1BMM Hydrolase Hydrolase Inhibitor date Nov 14, 1995
title Human Alpha-Thrombin Complexed With [S-(R,R)]-4-[(Aminoimi Amino]-N-[[1-[3-Hydroxy-2-[(2-Naphthalenylsulfonyl)Amino]-1 Oxopropyl]-2-Pyrrolidinyl] Methyl]Butanamide (Bms-186282)
authors M.Malley, J.Sack
compound source
Molecule: Alpha-Thrombin
Chain: L
Ec: 3.4.21.5
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Plasma

Molecule: Alpha-Thrombin
Chain: H
Ec: 3.4.21.5

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

Molecule: Hirudin I
Chain: I

Organism_scientific: Hirudo Medicinalis
Organism_common: Medicinal Leech
Organism_taxid: 6421
Tissue: Plasma
symmetry Space Group: P 21 21 2
R_factor 0.177 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
108.170 81.220 46.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand BM2 BindingDB enzyme Hydrolase E.C.3.4.21.5 BRENDA
related structures by homologous chain: 1AVG, 1RD3
Gene
Ontology
ChainFunctionProcessComponent
H


L


Primary referenceCrystallographic determination of the structures of human alpha-thrombin complexed with BMS-186282 and BMS-189090., Malley MF, Tabernero L, Chang CY, Ohringer SL, Roberts DG, Das J, Sack JS, Protein Sci 1996 Feb;5(2):221-8. PMID:8745399
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk]
  • Biological Unit Coordinates (1bmm.pdb1.gz) 51 Kb
  • LPC: Ligand-Protein Contacts for 1BMM
  • CSU: Contacts of Structural Units for 1BMM
  • Likely Quarternary Molecular Structure file(s) for 1BMM
  • Retrieve 1BMM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BMM from S2C, [Save to disk]
  • View 1BMM 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 1BMM
  • 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 1BMM, from MSDmotif at EBI
  • Genome occurence of 1BMM's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1bmm.1, region L:,H [Jmol] [rasmolscript] [script source]
  • Fold representative 1bmm 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: [1bmm_I] [1bmm_H] [1bmm_L] [1bmm]
  • SWISS-PROT database: [P28507] [P00734]
  • Domain organization of [HIR3A_HIRME] [THRB_HUMAN] by SWISSPFAM
  • Domain found in 1BMM: [Tryp_SPc ] by SMART
  • Other resources with information on 1BMM
  • Community annotation for 1BMM 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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