3GXB Cell Adhesion date Apr 02, 2009
title Crystal Structure Of Vwf A2 Domain
authors Y.F.Zhou, T.A.Springer
compound source
Molecule: Von Willebrand Factor
Chain: A, B
Fragment: Adamts13 Cleavage Domain, Residues 1495-1671
Synonym: Vwf, Von Willebrand Antigen 2, Von Willebrand Anti
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F8vwf, Vwf
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plexm
symmetry Space Group: P 1 21 1
R_factor 0.183 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.110 60.810 56.350 90.00 99.09 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand NAG, SO4 enzyme
note 3GXB is a representative structure
Primary referenceStructural specializations of A2, a force-sensing domain in the ultralarge vascular protein von Willebrand factor., Zhang Q, Zhou YF, Zhang CZ, Zhang X, Lu C, Springer TA, Proc Natl Acad Sci U S A. 2009 Jun 9;106(23):9226-31. Epub 2009 May 21. PMID:19470641
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (3gxb.pdb1.gz) 38 Kb
  • Biological Unit Coordinates (3gxb.pdb2.gz) 38 Kb
  • LPC: Ligand-Protein Contacts for 3GXB
  • CSU: Contacts of Structural Units for 3GXB
  • Likely Quarternary Molecular Structure file(s) for 3GXB
  • Structure Factors (440 Kb)
  • Retrieve 3GXB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GXB from S2C, [Save to disk]
  • Re-refined 3gxb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3GXB 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 3GXB
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3GXB, from MSDmotif at EBI
  • Fold representative 3gxb from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gxb_B] [3gxb] [3gxb_A]
  • SWISS-PROT database: [P04275]
  • Domain organization of [VWF_HUMAN] by SWISSPFAM
  • Domain found in 3GXB: [VWA ] by SMART
  • Other resources with information on 3GXB
  • Community annotation for 3GXB 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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