2C8W Hydrolase Hydrolase Inhibitor date Dec 08, 2005
title Thrombin Inhibitors
authors N.Howard, C.Abell, W.Blakemore, R.Carr, G.Chessari, M.Congreve, S. H.Jhoti, C.W.Murray, L.C.A.Seavers, R.L.M.Van Montfort
compound source
Molecule: Thrombin Light Chain
Chain: A
Fragment: Fragment Alpha Thrombin, Residues 328-363
Ec: 3.4.21.5
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Blood Plasma

Molecule: Thrombin Heavy Chain
Chain: B
Fragment: Fragment Alpha Thrombin, Residues 364-622
Ec: 3.4.21.5

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Blood Plasma

Molecule: Hirudin Variant-2
Chain: I
Fragment: Residues 61-72
Synonym: Hirugen

Organism_scientific: Hirudo Medicinalis
Organism_common: Medicinal Leech
Organism_taxid: 6421
symmetry Space Group: C 1 2 1
R_factor 0.164 R_Free 0.219
crystal
cell
length a length b length c angle alpha angle beta angle gamma
70.579 71.906 72.200 90.00 100.42 90.00
method X-Ray Diffractionresolution 1.96 Å
ligand C7M, NA, TYS enzyme Hydrolase E.C.3.4.21.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceApplication of fragment screening and fragment linking to the discovery of novel thrombin inhibitors., Howard N, Abell C, Blakemore W, Chessari G, Congreve M, Howard S, Jhoti H, Murray CW, Seavers LC, van Montfort RL, J Med Chem. 2006 Feb 23;49(4):1346-55. PMID:16480269
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (64 Kb) [Save to disk]
  • Biological Unit Coordinates (2c8w.pdb1.gz) 58 Kb
  • LPC: Ligand-Protein Contacts for 2C8W
  • CSU: Contacts of Structural Units for 2C8W
  • Likely Quarternary Molecular Structure file(s) for 2C8W
  • Structure Factors (188 Kb)
  • Retrieve 2C8W in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2C8W from S2C, [Save to disk]
  • Re-refined 2c8w structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2C8W 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 2C8W
  • 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 2C8W, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2c8w_I] [2c8w_A] [2c8w] [2c8w_B]
  • SWISS-PROT database: [P09945] [P00734]
  • Domain organization of [HIRV2_HIRME] [THRB_HUMAN] by SWISSPFAM
  • Domain found in 2C8W: [Tryp_SPc ] by SMART
  • Other resources with information on 2C8W
  • Community annotation for 2C8W at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science