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Conserved domains on  [gi|85540904|gb|ABC70837|]
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DNA-dependent DNA polymerase, partial [Tortoise herpesvirus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DNA_pol_B super family cl29029
DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one ...
 3-36 8.01e-10

DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one structural domain, possibly including elongation, DNA-binding and dNTP binding activities.


The actual alignment was detected with superfamily member pfam00136:

Pssm-ID: 395085  Cd Length: 439  Bit Score: 51.84  E-value: 8.01e-10
                          10        20        30
                  ....*....|....*....|....*....|....
gi 85540904     3 GLLPCLEVAATVTTVGRNMLLDTRDYIHKRWSER 36
Cdd:pfam00136 174 GRLPCLPIAASVTAIGREMLENTKDLVEGMYTYN 207
 
Name Accession Description Interval E-value
DNA_pol_B pfam00136
DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one ...
 3-36 8.01e-10

DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one structural domain, possibly including elongation, DNA-binding and dNTP binding activities.


Pssm-ID: 395085  Cd Length: 439  Bit Score: 51.84  E-value: 8.01e-10
                          10        20        30
                  ....*....|....*....|....*....|....
gi 85540904     3 GLLPCLEVAATVTTVGRNMLLDTRDYIHKRWSER 36
Cdd:pfam00136 174 GRLPCLPIAASVTAIGREMLENTKDLVEGMYTYN 207
PTZ00166 PTZ00166
DNA polymerase delta catalytic subunit; Provisional
 3-34 2.90e-08

DNA polymerase delta catalytic subunit; Provisional


Pssm-ID: 240301 [Multi-domain]  Cd Length: 1054  Bit Score: 47.71  E-value: 2.90e-08
                          10        20        30
                  ....*....|....*....|....*....|..
gi 85540904     3 GLLPCLEVAATVTTVGRNMLLDTRDYIHKRWS 34
Cdd:PTZ00166  667 GQLPCLEVSTSITSFGRQMIDKTKELVEKHYT 698
POLBc smart00486
DNA polymerase type-B family; DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), ...
 3-41 1.32e-07

DNA polymerase type-B family; DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), DNA polymerases in archaea, DNA polymerase II in e. coli, mitochondrial DNA polymerases and and virus DNA polymerases


Pssm-ID: 214691 [Multi-domain]  Cd Length: 474  Bit Score: 45.60  E-value: 1.32e-07
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 85540904      3 GLLPCLEVAATVTTVGRNMLLDTRDYIHKRWSEREKFLV 41
Cdd:smart00486 422 SRLPCKPLAASVTALGREILEKTKELIEENGYPKPGFKV 460
POLBc_delta cd05533
DNA polymerase type-B delta subfamily catalytic domain. Three DNA-dependent DNA polymerases ...
 3-34 1.69e-06

DNA polymerase type-B delta subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. Presently, no direct data is available regarding the strand specificity of DNA polymerase during DNA replication in vivo. However, mutation analysis supports the hypothesis that DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand.


Pssm-ID: 99916  Cd Length: 393  Bit Score: 42.64  E-value: 1.69e-06
                        10        20        30
                ....*....|....*....|....*....|..
gi 85540904   3 GLLPCLEVAATVTTVGRNMLLDTRDYIHKRWS 34
Cdd:cd05533 129 GKLPCLEISSSVTSFGRQMIEKTKKLVEEKYT 160
 
Name Accession Description Interval E-value
DNA_pol_B pfam00136
DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one ...
 3-36 8.01e-10

DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one structural domain, possibly including elongation, DNA-binding and dNTP binding activities.


Pssm-ID: 395085  Cd Length: 439  Bit Score: 51.84  E-value: 8.01e-10
                          10        20        30
                  ....*....|....*....|....*....|....
gi 85540904     3 GLLPCLEVAATVTTVGRNMLLDTRDYIHKRWSER 36
Cdd:pfam00136 174 GRLPCLPIAASVTAIGREMLENTKDLVEGMYTYN 207
PTZ00166 PTZ00166
DNA polymerase delta catalytic subunit; Provisional
 3-34 2.90e-08

DNA polymerase delta catalytic subunit; Provisional


Pssm-ID: 240301 [Multi-domain]  Cd Length: 1054  Bit Score: 47.71  E-value: 2.90e-08
                          10        20        30
                  ....*....|....*....|....*....|..
gi 85540904     3 GLLPCLEVAATVTTVGRNMLLDTRDYIHKRWS 34
Cdd:PTZ00166  667 GQLPCLEVSTSITSFGRQMIDKTKELVEKHYT 698
POLBc smart00486
DNA polymerase type-B family; DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), ...
 3-41 1.32e-07

DNA polymerase type-B family; DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), DNA polymerases in archaea, DNA polymerase II in e. coli, mitochondrial DNA polymerases and and virus DNA polymerases


Pssm-ID: 214691 [Multi-domain]  Cd Length: 474  Bit Score: 45.60  E-value: 1.32e-07
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 85540904      3 GLLPCLEVAATVTTVGRNMLLDTRDYIHKRWSEREKFLV 41
Cdd:smart00486 422 SRLPCKPLAASVTALGREILEKTKELIEENGYPKPGFKV 460
POLBc_delta cd05533
DNA polymerase type-B delta subfamily catalytic domain. Three DNA-dependent DNA polymerases ...
 3-34 1.69e-06

DNA polymerase type-B delta subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. Presently, no direct data is available regarding the strand specificity of DNA polymerase during DNA replication in vivo. However, mutation analysis supports the hypothesis that DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand.


Pssm-ID: 99916  Cd Length: 393  Bit Score: 42.64  E-value: 1.69e-06
                        10        20        30
                ....*....|....*....|....*....|..
gi 85540904   3 GLLPCLEVAATVTTVGRNMLLDTRDYIHKRWS 34
Cdd:cd05533 129 GKLPCLEISSSVTSFGRQMIEKTKKLVEEKYT 160
 
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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