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The Open Protein Structure Annotation Network
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1vjf

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

    Title Crystal structure of putative DNA-binding protein from Caulobacter crescentus at 1.62 A resolution. To be published
    Site JCSG
    PDB Id 1vjf Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS1351,13421216, RER070207001267
    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 1.87 Rfactor 0.14488
    Waters
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    Solvent Content 33.73

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 1vjf
    1. The Buccaneer software for automated model building. 1. Tracing protein chains
    K Cowtan - Acta Crystallographica Section D: Biological , 2006 - scripts.iucr.org
     
    2. Protein function prediction using local 3D templates
    RA Laskowski, JD Watson, JM Thornton - Journal of Molecular Biology, 2005 - Elsevier
     
    3. On the combination of molecular replacement and single-wavelength anomalous diffraction phasing for automated structure determination
    S Panjikar, V Parthasarathy, VS Lamzin - Section D: Biological , 2009 - scripts.iucr.org
     
    4. Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard
    TC Terwilliger, PD Adams, RJ Read - Section D: Biological , 2009 - scripts.iucr.org
     
    5. Structures of Two Bacterial Prolyl-tRNA Synthetases with and without a cis-Editing Domain
    T Crepin, A Yaremchuk, M Tukalo, S Cusack - Structure, 2006 - Elsevier
     
    6. Quantum Chemical Investigations on Intraresidue Carbonyl_ Carbonyl Contacts in Aspartates of High-Resolution Protein Structures
    TK Pal, R Sankararamakrishnan - The Journal of Physical , 2009 - ACS Publications
     
    7. Structure of a putative trans-editing enzyme for prolyl-tRNA synthetase from Aeropyrum pernix K1 at 1.7 A resolution
    K Murayama, M Kato-Murayama, K Katsura - Section F: Structural , 2004 - scripts.iucr.org
     

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    Protein Summary

    The gene CC_0111 from Caulobacter crescentus encodes the NP_418930 protein with a putative conserved domain of PrdX deacylase. Its sequence is 58% identical to YP_758156,  an Ala-tRNA(Pro) hydrolase. NP_418930 belongs to the YbaK PF04073 and ProX proteins, and the prolyl-tRNA synthetase-editing domain (ProRS-INS). PrdX deacylase specifically hydrolyzes Ala-tRNA(Pro).

    1vjf belongs to the class of alpha and beta (a+b) proteins and reveals  YbaK/ProRS associated domain fold type SCOP55825. A Dali search with 1vjf provides a top hit (Z-scr=25) with the structure of hypothetical protein ATU3699 from Agrobacterium tumefaciens  1VKI. A second hit (Z-scr=14) with the cysteinyl-tRNA(Pro) deacylase 1dbu.

    Ligand Summary



    References

    Reviews

    References

     

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