3VH9 Hydrolase Hydrolase Inhibitor date Aug 24, 2011
title Crystal Structure Of Aeromonas Proteolytica Aminopeptidase C With 8-Quinolinol
authors S.Saijo, K.Hanaya, M.Suetsugu, K.Kobayashi, I.Yamato, S.Aoki
compound source
Molecule: Bacterial Leucyl Aminopeptidase
Chain: A
Fragment: Unp Residues 107-405
Ec: 3.4.11.10
 Organism_scientific: Vibrio Proteolyticus
Organism_taxid: 671
symmetry Space Group: P 61 2 2
R_factor 0.131 R_Free 0.153
crystal
cell
length a length b length c angle alpha angle beta angle gamma
108.463 108.463 90.737 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.29 Å
ligand CL, GOL, HQY, NA, SCN, ZN enzyme Hydrolase E.C.3.4.11.10 BRENDA
Primary referencePotent inhibition of dinuclear zinc(II) peptidase, an aminopeptidase from Aeromonas proteolytica, by 8-quinolinol derivatives: inhibitor design based on Zn(2+) fluorophores, kinetic, and X-ray crystallographic study., Hanaya K, Suetsugu M, Saijo S, Yamato I, Aoki S, J Biol Inorg Chem. 2012 Feb 5. PMID:22311113
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (113 Kb) [Save to disk]
  • Biological Unit Coordinates (3vh9.pdb1.gz) 106 Kb
  • LPC: Ligand-Protein Contacts for 3VH9
  • CSU: Contacts of Structural Units for 3VH9
  • Structure Factors (574 Kb)
  • Retrieve 3VH9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3VH9 from S2C, [Save to disk]
  • Re-refined 3vh9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3VH9 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 3VH9
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3VH9, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3vh9] [3vh9_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3VH9
  • Community annotation for 3VH9 at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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