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Crystal Structure of PDE10A with a biaryl ether inhibitor ((1-(3-(4-((1H-benzo[d]imidazol-2-yl)amino)phenoxy)pyridin-2-yl)piperidin-4-yl)methanol)
Biology and Chemistry Report
4HEU
  •   Structure Details   Hide

    Structure Keywords

    Keywords hydrolase/hydrolase inhibitor
    Text PDE10A, inhibitors, phosphodiesterase 10A, biaryl ethers, hydrolase-hydrolase inhibitor complex

    Polymeric Molecules

    Chain A,B
    Description cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A 
    Fragment human PDE10a, residues 442-779 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 36857.7 
    Source Method genetically manipulated  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    15J  (1-{3-[4-(1H-benzimidazol-2-ylamino)phenoxy]pyridin-2-yl}piperidin-4-yl)methanol  C24 H25 N5 O2   415.49  View 
    SO4  SULFATE ION  O4 S   96.06  View 
    ZN  ZINC ION  Zn   65.41  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B PDE10_HUMAN Q6FHX1     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A B  3.1.4.17      
    A B  3.1.4.35      

    Protein Analyses

    Measured Binding Affinities   

     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B
    Common Name Human
    Scientific Name Homo sapiens  
    Gene pde10a
    Host Scientific Name Escherichia coli  


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    6 6q26 10846     phosphodiesterase 10A PDE10A    

    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
    rs113840141 LS-SNP   dbSNP   A 451 Q - > R Coil 78% (Exposed) 6 165809845
    rs61733392 LS-SNP   dbSNP   A 477 P - > A Helix 17% (Intermediate) 6 165808716
    rs140135628 LS-SNP   dbSNP   A 484 V - > I Helix 1% (Buried) 6 165808695
    rs79937339 LS-SNP   dbSNP   A 486 R - > Q Helix 52% (Exposed) 6 165808688
    rs200615367 LS-SNP   dbSNP   A 600 I - > V Turn 4% (Buried) 6 165792840
    rs113894012 LS-SNP   dbSNP   A 603 T - > A Turn 86% (Exposed) 6 165792831
    rs138994439 LS-SNP   dbSNP   A 654 R - > H Helix 34% (Intermediate) 6 165756986
    rs117826255 LS-SNP   dbSNP   A 674 V - > I Helix 24% (Intermediate) 6 165756927
    rs148138380 LS-SNP   dbSNP   A 701 I - > M Coil 61% (Exposed) 6 165752812
    rs2224252 LS-SNP   dbSNP   A 706 R - > K 3/10 Helix 32% (Intermediate) 6 165752798
    rs2860112 LS-SNP   dbSNP   A 707 D - > N 3/10 Helix 75% (Exposed) 6 165752796
    rs199519823 LS-SNP   dbSNP   A 755 V - > A Helix 39% (Exposed) 6 165746590
    rs145722515 LS-SNP   dbSNP   A 757 R - > Q Turn 64% (Exposed) 6 165746584