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New Pharmacophore for Serine Protease Inhibition Revealed by Crystal Structure of Human Urokinase-type Plasminogen Activator Complexed with a Cyclic Peptidyl Inhibitor, upain-1
Biology and Chemistry Report
2NWN
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE
    Text urokinase-type plasminogen activator, peptidyl inhibitor, pharmacophore, Structural Genomics, Structural Genomics Consortium, SGC, HYDROLASE

    Polymeric Molecules

    Chain A
    Description Plasminogen activator, urokinase 
    Fragment C-terminal domain, residues 16-250 
    Mutation C122A/N145Q 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 28442.6 
    Source Method genetically manipulated  
    Entity Name uPA 
    Chain B
    Description upain-1 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 1494.7 
    Source Method synthetic  

     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A UROK_HUMAN P00749     

    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)
    3.4.21.73        
     
  •   Gene Details   Hide

    Genetic Source

    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Host Scientific Name Pichia pastoris  
    Host Genus Pichia
    Host Strain X 33
    Host Vector Type Plasmid
    Host Plasmid Name pPICZALPHAA


    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
    rs140333999 LS-SNP   dbSNP   A 17 I - > F Beta 14% (Intermediate) 10 75673374
    rs145865648 LS-SNP   dbSNP   A 31 A - > V Beta Ladder 0% (Buried) 10 75673417
    rs145070893 LS-SNP   dbSNP   A 38 R - > W Coil 67% (Exposed) 10 75673437
    rs1050120 LS-SNP   dbSNP   A 51 I - > M Beta Ladder 11% (Intermediate) 10 75673478
    rs148318390 LS-SNP   dbSNP   A 58 S - > C 3/10 Helix 0% (Buried) 10 75673497
    rs201795845 LS-SNP   dbSNP   A 59 A - > T Turn 0% (Buried) 10 75673500
    rs2227567 LS-SNP   dbSNP   A 68 K - > Q Beta Ladder 0% (Buried) 10 75673748
    rs192623012 LS-SNP   dbSNP   A 69 K - > N Bend 0% (Buried) 10 75673753
    rs150389556 LS-SNP   dbSNP   A 73 I - > V Bend 5% (Buried) 10 75673763
    rs201687228 LS-SNP   dbSNP   A 106 T - > M Beta Ladder 0% (Buried) 10 75673863
    rs183371156 LS-SNP   dbSNP   A 110 H - > Y Coil 7% (Buried) 10 75673874
    rs34930250 LS-SNP   dbSNP   A 119 R - > H Coil 43% (Exposed) 10 75674549
    rs149650503 LS-SNP   dbSNP   A 138 P - > L Beta Ladder 0% (Buried) 10 75674606
    rs146899371 LS-SNP   dbSNP   A 162 D - > N Beta Ladder 3% (Buried) 10 75675011
    rs139271997 LS-SNP   dbSNP   A 166 P - > L Helix 84% (Exposed) 10 75675024
    rs72816325 LS-SNP   dbSNP   A 187 Y - > H Coil 72% (Exposed) 10 75675086
    rs147382460 LS-SNP   dbSNP   A 191 E - > D Coil 0% (Buried) 10 75675100
    rs199520267 LS-SNP   dbSNP   A 193 T - > N Turn 0% (Buried) 10 75675105
    rs150522269 LS-SNP   dbSNP   A 224 R - > C Beta Ladder 20% (Intermediate) 10 75676186
    rs3805118 LS-SNP   dbSNP   A 235 R - > L Helix 10% (Intermediate) 10 75676220