1QRK	Transferase	date	Jun 14, 1999
title	Human Factor Xiii With Strontium Bound In The Ion Site
authors	B.A.Fox, V.C.Yee, L.C.Pederson, I.Le Trong, P.D.Bishop, R.E.Stenk D.C.Teller
compound		source
Molecule: Protein (Coagulation Factor Xiii) Chain: A, B Fragment: Full Length Dimer Ec: 2.3.2.13 Engineered: Yes Other_details: Strontium Bound In The Ion Site		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Saccharomyces Cerevisiae Expression_system_common: Baker'S Yeast Expression_system_taxid: 4932
symmetry	Space Group: P 1 21 1	R_factor 0.183 R_Free 0.275
crystal cell	length a length b length c angle alpha angle beta angle gamma 101.900 72.320 135.030 90.00 105.90 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	SR	enzyme	Transferase E.C.2.3.2.13 BRENDA
note	1QRK supersedes 1BL2
related structures	by homologous chain: 1FIE, 1GGY
Gene Ontology	Chain Function Process Component A, B
Primary reference	Identification of the calcium binding site and a novel ytterbium site in blood coagulation factor XIII by x-ray crystallography., Fox BA, Yee VC, Pedersen LC, Le Trong I, Bishop PD, Stenkamp RE, Teller DC, J Biol Chem 1999 Feb 19;274(8):4917-23. PMID:9988734

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (233 Kb) [Save to disk] Biological Unit Coordinates (1qrk.pdb1.gz) 228 Kb LPC: Ligand-Protein Contacts for 1QRK CSU: Contacts of Structural Units for 1QRK Likely Quarternary Molecular Structure file(s) for 1QRK Structure Factors (411 Kb) Retrieve 1QRK in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1QRK from S2C, [Save to disk] Re-refined 1qrk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1QRK 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 1QRK

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 3D motif for 1QRK, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1qrka4, region A:191-511 [Jmol] [rasmolscript] [script source]     - Domain d1qrka2, region A:517-627 [Jmol] [rasmolscript] [script source]     - Domain d1qrka3, region A:628-727 [Jmol] [rasmolscript] [script source]     - Domain d1qrka1, region A:9-190 [Jmol] [rasmolscript] [script source]     - Domain d1qrkb1, region B:10-190 [Jmol] [rasmolscript] [script source]     - Domain d1qrkb4, region B:191-507 [Jmol] [rasmolscript] [script source]     - Domain d1qrkb2, region B:516-627 [Jmol] [rasmolscript] [script source]     - Domain d1qrkb3, region B:628-727 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1qrk] [1qrk_A] [1qrk_B] SWISS-PROT database: [P00488] Domain organization of [F13A_HUMAN] by SWISSPFAM Domain found in 1QRK: [TGc ] by SMART

Other resources with information on 1QRK

Community annotation for 1QRK at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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