1D8M Hydrolase date Oct 25, 1999
title Crystal Structure Of Mmp3 Complexed With A Heterocycle-Based
authors S.Pikul, K.M.Dunham, N.G.Almstead, B.De, M.G.Natchus, Y.O.Taiwo, L.E.Williams, B.A.Hynd, L.C.Hsieh, M.J.Janusz, F.Gu, G.E.Mieling
compound source
Molecule: Stromelysin-1 Precursor
Chain: A, B
Fragment: Catalytic Domain
Synonym: Mmp-3
Ec: 3.4.24.17
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell: Fibroblast
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.277 R_Free 0.315
crystal
cell
length a length b length c angle alpha angle beta angle gamma
37.960 78.590 105.930 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.44 Å
ligand BBH, CA, ZN BindingDB enzyme Hydrolase E.C.3.4.24.17 BRENDA
related structures by homologous chain: 1D8F, 1G05
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceHeterocycle-based MMP inhibitors with P2' substituents., Pikul S, Dunham KM, Almstead NG, De B, Natchus MG, Taiwo YO, Williams LE, Hynd BA, Hsieh LC, Janusz MJ, Gu F, Mieling GE, Bioorg Med Chem Lett 2001 Apr 23;11(8):1009-13. PMID:11327577
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (61 Kb) [Save to disk]
  • Biological Unit Coordinates (1d8m.pdb1.gz) 28 Kb
  • Biological Unit Coordinates (1d8m.pdb2.gz) 30 Kb
  • LPC: Ligand-Protein Contacts for 1D8M
  • CSU: Contacts of Structural Units for 1D8M
  • Likely Quarternary Molecular Structure file(s) for 1D8M
  • Retrieve 1D8M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1D8M from S2C, [Save to disk]
  • View 1D8M 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 1D8M
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1D8M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1d8ma_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1d8mb_, region B [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: [1d8m_A] [1d8m] [1d8m_B]
  • SWISS-PROT database: [P08254]
  • Domain organization of [MMP3_HUMAN] by SWISSPFAM
  • Domain found in 1D8M: [ZnMc ] by SMART
  • Other resources with information on 1D8M
  • Community annotation for 1D8M at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science