An Information Portal to 111558 Biological Macromolecular Structures

Human MMP8 in complex with L-glutamate motif inhibitor
Biology and Chemistry Report
  •   Structure Details   Hide

    Structure Keywords

    Text pseudo dipeptides, potent inhibitors, metzincin, Zinc metalloprotease, HYDROLASE-HYDROLASE INHIBITOR complex

    Polymeric Molecules

    Chain A
    Description Neutrophil collagenase 
    Fragment MMP8 catalytic domain (UNP residues 104-262) 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 17669.3 
    Source Method genetically manipulated  
    Entity Name Matrix metalloproteinase-8, MMP-8, PMNL collagenase, PMNL-CL 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    CA  CALCIUM ION  Ca   40.08  View 
    E1S  N~2~-{3-[4-(5-methylthiophen-2-yl)phenyl]propanoyl}-L-alpha-glutamine  C19 H22 N2 O4 S   374.45  View 
    MES  2-(N-MORPHOLINO)-ETHANESULFONIC ACID  C6 H13 N O4 S   195.24  View 
    ZN  ZINC ION  Zn   65.41  View 
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A MMP8_HUMAN P22894     

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    6508   Proteolysis  The Hydrolysis of Proteins Into Smaller Polypeptides And/or Amino Acids by Cleavage of Their Peptide Bonds. 
    31012   Extracellular Matrix  A Structure Lying External to One or More Cells Which Provides Structural Support For Cells or Tissues; May Be Completely External to the Cell (as in Animals and Bacteria) or Be Part of the Cell (as in Plants). 
    4222   Metalloendopeptidase Activity  Catalysis of the Hydrolysis of Internal Alpha Peptide Bonds in a Polypeptide Chain by a Mechanism in Which Water Acts As a Nucleophile One or Two Metal Ions Hold the Water Molecule in Place and Charged Amino Acid Side Chains Are Ligands For the Metal Ions. 
    8237   Metallopeptidase Activity  Catalysis of the Hydrolysis of Peptide Bonds by a Mechanism in Which Water Acts As a Nucleophile One or Two Metal Ions Hold the Water Molecule in Place and Charged Amino Acid Side Chains Are Ligands For the Metal Ions. 
    8270   Zinc Ion Binding  Interacting Selectively and Non Covalently with Zinc (zn) Ions. 

    Protein Analyses

    Measured Binding Affinities   

  •   Gene Details   Hide

    Genetic Source

    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Gene clg1, mmp8
    Host Scientific Name Escherichia coli  
    Host Strain Bl21
    Host Vector Type Pet24a

    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    11 11q22.3 4317     matrix metallopeptidase 8 MMP8    

    Single Nucleotide Polymorphisms (from LS-SNP database)

    SNP ID LsSnp Link dbSNP Link Chain PDB position Amino acid changes Secondary structure Solvent Accessibility Chromosome Chromosome position Ligand
    rs138678979 LS-SNP   dbSNP   A 90 R - > C Coil 50% (Exposed) 11 102593179
    rs201312052 LS-SNP   dbSNP   A 90 R - > H Coil 50% (Exposed) 11 102593178
    rs145740809 LS-SNP   dbSNP   A 93 L - > V Beta Ladder 0% (Buried) 11 102593170
    rs76594083 LS-SNP   dbSNP   A 98 R - > Q Coil 44% (Exposed) 11 102592488
    rs184567579 LS-SNP   dbSNP   A 106 E - > D Helix 62% (Exposed) 11 102592463
    rs35056226 LS-SNP   dbSNP   A 134 G - > E Bend 38% (Exposed) 11 102592380
    rs141078916 LS-SNP   dbSNP   A 157 N - > S Bend 54% (Exposed) 11 102592224 CA
    rs34428739 LS-SNP   dbSNP   A 173 D - > V Coil 9% (Buried) 11 102592176 CA
    rs144176881 LS-SNP   dbSNP   A 191 L - > S Helix 0% (Buried) 11 102589297
    rs202073157 LS-SNP   dbSNP   A 196 A - > T Helix 0% (Buried) 11 102589283
    rs12792229 LS-SNP   dbSNP   A 209 S - > Y Bend 86% (Exposed) 11 102589243
    rs148545029 LS-SNP   dbSNP   A 211 P - > S Turn 70% (Exposed) 11 102589238
    rs145760647 LS-SNP   dbSNP   A 219 Y - > C Coil 27% (Intermediate) 11 102589213 E1S
    rs149832691 LS-SNP   dbSNP   A 222 R - > G Coil 35% (Intermediate) 11 102589205 E1S
    rs35243553 LS-SNP   dbSNP   A 226 N - > Y Turn 87% (Exposed) 11 102589193 MES