3KQD Hydrolase date Nov 17, 2009
title Factor Xa In Complex With The Inhibitor 1-(3-(5-Oxo-4,5- Dih 2,4-Triazol-3-Yl)Phenyl)-6-(2'-(Pyrrolidin-1- Ylmethyl)Biph Yl)-3-(Trifluoromethyl)-5,6-Dihydro- 1h-Pyrazolo[3,4-C]Pyri One
authors S.Sheriff
compound source
Molecule: Factor Xa Heavy Chain
Chain: A
Fragment: Residues 235-468 Of Factor X Uncleaved Sequence
Ec: 3.4.21.6
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Proteolytic Cleavage Product

Molecule: Factor Xa Light Chain
Chain: L
Fragment: Residues 127-178 Of Factor X Uncleaved Sequence
Ec: 3.4.21.6

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Proteolytic Cleavage Product
symmetry Space Group: P 21 21 21
R_factor 0.187 R_Free 0.254
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.700 72.100 76.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.75 Å
ligand LGL, NA BindingDB enzyme Hydrolase E.C.3.4.21.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referencePhenyltriazolinones as potent factor Xa inhibitors., Quan ML, Pinto DJ, Rossi KA, Sheriff S, Alexander RS, Amparo E, Kish K, Knabb RM, Luettgen JM, Morin P, Smallwood A, Woerner FJ, Wexler RR, Bioorg Med Chem Lett. 2010 Feb 15;20(4):1373-1377. Epub 2010 Jan 11. PMID:20100660
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (3kqd.pdb1.gz) 47 Kb
  • LPC: Ligand-Protein Contacts for 3KQD
  • CSU: Contacts of Structural Units for 3KQD
  • Structure Factors (63 Kb)
  • Retrieve 3KQD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KQD from S2C, [Save to disk]
  • Re-refined 3kqd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KQD 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 3KQD
  • 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 3KQD, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kqd] [3kqd_A] [3kqd_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3KQD: [EGF] [Tryp_SPc ] by SMART
  • Other resources with information on 3KQD
  • Community annotation for 3KQD 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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