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RECRUITING ZINC TO MEDIATE POTENT, SPECIFIC INHIBITION OF SERINE PROTEASES
Biology and Chemistry Report
1C1V
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE/HYDROLASE INHIBITOR
    Text ZN(II)-MEDIATED SERINE PROTEASE INHIBITORS, PH DEPENDENCE, ZN(II) AFFINITY STUCTURE-BASED DRUG DESIGN, SERINE PROTEASE/INHIBITOR, BLOOD CLOTTING, HYDROLASE-HYDROLASE INHIBITOR COMPLEX

    Polymeric Molecules

    Chain L
    Description ALPHA THROMBIN 
    Fragment LIGHT CHAIN 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 4096.6 
    Source Method natural source  
    Chain H
    Description ALPHA THROMBIN 
    Fragment HEAVY CHAIN 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 29780.4 
    Source Method natural source  
    Chain I
    Description PROTEIN (ACETYL HIRUDIN) 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 1491.5 
    Source Method synthetic  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    BAB  BIS(5-AMIDINO-BENZIMIDAZOLYL)METHANE  C17 H19 N8   335.39  View 
    NA  SODIUM ION  Na   22.99  View 
    ZN  ZINC ION  Zn   65.41  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    H THRB_HUMAN P00734     
    I HIR2_HIRME P28504     
    L THRB_HUMAN P00734     

    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)
    3.4.21.5        
    3.4.21.5        

    Protein Analyses

    Measured Binding Affinities   

     
  •   Gene Details   Hide

    Natural Source

    Chain I
    Scientific Name Hirudo medicinalis  
    Chain H
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Chain L
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo

    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    11 11p11 2147     coagulation factor II (thrombin) F2    

    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
    rs121918481 LS-SNP   dbSNP   H 32 M - > T Beta Ladder 0% (Buried) 11 46749554
    rs147456134 LS-SNP   dbSNP   H 35 R - > W Beta Ladder 42% (Exposed) 11 46749562
    rs5897 LS-SNP   dbSNP   H 38 P - > T Coil 32% (Intermediate) 11 46749571
    rs121918479 LS-SNP   dbSNP   H 77 R - > C Coil 12% (Intermediate) 11 46749688
    rs121918485 LS-SNP   dbSNP   H 77 R - > H Coil 12% (Intermediate) 11 46749689
    rs150569436 LS-SNP   dbSNP   H 78 I - > T Turn 83% (Exposed) 11 46749692
    rs121918482 LS-SNP   dbSNP   H 83 R - > H Beta Ladder 15% (Intermediate) 11 46749707
    rs139552841 LS-SNP   dbSNP   H 108 R - > W Beta Ladder 1% (Buried) 11 46750281
    rs143498218 LS-SNP   dbSNP   H 108 R - > Q Beta Ladder 1% (Buried) 11 46750282
    rs121918478 LS-SNP   dbSNP   H 113 R - > W Coil 70% (Exposed) 11 46750296
    rs202076180 LS-SNP   dbSNP   H 140 T - > M Beta Ladder 0% (Buried) 11 46750378
    rs140404878 LS-SNP   dbSNP   H 162 T - > M Beta Ladder 1% (Buried) 11 46750986
    rs199772906 LS-SNP   dbSNP   H 166 N - > K Beta Ladder 4% (Buried) 11 46750999
    rs144011338 LS-SNP   dbSNP   H 166 N - > S Beta Ladder 4% (Buried) 11 46750998
    rs144885724 LS-SNP   dbSNP   H 168 G - > V Coil 4% (Buried) 11 46751004
    rs201541084 LS-SNP   dbSNP   H 186 P - > L Beta Ladder 2% (Buried) 11 46751058
    rs143064939 LS-SNP   dbSNP   H 195 R - > L Beta 10% (Intermediate) 11 46751085 NA,BAB
    rs121918486 LS-SNP   dbSNP   H 247 D - > E Helix 5% (Buried) 11 46760874
    rs121918480 LS-SNP   dbSNP   H 253 G - > V Coil 63% (Exposed) 11 46760891