4DMU Structural Protein Protein Binding date Feb 08, 2012
title Crystal Structure Of The Von Willebrand Factor A3 Domain In With A Collagen III Derived Triple-Helical Peptide
authors T.H.C.Brondijk, E.G.Huizinga
compound source
Molecule: Collagen III Derived Triple-Helical Peptide
Chain: A, C, E, G, I, K
Engineered: Yes
Synthetic: Yes
Other_details: Synthetic Peptide Covers Part Of Human Colla Sequence;

Molecule: Von Willebrand Factor
Chain: B, D, F, H, J, L
Synonym: Vwf, Von Willebrand Antigen 2, Von Willebrand Anti
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vwf, F8vwf
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b
symmetry Space Group: P 6
R_factor 0.202 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
187.614 187.614 89.373 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.80 Å
ligand HYP, SO4 enzyme
Primary referenceImplications for collagen I chain registry from the structure of the collagen von Willebrand factor A3 domain complex., Brondijk TH, Bihan D, Farndale RW, Huizinga EG, Proc Natl Acad Sci U S A. 2012 Mar 21. PMID:22440751
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (513 Kb) [Save to disk]
  • Biological Unit Coordinates (4dmu.pdb1.gz) 87 Kb
  • Biological Unit Coordinates (4dmu.pdb2.gz) 87 Kb
  • Biological Unit Coordinates (4dmu.pdb3.gz) 87 Kb
  • Biological Unit Coordinates (4dmu.pdb4.gz) 87 Kb
  • Biological Unit Coordinates (4dmu.pdb5.gz) 87 Kb
  • Biological Unit Coordinates (4dmu.pdb6.gz) 87 Kb
  • LPC: Ligand-Protein Contacts for 4DMU
  • CSU: Contacts of Structural Units for 4DMU
  • Structure Factors (1549 Kb)
  • Retrieve 4DMU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4DMU from S2C, [Save to disk]
  • Re-refined 4dmu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4DMU 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 4DMU
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4DMU, from MSDmotif at EBI
  • Fold representative 4dmu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4dmu_L] [4dmu_G] [4dmu_D] [4dmu_C] [4dmu_E] [4dmu_B] [4dmu_A] [4dmu_F] [4dmu_J] [4dmu] [4dmu_K] [4dmu_H] [4dmu_I]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4DMU: [VWA ] by SMART
  • Other resources with information on 4DMU
  • Community annotation for 4DMU at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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