3I7G Hydrolase date Jul 08, 2009
title Mmp-13 In Complex With A Non Zinc-Chelating Inhibitor
authors N.A.Farrow
compound source
Molecule: Collagenase 3
Chain: A, B
Fragment: Unp Residues 104-274
Synonym: Matrix Metalloproteinase-13, Mmp-13
Ec: 3.4.24.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mmp13
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.173 R_Free 0.228
crystal
cell
length a length b length c angle alpha angle beta angle gamma
133.770 36.100 95.333 90.00 130.77 90.00
method X-Ray Diffractionresolution 1.95 Å
ligand 732, CA, FMT, ZN BindingDB enzyme Hydrolase E.C.3.4.24 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceImproving potency and selectivity of a new class of non-Zn-chelating MMP-13 inhibitors., Heim-Riether A, Taylor SJ, Liang S, Gao DA, Xiong Z, Michael August E, Collins BK, Farmer BT 2nd, Haverty K, Hill-Drzewi M, Junker HD, Mariana Margarit S, Moss N, Neumann T, Proudfoot JR, Keenan LS, Sekul R, Zhang Q, Li J, Farrow NA, Bioorg Med Chem Lett. 2009 Sep 15;19(18):5321-4. Epub 2009 Aug 3. PMID:19692239
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (3i7g.pdb1.gz) 61 Kb
  • Biological Unit Coordinates (3i7g.pdb2.gz) 120 Kb
  • LPC: Ligand-Protein Contacts for 3I7G
  • CSU: Contacts of Structural Units for 3I7G
  • Structure Factors (177 Kb)
  • Retrieve 3I7G in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3I7G from S2C, [Save to disk]
  • Re-refined 3i7g structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3I7G 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 3I7G
  • 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 3I7G, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3i7g_B] [3i7g_A] [3i7g]
  • SWISS-PROT database: [P45452]
  • Domain organization of [MMP13_HUMAN] by SWISSPFAM
  • Domain found in 3I7G: [ZnMc ] by SMART
  • Other resources with information on 3I7G
  • Community annotation for 3I7G 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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