1D9I Hydrolase Hydrolase Inhibitor date Oct 27, 1999
title Structure Of Thrombin Complexed With Selective Non-Electophi Inhibitors Having Cyclohexyl Moieties At P1
authors R.Krishnan, I.Mochalkin, R.Arni, A.Tulinsky
compound source
Molecule: Thrombin
Chain: A
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Hirugen
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Hirudo Medicinalis
Organism_taxid: 6421
Other_details: This Sequence Was Chemically Synthesized
symmetry Space Group: C 1 2 1
R_factor 0.153 R_Free NULL
length a length b length c angle alpha angle beta angle gamma
71.460 72.190 73.120 90.00 100.70 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand 00P, NA, TYS enzyme Hydrolase E.C. BRENDA
related structures by homologous chain: 1BBR, 1TA2, 1THR

Primary referenceStructure of thrombin complexed with selective non-electrophilic inhibitors having cyclohexyl moieties at P1., Krishnan R, Mochalkin I, Arni R, Tulinsky A, Acta Crystallogr D Biol Crystallogr 2000 Mar;56 ( Pt 3):294-303. PMID:10713516
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk]
  • Biological Unit Coordinates (1d9i.pdb1.gz) 51 Kb
  • LPC: Ligand-Protein Contacts for 1D9I
  • CSU: Contacts of Structural Units for 1D9I
  • Likely Quarternary Molecular Structure file(s) for 1D9I
  • Retrieve 1D9I in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1D9I from S2C, [Save to disk]
  • View 1D9I 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 1D9I
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1D9I, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1d9ia_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1d9i from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1d9i_A] [1d9i_I] [1d9i]
  • SWISS-PROT database: [P00734]
  • Domain organization of [THRB_HUMAN] by SWISSPFAM
  • Domain found in 1D9I: [Tryp_SPc ] by SMART
  • Other resources with information on 1D9I
  • Community annotation for 1D9I 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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