3ZQK	Blood Clotting	date	Jun 09, 2011
title	Von Willebrand Factor A2 Domain With Calcium
authors	A.J.Jakobi, E.G.Huizinga
compound		source
Molecule: Von Willebrand Factor Chain: A, B, C Fragment: A2 Domain, Residues 1478-1674 Synonym: Vwf, Von Willebrand Antigen 2, Von Willebrand Anti Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Homo Sapiens Expression_system_common: Human Expression_system_taxid: 9606 Expression_system_cell_line: Hek293-Ebna1-S
symmetry	Space Group: C 1 2 1	R_factor 0.1549 R_Free 0.1996
crystal cell	length a length b length c angle alpha angle beta angle gamma 156.020 35.540 88.460 90.00 96.34 90.00
method	X-Ray Diffraction	resolution	1.70 Å
ligand	CA, GOL, NAG	enzyme
Primary reference	Calcium modulates force sensing by the von Willebrand factor A2 domain., Jakobi AJ, Mashaghi A, Tans SJ, Huizinga EG, Nat Commun. 2011 Jul 12;2:385. doi: 10.1038/ncomms1385. PMID:21750539

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (202 Kb) [Save to disk] Biological Unit Coordinates (3zqk.pdb1.gz) 68 Kb Biological Unit Coordinates (3zqk.pdb2.gz) 65 Kb Biological Unit Coordinates (3zqk.pdb3.gz) 67 Kb LPC: Ligand-Protein Contacts for 3ZQK CSU: Contacts of Structural Units for 3ZQK Structure Factors (396 Kb) Retrieve 3ZQK in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3ZQK from S2C, [Save to disk] Re-refined 3zqk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3ZQK 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 3ZQK

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 3ZQK, from MSDmotif at EBI Fold representative 3zqk from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3zqk_A] [3zqk_B] [3zqk_C] SWISS-PROT database: Domain organization of by SWISSPFAM Alignments of the sequence of 3ZQK with the sequences similar proteins can be viewed for 3ZQK'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 3ZQK

Community annotation for 3ZQK at PDBWiki (http://pdbwiki.org)

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