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 Diffraction	resolution	2.80 Å
ligand	HYP, SO4	enzyme
Primary reference	Implications 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

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_A] [4dmu_B] [4dmu_C] [4dmu_D] [4dmu_E] [4dmu_F] [4dmu_G] [4dmu_H] [4dmu_I] [4dmu_J] [4dmu_K] [4dmu_L] SWISS-PROT database: Domain organization of by SWISSPFAM Alignments of the sequence of 4DMU with the sequences similar proteins can be viewed for 4DMU's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.

Other resources with information on 4DMU

Community annotation for 4DMU at PDBWiki (http://pdbwiki.org)

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