2R2M Hydrolase Hydrolase Inhibitor date Aug 27, 2007
title 2-(2-Chloro-6-Fluorophenyl)Acetamides As Potent Thrombin Inh
authors J.Spurlino
compound source
Molecule: Thrombin Light Chain
Chain: A
Fragment: Unp Residues 334-359
Ec: 3.4.21.5
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Thrombin Heavy Chain
Chain: B
Ec: 3.4.21.5
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F2

Molecule: Hirudin-3a
Chain: H
Fragment: Unp Residues 55-65
Synonym: Hirudin Iiia
Engineered: Yes

Organism_scientific: Hirudo Medicinalis
Organism_common: Medicinal Leech
Organism_taxid: 6421
symmetry Space Group: C 1 2 1
R_factor 0.168 R_Free 0.214
crystal
cell
length a length b length c angle alpha angle beta angle gamma
70.950 72.135 72.850 90.00 100.64 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand I50 BindingDB enzyme Hydrolase E.C.3.4.21.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary reference2-(2-Chloro-6-fluorophenyl)acetamides as potent thrombin inhibitors., Lee L, Kreutter KD, Pan W, Crysler C, Spurlino J, Player MR, Tomczuk B, Lu T, Bioorg Med Chem Lett. 2007 Nov 15;17(22):6266-9. Epub 2007 Sep 8. PMID:17889527
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (56 Kb) [Save to disk]
  • Biological Unit Coordinates (2r2m.pdb1.gz) 52 Kb
  • LPC: Ligand-Protein Contacts for 2R2M
  • CSU: Contacts of Structural Units for 2R2M
  • Likely Quarternary Molecular Structure file(s) for 2R2M
  • Structure Factors (244 Kb)
  • Retrieve 2R2M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2R2M from S2C, [Save to disk]
  • Re-refined 2r2m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2R2M 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 2R2M
  • 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 2R2M, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2r2m_A] [2r2m_H] [2r2m] [2r2m_B]
  • SWISS-PROT database: [P09945] [P00734]
  • Domain organization of [HIRV2_HIRME] [THRB_HUMAN] by SWISSPFAM
  • Domain found in 2R2M: [Tryp_SPc ] by SMART
  • Other resources with information on 2R2M
  • Community annotation for 2R2M 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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