2VWE Immune System date Jun 23, 2008
title Crystal Structure Of Vascular Endothelial Growth Factor-B In With A Neutralizing Antibody Fab Fragment
authors P.Leonard, P.D.Scotney, T.Jabeen, S.Iyer, L.J.Fabri, A.D.Nash, K.R
compound source
Molecule: Vascular Endothelial Growth Factor B
Chain: A, B
Synonym: Vegf-B, Vegf-Related Factor, Vrf, Vascular Endothe Growth Factor-B;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: M15prep4
Expression_system_plasmid: Pqe30

Molecule: Anti-Vegf-B Monoclonal Antibody
Chain: C, J

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090

Molecule: Anti-Vegf-B Monoclonal Antibody
Chain: E, L

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
symmetry Space Group: P 1 21 1
R_factor 0.262 R_Free 0.310
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.200 94.300 91.300 90.00 102.30 90.00
method X-Ray Diffractionresolution 3.40 Å
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal Structure of Vascular Endothelial Growth Factor-B in Complex with a Neutralising Antibody Fab Fragment., Leonard P, Scotney PD, Jabeen T, Iyer S, Fabri LJ, Nash AD, Acharya KR, J Mol Biol. 2008 Oct 9. PMID:18930733
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (168 Kb) [Save to disk]
  • Biological Unit Coordinates (2vwe.pdb1.gz) 161 Kb
  • CSU: Contacts of Structural Units for 2VWE
  • Likely Quarternary Molecular Structure file(s) for 2VWE
  • Structure Factors (145 Kb)
  • Retrieve 2VWE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VWE from S2C, [Save to disk]
  • Re-refined 2vwe structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VWE 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 2VWE
  • 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 2VWE, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vwe_L] [2vwe_A] [2vwe_B] [2vwe_E] [2vwe_J] [2vwe_C] [2vwe]
  • SWISS-PROT database: [P01864] [P01837] [P01647] [P49765]
  • Domain organization of [GCAB_MOUSE] [IGKC_MOUSE] [KV5AE_MOUSE] [VEGFB_HUMAN] by SWISSPFAM
  • Domains found in 2VWE: [IG_like] [IGv] [PDGF ] by SMART
  • Other resources with information on 2VWE
  • Community annotation for 2VWE 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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