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Conserved domains on  [gi|17554520|ref|NP_498983|]
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Putative RNA polymerase II subunit B1 CTD phosphatase rpap-2 [Caenorhabditis elegans]

Protein Classification

Rtr1/RPAP2 family protein phosphatase( domain architecture ID 10514523)

Rtr1/RPAP2 family protein phosphatase similar to Saccharomyces cerevisiae RNA polymerase II (RNAPII) subunit B1 CTD phosphatase RTR1 that dephosphorylates 'Ser-5' of the C-terminal domain (CTD) of RNAPII subunit B1 and regulates RNAPII during the transition from 'Ser-5' to 'Ser-2' phosphorylation

CATH:  1.25.40.820
EC:  3.1.3.-
Gene Ontology:  GO:0046872|GO:0004721|GO:0008420|GO:0043175
PubMed:  18408053
SCOP:  4004511

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RPAP2_Rtr1 pfam04181
Rtr1/RPAP2 family; This family includes the human RPAP2 (RNAP II associated polypeptide) ...
 39-113 1.38e-22

Rtr1/RPAP2 family; This family includes the human RPAP2 (RNAP II associated polypeptide) protein and the yeast Rtr1 protein. It has been suggested that this family of proteins are regulators of core RNA polymerase II function.


:

Pssm-ID: 461212  Cd Length: 75  Bit Score: 91.12  E-value: 1.38e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 17554520    39 PHLHCLGWDEVVEERYVNKQCGFPSCQKAPPKIT-RNQMFEIDRKEGKIFEfRKQRAKFCSEMCYQKSSFVRKQLD 113
Cdd:pfam04181   1 RLLTPSDYDDVIEERNINKLCGYPLCPNPLPRDRsGKGKYRISLKSNKVYD-REELEKFCSKACYRRSLFVRVQLS 75
 
Name Accession Description Interval E-value
RPAP2_Rtr1 pfam04181
Rtr1/RPAP2 family; This family includes the human RPAP2 (RNAP II associated polypeptide) ...
 39-113 1.38e-22

Rtr1/RPAP2 family; This family includes the human RPAP2 (RNAP II associated polypeptide) protein and the yeast Rtr1 protein. It has been suggested that this family of proteins are regulators of core RNA polymerase II function.


Pssm-ID: 461212  Cd Length: 75  Bit Score: 91.12  E-value: 1.38e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 17554520    39 PHLHCLGWDEVVEERYVNKQCGFPSCQKAPPKIT-RNQMFEIDRKEGKIFEfRKQRAKFCSEMCYQKSSFVRKQLD 113
Cdd:pfam04181   1 RLLTPSDYDDVIEERNINKLCGYPLCPNPLPRDRsGKGKYRISLKSNKVYD-REELEKFCSKACYRRSLFVRVQLS 75
 
Name Accession Description Interval E-value
RPAP2_Rtr1 pfam04181
Rtr1/RPAP2 family; This family includes the human RPAP2 (RNAP II associated polypeptide) ...
 39-113 1.38e-22

Rtr1/RPAP2 family; This family includes the human RPAP2 (RNAP II associated polypeptide) protein and the yeast Rtr1 protein. It has been suggested that this family of proteins are regulators of core RNA polymerase II function.


Pssm-ID: 461212  Cd Length: 75  Bit Score: 91.12  E-value: 1.38e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 17554520    39 PHLHCLGWDEVVEERYVNKQCGFPSCQKAPPKIT-RNQMFEIDRKEGKIFEfRKQRAKFCSEMCYQKSSFVRKQLD 113
Cdd:pfam04181   1 RLLTPSDYDDVIEERNINKLCGYPLCPNPLPRDRsGKGKYRISLKSNKVYD-REELEKFCSKACYRRSLFVRVQLS 75
 
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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