2GNN Hormone Growth Factor date Apr 10, 2006
title Crystal Structure Of The Orf Virus Nz2 Variant Of Vegf-E
authors A.E.Prota, M.Pieren, A.Wagner, D.Kostrewa, F.K.Winkler, K.Ballmer
compound source
Molecule: Vascular Endothelial Growth Factor Homolog
Chain: A, B, C, D
Engineered: Yes
Organism_scientific: Orf Virus (Strain Nz2)
Organism_taxid: 10259
Strain: Nz2
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_strain: X33
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppiczalpha
symmetry Space Group: P 41 2 2
R_factor 0.223 R_Free 0.247
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.600 98.600 240.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand BEN, CL, GOL, NAG, SO4, TRS enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • growth factor activity


  • Primary referenceCrystal structure of the Orf virus NZ2 variant of vascular endothelial growth factor-E. Implications for receptor specificity., Pieren M, Prota AE, Ruch C, Kostrewa D, Wagner A, Biedermann K, Winkler FK, Ballmer-Hofer K, J Biol Chem. 2006 Jul 14;281(28):19578-87. Epub 2006 May 3. PMID:16672228
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (71 Kb) [Save to disk]
  • Biological Unit Coordinates (2gnn.pdb1.gz) 34 Kb
  • Biological Unit Coordinates (2gnn.pdb2.gz) 32 Kb
  • Biological Unit Coordinates (2gnn.pdb3.gz) 64 Kb
  • LPC: Ligand-Protein Contacts for 2GNN
  • CSU: Contacts of Structural Units for 2GNN
  • Likely Quarternary Molecular Structure file(s) for 2GNN
  • Structure Factors (397 Kb)
  • Retrieve 2GNN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GNN from S2C, [Save to disk]
  • Re-refined 2gnn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2GNN 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 2GNN
  • 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 2GNN, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2gnn_A] [2gnn_B] [2gnn] [2gnn_C] [2gnn_D]
  • SWISS-PROT database: [P52584]
  • Domain organization of [VEGFH_ORFN2] by SWISSPFAM
  • Domain found in 2GNN: [PDGF ] by SMART
  • Other resources with information on 2GNN
  • Community annotation for 2GNN 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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