An Information Portal to 106082 Biological Macromolecular Structures

Crystal Structure Of N1-[3-[[5-bromo-2-[[3-[(1-pyrrolidinylcarbonyl)amino]phenyl]amino]-4-pyrimidinyl]amino]propyl]-2,2-dimethylpropanediamide Complexed with Human PDK1
Biology and Chemistry Report
  •   Structure Details   Hide

    Structure Keywords

    Keywords Transferase

    Polymeric Molecules

    Chain A
    Description 3-phosphoinositide dependent protein kinase-1 
    Fragment Kinase Domain 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 33130.4 
    Source Method genetically manipulated  
    Entity Name hPDK1 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    CL  CHLORIDE ION  Cl   35.45  View 
    GOL  GLYCEROL  C3 H8 O3   92.09  View 
    SO4  SULFATE ION  O4 S   96.06  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 Catalytic Site(s)        
    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). 

    Protein Analyses

    Measured Binding Affinities   

  •   Gene Details   Hide

    Genetic Source

    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Gene pdpk1, pdk1
    Host Scientific Name Unidentified baculovirus  
    Host Strain Sf 21 Cells
    Host Vector Type Pbluebac4.5
    Host Plasmid Name PDK1-CAT-PBB4.5

    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
    rs77608557 LS-SNP   dbSNP   A 198 G - > S Helix 77% (Exposed) 16 2615679
    rs79032757 LS-SNP   dbSNP   A 198 G - > D Helix 77% (Exposed) 16 2615680
    rs144186731 LS-SNP   dbSNP   A 255 T - > M Turn 63% (Exposed) 16 2627480