3PPV Cell Adhesion date Nov 25, 2010
title Crystal Structure Of An Engineered Vwf A2 Domain (N1493c And
authors M.Zhou, X.Dong, C.Zhong, J.Ding
compound source
Molecule: Von Willebrand Factor
Chain: A
Fragment: Vwfa 2 Domain, Unp Residues 1488-1674
Synonym: Vwf, Von Willebrand Antigen 2, Von Willebrand Anti
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F8vwf, Vwf
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3) Codon Plus
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b
symmetry Space Group: P 65
R_factor 0.202 R_Free 0.231
crystal
cell
length a length b length c angle alpha angle beta angle gamma
69.759 69.759 73.605 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.90 Å
ligand CA, SO4 enzyme
Primary referenceA novel calcium-binding site of von Willebrand factor A2 domain regulates its cleavage by ADAMTS13., Zhou M, Dong X, Baldauf C, Chen H, Zhou Y, Springer TA, Luo X, Zhong C, Grater F, Ding J, Blood. 2011 Apr 28;117(17):4623-31. Epub 2011 Mar 8. PMID:21385852
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk]
  • Biological Unit Coordinates (3ppv.pdb1.gz) 61 Kb
  • LPC: Ligand-Protein Contacts for 3PPV
  • CSU: Contacts of Structural Units for 3PPV
  • Structure Factors (115 Kb)
  • Retrieve 3PPV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3PPV from S2C, [Save to disk]
  • Re-refined 3ppv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3PPV 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 3PPV
  • 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 3PPV, from MSDmotif at EBI
  • Fold representative 3ppv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ppv_A] [3ppv]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3PPV: [VWA ] by SMART
  • Other resources with information on 3PPV
  • Community annotation for 3PPV 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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