1GKC Hydrolase Hydrolase Inhibitor date Aug 10, 2001
title Mmp9-Inhibitor Complex
authors S.Rowsell, R.A.Pauptit
compound source
Molecule: 92 Kda Type Iv Collagenase
Chain: A, B
Fragment: Catalytic Domain Residues 107-215,391-443
Synonym: Mmp-9,92 Kda Gelatinase, Gelatinase B, Matrix Metalloproteinase-9;
Ec: 3.4.24.35
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 41 21 2
R_factor 0.207 R_Free 0.239
crystal
cell
length a length b length c angle alpha angle beta angle gamma
56.005 56.005 262.655 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand CA, NFH, ZN enzyme Hydrolase E.C.3.4.24.35 BRENDA
related structures by homologous chain: 1GKD, 1L6J
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of human MMP9 in complex with a reverse hydroxamate inhibitor., Rowsell S, Hawtin P, Minshull CA, Jepson H, Brockbank SM, Barratt DG, Slater AM, McPheat WL, Waterson D, Henney AM, Pauptit RA, J Mol Biol 2002 May 24;319(1):173-81. PMID:12051944
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (62 Kb) [Save to disk]
  • Biological Unit Coordinates (1gkc.pdb1.gz) 29 Kb
  • Biological Unit Coordinates (1gkc.pdb2.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 1GKC
  • CSU: Contacts of Structural Units for 1GKC
  • Likely Quarternary Molecular Structure file(s) for 1GKC
  • Structure Factors (134 Kb)
  • Retrieve 1GKC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GKC from S2C, [Save to disk]
  • Re-refined 1gkc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1GKC 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 1GKC
  • 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 1GKC, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gkca_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1gkcb_, 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: [1gkc_B] [1gkc] [1gkc_A]
  • SWISS-PROT database: [P14780]
  • Domain organization of [MMP9_HUMAN] by SWISSPFAM
  • Domain found in 1GKC: [ZnMc ] by SMART
  • Other resources with information on 1GKC
  • Community annotation for 1GKC 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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