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The Open Protein Structure Annotation Network
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1vl7

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

    Title Crystal structure of hypothetical protein (alr5027) from Nostoc sp. at 1.50 A resolution. To be published
    Site JCSG
    PDB Id 1vl7 Target Id 356118
    Molecular Characteristics
    Source Nostoc sp. pcc 7120
    Alias Ids TPS1357,17134165, 2.30.110.10 Molecular Weight 16410.76 Da.
    Residues 145 Isoelectric Point 5.01
    Sequence msqlekaqaeyagfiqefqsaiistiseqgipngsyapfviddakniyiyvsglavhtknieanplvnv lfvddeaktnqifarrrlsfdctatlieresqkwnqvvdqfqerfgqiievlrgladfrifqltpkegr fvigfga
      BLAST   FFAS

    Structure Determination
    Method XRAY Chains 2
    Resolution (Å) 1.50 Rfree 0.18276
    Matthews' coefficent 2.20 Rfactor 0.15443
    Waters 269 Solvent Content 43.74

    Ligand Information
    Ligands
    Metals

    Jmol

     
    Google Scholar output for 1vl7
    1. Exploiting heterogeneous sequence properties improves prediction of protein disorder
    Z Obradovic, K Peng, S Vucetic - Proteins: Structure, , 2005 - Wiley Online Library
     
    2. Iron acquisition in Vibrio cholerae
    EE Wyckoff, AR Mey, SM Payne - Biometals, 2007 - Springer
     
    3. Domain definition and target classification for CASP6
    M Tress, CH Tai, G Wang, I Ezkurdia - PROTEINS: , 2005 - Wiley Online Library
     
    4. Fast and accurate algorithms for protein side-chain packing
    J Xu, B Berger - Journal of the ACM (JACM), 2006 - dl.acm.org
     
    5. The crystal structure of CREG, a secreted glycoprotein involved in cellular growth and differentiation
    M Sacher, A Di Bacco, VV Lunin, Z Ye - Proceedings of the , 2005 - National Acad Sciences
     
    6. The JCSG MR pipeline: optimized alignments, multiple models and parallel searches
    R Schwarzenbacher, A Godzik - Section D: Biological , 2007 - scripts.iucr.org
     
    7. Autoindexing with outlier rejection and identification of superimposed lattices
    NK Sauter, BK Poon - Journal of Applied Crystallography, 2010 - scripts.iucr.org
     
    8. Stochastic pairwise alignments and scoring methods for comparative protein structure modeling
    AC Marko, K Stafford, T Wymore - Journal of chemical information , 2007 - ACS Publications
     
    9. Protein structure prediction based on the sliced lattice model
    CC Wang, CB Yang, HY Ann - 2008 Conference on , 2005 - etd.lib.nsysu.edu.tw
     
    10. Prediction of Protein Backbone Based on the Sliced Lattice Model
    CC Wang, CB Yang, HY Ann, HY Chang - 2008 - csie.npu.edu.tw
     

    Protein Summary

    Gene alr5027 from Nostoc sp codes for the NP_489067 amino acid sequence that has similarity to proteins of the 'Pyridoxamin 5'-phosphate oxidase' family (PF01243) and a 'putative heme iron utilization protein' COG (COG0748). The NP_489067 protein shares the same genomic neighborhood as the Alr5028 protein (score 0.8) and could be functionally linked to the uroporphyrinogen decarboxylase hemE (score 0.79), according to the STRING database.

    1vl7 structure has structural similarity to proteins belonging to the 'PNP-oxidase-like' family of SCOP (FMN-binding split barrel superfamily and fold), and is classified as a new protein domain within this family. A DALI search for structural similarity provides hits with the C-terminal region of the heme oxygenase Hugz 3gas (Z=18; 38% seq.id.), the PA4388 protein 2arz (Z=17), the ATU2129 protein 3dnh (Z=16) and the repressor 1xhn (Z=14).

    Analysis of the crystallographic packing of the protein using the PQS server indicates that a dimer is the biologically relevant form.

    Ligand Summary



    References

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