1VCJ Hydrolase date Mar 09, 2004
title Influenza B Virus Neuraminidase Complexed With 1-(4-Carboxy- Pentylamino)Phenyl)-5-Aminomethyl-5-Hydroxymethyl-Pyrrolidi
authors B.S.Lommer, S.M.Ali, S.N.Bajpai, W.J.Brouillette, G.M.Air, M.Luo
compound source
Molecule: Neuraminidase
Chain: A
Fragment: Catalytic Domain Residues 78-466
Ec: 3.2.1.18
Organism_scientific: Influenza B Virus (Blee40)
Organism_taxid: 107412
Strain: B-Lee-40
symmetry Space Group: P 4 21 2
R_factor 0.214 R_Free 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
124.360 124.360 71.470 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand IBA enzyme Hydrolase E.C.3.2.1.18 BRENDA
note 1VCJ supersedes 1UJA
related structures by homologous chain: 1B9S, 1B9T
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceA benzoic acid inhibitor induces a novel conformational change in the active site of Influenza B virus neuraminidase., Lommer BS, Ali SM, Bajpai SN, Brouillette WJ, Air GM, Luo M, Acta Crystallogr D Biol Crystallogr 2004 Jun;60(Pt 6):1017-23. Epub 2004, May 21. PMID:15159560
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (68 Kb) [Save to disk]
  • Biological Unit Coordinates (1vcj.pdb1.gz) 248 Kb
  • LPC: Ligand-Protein Contacts for 1VCJ
  • CSU: Contacts of Structural Units for 1VCJ
  • Likely Quarternary Molecular Structure file(s) for 1VCJ
  • Structure Factors (185 Kb)
  • Retrieve 1VCJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VCJ from S2C, [Save to disk]
  • Re-refined 1vcj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1VCJ 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 1VCJ
  • 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 1VCJ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vcja_, region A [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1vcj] [1vcj_A]
  • SWISS-PROT database: [P03474]
  • Domain organization of [NRAM_INBLE] by SWISSPFAM
  • Other resources with information on 1VCJ
  • Community annotation for 1VCJ at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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