3M35 Hydrolase date Mar 08, 2010
title Trypsin In Complex With The Inhibitor 1-[3-(Aminomethyl) Phenyl]-N-[3-Fluoro-2'-(Methylsulfonyl)Biphenyl-4-Yl]-3- (Trifluoromethyl)-1h-Pyrazole-5-Carboxamide (Dpc423)
authors R.S.Alexander
compound source
Molecule: Cationic Trypsin
Chain: A
Fragment: Unp Residues 21-468
Synonym: Beta-Trypsin, Alpha-Trypsin Chain 1, Alpha-Trypsin Chain 2;
Ec: 3.4.21.4
 Organism_scientific: Bos Taurus
Organism_common: Bovine,Cow,Domestic Cattle,Domestic Cow
Organism_taxid: 9913
symmetry Space Group: P 21 21 21
R_factor 0.220 R_Free 0.234
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.400 64.000 69.300 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand CA, M35 BindingDB enzyme Hydrolase E.C.3.4.21.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDiscovery of 1-(2-aminomethylphenyl)-3-trifluoromethyl-N- [3-fluoro-2'-(aminosulfonyl)[1,1'-biphenyl)]-4-yl]-1H-pyrazole-5-carboxyam ide (DPC602), a potent, selective, and orally bioavailable factor Xa inhibitor(1)., Pruitt JR, Pinto DJ, Galemmo RA Jr, Alexander RS, Rossi KA, Wells BL, Drummond S, Bostrom LL, Burdick D, Bruckner R, Chen H, Smallwood A, Wong PC, Wright MR, Bai S, Luettgen JM, Knabb RM, Lam PY, Wexler RR, J Med Chem. 2003 Dec 4;46(25):5298-315. PMID:14640539
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (41 Kb) [Save to disk]
  • Biological Unit Coordinates (3m35.pdb1.gz) 37 Kb
  • LPC: Ligand-Protein Contacts for 3M35
  • CSU: Contacts of Structural Units for 3M35
  • Structure Factors (195 Kb)
  • Retrieve 3M35 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3M35 from S2C, [Save to disk]
  • Re-refined 3m35 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3M35 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 3M35
  • 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 3M35, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3m35_A] [3m35]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3M35: [Tryp_SPc ] by SMART
    • Other resources with information on 3M35
  • Community annotation for 3M35 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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