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The Open Protein Structure Annotation Network
PDB Keyword
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2p4g

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

    Title Crystal structure of hypothetical protein (NP_939744.1) from Corynebacterium diphtheriae at 2.30 A resolution. To be published
    Site JCSG
    PDB Id 2p4g Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS1482,NP_939744.1, _0078.007649_, 432988
    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 3.53 Rfactor 0.173
    Waters
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    Solvent Content 65.12

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 2p4g
    1. Complex Structure of Bacillus subtilis RibG
    SC Chen, YH Lin, HC Yu, SH Liaw - Journal of Biological Chemistry, 2009 - ASBMB
     
    2. Distributed structure determination at the JCSG
    H van den Bedem, G Wolf, Q Xu - Section D: Biological , 2011 - scripts.iucr.org
     

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    Protein Summary

    The DIP1392 gene translates into the NP_939744.1 amino acid sequence which corresponds to a 269 residues single domain protein and member of the Riboflavin Deaminase (RibD) C-terminal domain family PF01872, characterized by its pyrimidine reductase activity. Some members of this family present a two domain architecture with a deaminase inserted at the N-terminus (PF00383).

     

    2p4g belongs to the alpha/beta SCOP class, DiHydro-Folate Reductase-like superfamily, RibD C-terminal domain-like family. Regarding structural similarity, the highest score (FFAS score -70; HHpred P-val=1e-40; SSM 70%; Dali Z-scr=23.5; FATCAT P-val=2.1e-10) belongs to 2azn, a pyrimidine reductase of the riboflavin biosynthetic pathway [Ref]. The PF00383 member structure 2hxv scores as second hit (FFAS score -48; HHpred P-val=1e-41; Dali Z-scr=20.7; FATCAT P-val=3.3e-9) although only when considering its C-terminal reductase domain.

    Based on the crystal structure, the biologically relevant form is a dimer. This is reinforced by the observation of a similar dimeric architecture is some of its structural homologs, such as 2b3z, 2hxv and 2o7p.

    Ligand Summary



    References

    Reviews

    References

     

    1. (No Results)

       


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