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Solution Structure of matrix metalloproteinase 12 (MMP12) in the presence of N-Isobutyl-N-[4-methoxyphenylsulfonyl]glycyl hydroxamic acid (NNGH)
Biology and Chemistry Report
1YCM
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE
    Text macrophage metalloelastase, MMP-12, solution structure, NNGH, Structural Proteomics in Europe, SPINE, Structural Genomics, HYDROLASE

    Polymeric Molecules

    Chain A
    Description Macrophage metalloelastase 
    Mutation F171D 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 17615.8 
    Source Method genetically manipulated  
    Entity Name HME, Matrix metalloproteinase-12, MMP-12, Macrophage elastase, ME 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    CA  CALCIUM ION  Ca   40.08  View 
    NGH  N-ISOBUTYL-N-[4-METHOXYPHENYLSULFONYL]GLYCYL HYDROXAMIC ACID  C13 H20 N2 O5 S   316.37  View 
    ZN  ZINC ION  Zn   65.41  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A MMP12_HUMAN B2R9X8     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc Catalytic Site(s)
    3.4.24.65        
    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. 
    42060   Wound Healing  The Series of Events That Restore Integrity to a Damaged Tissue Following an Injury. 
    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  
    Genus Homo
    Gene mmp12, hme
    Host Scientific Name Escherichia coli  
    Host Genus Escherichia


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    11 11q22.3 4321     matrix metallopeptidase 12 (macrophage elastase) MMP12    

    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
    rs201868025 LS-SNP   dbSNP   A 113 Y - > C Beta Ladder 66% (Exposed) 11 102743607
    rs61730844 LS-SNP   dbSNP   A 127 R - > H Helix 53% (Exposed) 11 102742653
    rs202141359 LS-SNP   dbSNP   A 129 D - > V Helix 8% (Buried) 11 102742647
    rs201046473 LS-SNP   dbSNP   A 130 V - > A Helix 1% (Buried) 11 102742644
    rs180918521 LS-SNP   dbSNP   A 135 R - > Q Helix 53% (Exposed) 11 102742629
    rs200079972 LS-SNP   dbSNP   A 139 Q - > P Helix 19% (Intermediate) 11 102742617
    rs188003361 LS-SNP   dbSNP   A 147 L - > F Coil 4% (Buried) 11 102742592
    rs199891377 LS-SNP   dbSNP   A 162 V - > G Beta Ladder 29% (Intermediate) 11 102742548
    rs61730845 LS-SNP   dbSNP   A 165 R - > H Coil 86% (Exposed) 11 102742539
    rs201575382 LS-SNP   dbSNP   A 165 R - > C Coil 86% (Exposed) 11 102742540
    rs200263416 LS-SNP   dbSNP   A 168 H - > Y Bend 43% (Exposed) 11 102742447 ZN
    rs201174015 LS-SNP   dbSNP   A 198 D - > N Beta Ladder 0% (Buried) 11 102742357 CA
    rs200787919 LS-SNP   dbSNP   A 210 T - > N Beta Ladder 11% (Intermediate) 11 102738796 NGH
    rs202042208 LS-SNP   dbSNP   A 218 H - > Y Helix 12% (Intermediate) 11 102738774 ZN,NGH
    rs200751457 LS-SNP   dbSNP   A 219 E - > *K Helix 1% (Buried) 11 102738771 NGH
    rs199654990 LS-SNP   dbSNP   A 220 I - > L Helix 0% (Buried) 11 102738768
    rs201408320 LS-SNP   dbSNP   A 221 G - > A Helix 0% (Buried) 11 102738764
    rs200176944 LS-SNP   dbSNP   A 233 K - > T Turn 64% (Exposed) 11 102738728
    rs199783271 LS-SNP   dbSNP   A 235 V - > I Bend 3% (Buried) 11 102738723 NGH
    rs183458117 LS-SNP   dbSNP   A 249 R - > CS Coil 71% (Exposed) 11 102738681
    rs201987840 LS-SNP   dbSNP   A 249 R - > H Coil 71% (Exposed) 11 102738680