA polymerase epsilon subunit B; Provisional
 218-422 1.12e-16

DNA polymerase epsilon subunit B; Provisional


Pssm-ID: 185521  Cd Length: 291  Bit Score: 80.43  E-value: 1.12e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 218 LEEENKDAMFVIVSDVWLDQVQVLEKLHVMFSGY-SPAP----PTCFILCGNFSSAP--YGKNQVQALKDSLKSLAD-II 289
Cdd:PTZ00235   21 VRKNDKRHNWIIMHDVYLDSPYTFEVLDKMLSLYvNTYPenelPVGFIFMGDFISLKfdYNRNFHKVYIKGFEKLSVmLI 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958782412 290 CEYPSIHQSSRFVFVPGPEDP-GFGSILPRPPLAESITQEFRQRVP--FS-----VFTTNPCRIQYCTQEIIIFREDLVN 361
Cdd:PTZ00235  101 SKFKLILEHCYLIFIPGINDPcACKNSIPKMPILPYYIRKFKQNIEsfFSskrniIFATNPCRIRHLSKKMIFFRHDILN 180

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1958782412 362 KMcrncvrFPSSSLDIPTH--------FVKTVLSQGHLAPLPlYVSPVYWAYDYTLRVYPVPDLLVIAD 422
Cdd:PTZ00235  181 DL------IWSSTINATNNernnlqniLVSTIVGQSHIYPIP-HDNRILKRYSPFLFLYPLPHFICVCD 242
 
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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