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Human PDK1 Kinase Domain in Complex with Allosteric Compound PS182 Bound to the PIF-Pocket
Biology and Chemistry Report
4AW0
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSFERASE
    Text TRANSFERASE, ALLOSTERIC REGULATION, ALLOSTERIC SITE, PHOSPHORYLATION, AGC PROTEIN KINASE

    Polymeric Molecules

    Chain A
    Description 3-PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1 
    Fragment CATALYTIC DOMAIN, RESIDUES 51-359 
    Mutation YES 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 35469.0 
    Source Method genetically manipulated  
    Entity Name HPDK1 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    ATP  ADENOSINE-5'-TRIPHOSPHATE  C10 H16 N5 O13 P3   507.18  View 
    DMS  DIMETHYL SULFOXIDE  C2 H6 O S   78.13  View 
    DTD  DITHIANE DIOL  C4 H8 O2 S2   152.24  View 
    MG  MAGNESIUM ION  Mg   24.31  View 
    MJF  [(1R)-3-(4-chlorophenyl)-3-oxo-1-phenylpropyl]propanedioic acid  C18 H15 Cl O5   346.76  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A PDPK1_HUMAN H0Y4Z0     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    2.7.11.1      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    6468   Protein Phosphorylation  The Process of Introducing a Phosphate Group On to a Protein. 
    4672   Protein Kinase Activity  Catalysis of the Phosphorylation of an Amino Acid Residue in a Protein Usually According to the Reaction: a Protein + ATP = a Phosphoprotein + Adp. 
    4674   Protein Serine/threonine Kinase Activity  Catalysis of the Reactions: ATP + Protein Serine = Adp + Protein Serine Phosphate and ATP + Protein Threonine = Adp + Protein Threonine Phosphate. 
    5524   ATP Binding  Interacting Selectively and Non Covalently with ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    16772   Transferase Activity Transferring Phosphorus Containing Groups  Catalysis of the Transfer of a Phosphorus Containing Group From One Compound (donor) to Another (acceptor). 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Host Common Name Fall Armyworm
    Host Scientific Name Spodoptera frugiperda  
    Host Cell Line Sf9
    Host Vector Type Baculovirus
    Host Plasmid Name PFASTBAC


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    16 16p13.3 5170     3-phosphoinositide dependent protein kinase 1 PDPK1    

    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
    rs79495278 LS-SNP   dbSNP   A 182 T - > I Helix 0% (Buried) 16 2615632
    rs79032757 LS-SNP   dbSNP   A 198 G - > D Helix 77% (Exposed) 16 2615680
    rs77608557 LS-SNP   dbSNP   A 198 G - > S Helix 77% (Exposed) 16 2615679
    rs144186731 LS-SNP   dbSNP   A 255 T - > M Helix 52% (Exposed) 16 2627480