2FJH Hormone Growth Factor Immune System date Jan 02, 2006
title Structure Of The B20-4 Fab, A Phage Derived Fab Fragment, In With Vegf
authors C.Wiesmann
compound source
Molecule: Vascular Endothelial Growth Factor A
Chain: V, W
Fragment: Receptor Binding Domain Of Vegf (Residues 34-135)
Synonym: Vegf-A, Vascular Permeability Factor, Vpf
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pb2105

Molecule: Fab Fragment Light Chain
Chain: L, A
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pw0357-4

Molecule: Fab Fragment Heavy Chain
Chain: H, B
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pw0357-4
symmetry Space Group: P 31 1 2
R_factor 0.198 R_Free 0.239
crystal
cell
length a length b length c angle alpha angle beta angle gamma
165.538 165.538 150.548 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.10 Å
Gene
Ontology
ChainFunctionProcessComponent
W, V


Primary referenceStructure-function studies of two synthetic anti-vascular endothelial growth factor Fabs and comparison with the Avastin Fab., Fuh G, Wu P, Liang WC, Ultsch M, Lee CV, Moffat B, Wiesmann C, J Biol Chem. 2006 Mar 10;281(10):6625-31. Epub 2005 Dec 22. PMID:16373345
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (170 Kb) [Save to disk]
  • Biological Unit Coordinates (2fjh.pdb1.gz) 163 Kb
  • Biological Unit Coordinates (2fjh.pdb2.gz) 161 Kb
  • CSU: Contacts of Structural Units for 2FJH
  • Likely Quarternary Molecular Structure file(s) for 2FJH
  • Structure Factors (813 Kb)
  • Retrieve 2FJH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2FJH from S2C, [Save to disk]
  • Re-refined 2fjh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2FJH 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 2FJH
  • 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 2FJH, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2fjh_B] [2fjh_A] [2fjh_V] [2fjh_H] [2fjh_L] [2fjh_W] [2fjh]
  • SWISS-PROT database: [P15692]
  • Domain organization of [VEGFA_HUMAN] by SWISSPFAM
  • Domains found in 2FJH: [IG_like] [IGv] [PDGF ] by SMART
  • Other resources with information on 2FJH
  • Community annotation for 2FJH 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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