2XC4 Blood Clotting date Apr 16, 2010
title Factor Xa In Complex With A Pyrrolidine-3,4-Dicarboxylic Aci Inhibitor
authors D.W.Banner, J.Benz, D.Schlatter, S.Thomi, W.Haap
compound source
Molecule: Activated Factor Xa Heavy Chain
Chain: A
Fragment: Heavy Chain, Residues 235-475
Ec: 3.4.21.6
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Factor X Light Chain
Chain: L
Fragment: Light Chain, Residues 126-180
Ec: 3.4.21.6
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.207 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.840 74.550 76.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.67 Å
ligand CA, IVK, NA BindingDB enzyme Hydrolase E.C.3.4.21.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDiscovery of a factor Xa inhibitor (3R,4R)-1-(2,2-difluoro-ethyl)-pyrrolidine-3,4-dicarboxylic acid 3-[(5-chloro-pyridin-2-yl)-amide] 4-{[2-fluoro-4-(2-oxo-2H-pyridin-1-yl)-phenyl]-amide} as a clinical candidate., Anselm L, Banner DW, Benz J, Groebke Zbinden K, Himber J, Hilpert H, Huber W, Kuhn B, Mary JL, Otteneder MB, Panday N, Ricklin F, Stahl M, Thomi S, Haap W, Bioorg Med Chem Lett. 2010 Jul 1. PMID:20650636
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (61 Kb) [Save to disk]
  • Biological Unit Coordinates (2xc4.pdb1.gz) 54 Kb
  • LPC: Ligand-Protein Contacts for 2XC4
  • CSU: Contacts of Structural Units for 2XC4
  • Structure Factors (433 Kb)
  • Retrieve 2XC4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XC4 from S2C, [Save to disk]
  • Re-refined 2xc4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XC4 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 2XC4
  • 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 2XC4, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xc4_A] [2xc4] [2xc4_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 2XC4: [EGF] [Tryp_SPc ] by SMART
  • Other resources with information on 2XC4
  • Community annotation for 2XC4 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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