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Protein Overview: RPB7

General Information:
Name(s) found: RPB7 / YDR404C [SGD]
Description(s) found:
Found 68 descriptions.
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  • RNA polymerase II subunit B16; forms two subunit dissociable complex with Rpb4p; involved recruitment of 3'-end processing factors to transcribing RNA polymerase II complex and in export of [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 171 amino acids

    Gene Ontology:
    Cellular Component: DNA-directed RNA polymerase II, core complex [TASLink to PubMed article]
    Biological Process: transcription from RNA polymerase II promoter [TASLink to PubMed article]
    Molecular Function: DNA-directed RNA polymerase activity [TASLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFFIKDLSLN ITLHPSFFGP RMKQYLKTKL LEEVEGSCTG KFGYILCVLD YDNIDIQRGR  60
   61 ILPTDGSAEF NVKYRAVVFK PFKGEVVDGT VVSCSQHGFE VQVGPMKVFV TKHLMPQDLT 120
  121 FNAGSNPPSY QSSEDVITIK SRIRVKIEGC ISQVSSIHAI GSIKEDYLGA I

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) DST1 IWR1 RPB10 RPB11 RPB2 RPB3 RPB4 RPB5 RPB7 RPB8 RPB9 RPC10 RPO21 RPO26 SPT4 SPT5 TAF14 TFG1 TFG2
    View Details (MIPS) Mewes HW, et al. (2004) CDC73 RPB10 RPB11 RPB2 RPB3 RPB4 RPB5 RPB7 RPB8 RPB9 RPC10 RPO21 RPO26
    View Details Krogan NJ, et al. (2006) ALG3 BUD27 CBF2 DST1 ESS1 IWR1 RPB10 RPB11 RPB2 RPB3 RPB4 RPB5 RPB7 RPB8 RPB9 RPO21 RPO26 SPT4 TAF14 TFG1 TFG2 YBL059W YBR259W YPL225W
    View Details Gavin AC, et al. (2006) IWR1 RPB11 RPB2 RPB3 RPB4 RPB7 RPB9 TFG1 TFG2
    View Details Gavin AC, et al. (2002) ABD1 AOS1 IWR1 RPB11 RPB2 RPB3 RPB4 RPB5 RPB7 RPB8 RPB9 RPO21 RPO26 SPT4 SPT5 TAF14 TFG1 TFG2
    View Details Qiu et al. (2008) RET1 RPA12 RPA135 RPA190 RPA43 RPB10 RPB11 RPB2 RPB3 RPB4 RPB5 RPB7 RPB8 RPB9 RPC10 RPC17 RPC31 RPC37 RPC40 RPO21 RPO26 RPO31 TAF14 TFB5

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run RPA135 his-HA tag on RPA135 Schneider, DA, et al. (2006)
    View Run CEP3 sample cbf3 from feb 2005 Sandall S, et all (2006)

    Yeast Two-Hybrid Data

    The following interactions contain this protein:

    NOT SHOWING SINGLE HITS. [ Show Single Hits ]

    [View our yeast two-hybrid interpretation guidelines.]

    No yeast two-hybrid interactions found for this protein.

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data RPB7 Huh WK, et al. (2003)

    Protein Structure Data


    [What does the above image mean?]
    [View Top Sequence Alignments] [Show Ginzu Version Information]

    Domains predicted:

    #   Region(s) Method Confidence Match Description
    1 View Details [1..79] PSI-BLAST 116.228787 C-terminal domain of RNA polymerase II subunit RBP4 (RpoE); N-terminal, heterodimerisation domain of RBP4 (RpoE)
    2 View Details [80..171] PSI-BLAST 116.228787 C-terminal domain of RNA polymerase II subunit RBP4 (RpoE); N-terminal, heterodimerisation domain of RBP4 (RpoE)

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    Term Confidence Notes
  • RNA polymerase activity
    		•  8.99678434167899 bayes_pls_golite062009
  • DNA-directed RNA polymerase activity
    		•  8.99678434167899 bayes_pls_golite062009
  • nucleotidyltransferase activity
    		•  6.44182740737882 bayes_pls_golite062009
  • structural constituent of ribosome
    		•  5.1118741250402 bayes_pls_golite062009
  • transferase activity, transferring phosphorus-containing groups
    		•  4.85462508375149 bayes_pls_golite062009
  • structural molecule activity
    		•  4.51553901145182 bayes_pls_golite062009
  • transferase activity
    		•  3.90847350895308 bayes_pls_golite062009
  • ribonuclease activity
    		•  3.83159232224897 bayes_pls_golite062009
  • DNA binding
    		•  3.53568546959418 bayes_pls_golite062009
  • RNA binding
    		•  3.49834780836233 bayes_pls_golite062009
    		• 2.80746531284205 bayes_pls_golite062009
  • nucleic acid binding
    		•  2.41557476646435 bayes_pls_golite062009
  • exoribonuclease activity
    		•  2.41262897171619 bayes_pls_golite062009
  • exoribonuclease activity, producing 5'-phosphomonoesters
    		•  2.38378389593693 bayes_pls_golite062009
  • transcription regulator activity
    		•  2.10110937001387 bayes_pls_golite062009
  • binding
    		•  1.9712766790272 bayes_pls_golite062009
  • structure-specific DNA binding
    		•  1.81524862921454 bayes_pls_golite062009
  • mRNA binding
    		•  1.660993824641 bayes_pls_golite062009
  • single-stranded DNA binding
    		•  1.62996999055328 bayes_pls_golite062009
  • protein binding
    		•  1.55473080522232 bayes_pls_golite062009
  • translation regulator activity
    		•  1.46320772716954 bayes_pls_golite062009
  • translation factor activity, nucleic acid binding
    		•  1.40718318783582 bayes_pls_golite062009
  • translation initiation factor activity
    		•  1.27539679024898 bayes_pls_golite062009
  • transcription activator activity
    		•  1.09079153283893 bayes_pls_golite062009
  • catalytic activity
    		•  1.02941336036162 bayes_pls_golite062009
  • transcription factor activity
    		•  0.937752547283357 bayes_pls_golite062009
  • sequence-specific DNA binding
    		•  0.85691075793641 bayes_pls_golite062009
  • 3'-5'-exoribonuclease activity
    		•  0.83268201349295 bayes_pls_golite062009
  • hydrolase activity
    		•  0.724860465280978 bayes_pls_golite062009
  • RNA polymerase II transcription factor activity
    		•  0.583085644017496 bayes_pls_golite062009
  • nuclease activity
    		•  0.57381531077345 bayes_pls_golite062009
  • aminoacyl-tRNA ligase activity
    		•  0.474251377131502 bayes_pls_golite062009
  • ligase activity, forming aminoacyl-tRNA and related compounds
    		•  0.47336621289748 bayes_pls_golite062009
  • ligase activity, forming carbon-oxygen bonds
    		•  0.47336621289748 bayes_pls_golite062009
  • hydrolase activity, acting on ester bonds
    		•  0.223941674251642 bayes_pls_golite062009
    2 No functions predicted.


    Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076


    Philius Transmembrane Prediction:

    Protein predicted to be: GLOBULAR (No transmembrane regions or signal peptide)
    Confidence of classification: 0.99

    Source: Reynolds et al. (2008)

    YRC Informatics Platform - Version 3.0
    Created and Maintained by: Michael Riffle