1C5M Blood Clotting date Dec 22, 1999
title Structural Basis For Selectivity Of A Small Molecule, S1-Bin Micromolar Inhibitor Of Urokinase Type Plasminogen Activato
authors B.A.Katz, R.Mackman, C.Luong, K.Radika, A.Martelli, P.A.Sprengele H.Chan, L.Wong
compound source
Molecule: Protein (Coagulation Factor X)
Chain: D
Fragment: Heavy Chain
Ec: 3.4.21.6
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Protein (Coagulation Factor X)
Chain: F
Fragment: Light Chain
Ec: 3.4.21.6

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 31 2 1
R_factor 0.218 R_Free 0.307
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.820 81.820 108.790 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.95 Å
ligand
enzyme Hydrolase E.C.3.4.21.6 BRENDA
related structures by homologous chain: 1FJS, 1LPG
Gene
Ontology
ChainFunctionProcessComponent
D


F


Primary referenceStructural basis for selectivity of a small molecule, S1-binding, submicromolar inhibitor of urokinase-type plasminogen activator., Katz BA, Mackman R, Luong C, Radika K, Martelli A, Sprengeler PA, Wang J, Chan H, Wong L, Chem Biol 2000 Apr;7(4):299-312. PMID:10779411
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (123 Kb) [Save to disk]
  • Biological Unit Coordinates (1c5m.pdb1.gz) 116 Kb
  • CSU: Contacts of Structural Units for 1C5M
  • Likely Quarternary Molecular Structure file(s) for 1C5M
  • Structure Factors (124 Kb)
  • Retrieve 1C5M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1C5M from S2C, [Save to disk]
  • Re-refined 1c5m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1C5M 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 1C5M
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1C5M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1c5md_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1c5mf_, region F [Jmol] [rasmolscript] [script source]
  • 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: [1c5m_D] [1c5m_F] [1c5m]
  • SWISS-PROT database: [P00742]
  • Domain organization of [FA10_HUMAN] by SWISSPFAM
  • Domains found in 1C5M: [EGF_CA] [EGF_like] [Tryp_SPc ] by SMART
  • Other resources with information on 1C5M
  • Community annotation for 1C5M 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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