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The Open Protein Structure Annotation Network
PDB Keyword
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3go5

    Table of contents
    1. 1. Protein Summary
    2. 2. Ligand Summary

    Title Structure of a virulence regulatory factor CvfB reveals a novel winged helix RNA binding module. Structure 18 537-547 2010
    Site JCSG
    PDB Id 3go5 Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS14564,NP_345429.1, BIG_354, 85785
    Molecular Weight
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    Da.
    Residues
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    Isoelectric Point
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    Sequence
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      BLAST   FFAS

    Structure Determination
    Method XRAY
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    Chains 1
    Resolution (Å)
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    Rfree
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    Matthews' coefficent 2.75 Rfactor 0.154
    Waters
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    Solvent Content 55.30

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 3go5
    1. Structure of a virulence regulatory factor CvfB reveals a novel winged helix RNA binding module
    Y Matsumoto, Q Xu, S Miyazaki, C Kaito, CL Farr - Structure, 2010 - Elsevier
     

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    Protein Summary

    Gene SP_0946 from Streptococcus pneumoniae tigr4 encodes the NP_345429.1 protein with four domains, likely involved in binding RNA and DNA, from the COG2996. The first three domains are tandem repeats of the S1 RNA binding domains (residues 1-63, 64-134, 135-216). The last domain (221-276) is a classic winged helix domain (WH). Both the S1 domains and WH domain display features supporting the possibility that this protein can interact with both ssRNA and dsDNA/dsRNA. Considering these properties, it is possible that NP_345429 may be involved in transcription. The primary sequence is homologous to the Staphylococcus virulence factor CvfB.

    Pre-SCOP classifies 3go5 N-terminal domains in the nucleic acid binding proteins superfamily, and the C-terminal domain in the winged helix DNA binding domain superfamily. DALI provides hits with the translation initiator factor-2 alpha

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    (Z=10), RNA polymerase-II
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    (Z=9) and the MJ1198 protein
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    (Z=9).

    Figure 1. monomer structure of 3go5

    pk10409a-monomer.png

    Figure 2. Distribution of the electrostatic potential along the 3go5 structure (red: negative, blue: positive)

    PK10409D-elec.png

    Ligand Summary

    Reviews

    References

     

    No references found.

    Tag page
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    Files (2)

    FileSizeDateAttached by 
     pk10409a-monomer.png
    389882 monomer
    68.79 kB20:39, 5 Dec 2008qxuActions
     PK10409D-elec.png
    389882 elecstatic potential
    80.38 kB20:39, 5 Dec 2008qxuActions
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