2JH0 Hydrolase Hydrolase Inhibitor date Feb 19, 2007
title Human Thrombin Hirugen Inhibitor Complex
authors S.Senger, C.Chan, M.A.Convery, J.A.Hubbard, R.J.Young, G.P.Shah, N
compound source
Molecule: Thrombin Light Chain
Chain: C
Fragment: Light Chain, Residues 328-363
Synonym: Coagulation Factor II, Alpha Thrombin
Ec: 3.4.21.5
Other_details: Light Chain Has One Disulphide Bond To Heavy
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Blood Plasma

Molecule: Thrombin Heavy Chain
Chain: D
Fragment: Heavy Chain, Residues 364-622
Synonym: Coagulation Factor II, Alpha Thrombin
Ec: 3.4.21.5
Other_details: Light Chain Has One Disulphide Bond To Heavy

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

Molecule: Hirudin Iiia
Chain: H
Fragment: Residues 55-64
Synonym: Hirugen
Engineered: Yes
Other_details: Residue 63 Is A Sulfonated Tyrosine

Synthetic: Yes
Organism_scientific: Hirudo Medicinalis
Organism_common: Medicinal Leech
Organism_taxid: 6421
symmetry Space Group: C 1 2 1
R_factor 0.183 R_Free 0.210
crystal
cell
length a length b length c angle alpha angle beta angle gamma
70.070 71.556 71.931 90.00 100.12 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand 701, CA, NA, TYS BindingDB enzyme Hydrolase E.C.3.4.21.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
C


D


Primary referenceSulfonamide-related conformational effects and their importance in structure-based design., Senger S, Chan C, Convery MA, Hubbard JA, Shah GP, Watson NS, Young RJ, Bioorg Med Chem Lett. 2007 May 15;17(10):2931-4. Epub 2007 Feb 16. PMID:17336062
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (59 Kb) [Save to disk]
  • Biological Unit Coordinates (2jh0.pdb1.gz) 54 Kb
  • LPC: Ligand-Protein Contacts for 2JH0
  • CSU: Contacts of Structural Units for 2JH0
  • Likely Quarternary Molecular Structure file(s) for 2JH0
  • Structure Factors (330 Kb)
  • Retrieve 2JH0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2JH0 from S2C, [Save to disk]
  • Re-refined 2jh0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2JH0 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 2JH0
  • 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 2JH0, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2jh0_C] [2jh0] [2jh0_H] [2jh0_D]
  • SWISS-PROT database: [P28507] [P00734]
  • Domain organization of [HIR3A_HIRME] [THRB_HUMAN] by SWISSPFAM
  • Domain found in 2JH0: [Tryp_SPc ] by SMART
  • Other resources with information on 2JH0
  • Community annotation for 2JH0 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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