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Crystal Structures of Proto-Oncogene Kinase Pim1: a Target of Aberrant Somatic Hypermutations in Diffuse Large Cell Lymphoma
Biology and Chemistry Report
1YWV
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSFERASE
    Text Ser/Thr protein kinase, TRANSFERASE

    Polymeric Molecules

    Chain A
    Description Proto-oncogene serine/threonine-protein kinase Pim-1 
    Fragment catalytic domain 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 33832.6 
    Source Method genetically manipulated  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    IMD  IMIDAZOLE  C3 H5 N2   69.09  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A PIM1_HUMAN P11309     

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc Catalytic Site(s)
    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. 
    43066   Negative Regulation of Apoptotic Process  Any Process That Stops Prevents or Reduces the Frequency Rate or Extent of Cell Death by Apoptotic Process. 
    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  
    Genus Homo
    Gene pim1
    Host Scientific Name Escherichia coli  
    Host Genus Escherichia


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    6 6p21.2 5292     Pim-1 proto-oncogene, serine/threonine kinase PIM1    

    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
    rs149210226 LS-SNP   dbSNP   A 82 N - > D Turn 87% (Exposed) 6 37138904
    rs35760989 LS-SNP   dbSNP   A 124 E - > Q Bend 49% (Exposed) 6 37139030
    rs200523275 LS-SNP   dbSNP   A 135 E - > K Helix 70% (Exposed) 6 37139063
    rs33989191 LS-SNP   dbSNP   A 142 E - > D Helix 36% (Intermediate) 6 37139086
    rs141143854 LS-SNP   dbSNP   A 157 H - > Y Helix 18% (Intermediate) 6 37139129
    rs200536541 LS-SNP   dbSNP   A 157 H - > P Helix 18% (Intermediate) 6 37139130
    rs200495767 LS-SNP   dbSNP   A 184 L - > V Beta Ladder 4% (Buried) 6 37139210
    rs137884665 LS-SNP   dbSNP   A 197 V - > F Coil 24% (Intermediate) 6 37139249
    rs199791472 LS-SNP   dbSNP   A 206 V - > E 3/10 Helix 22% (Intermediate) 6 37140781
    rs141695323 LS-SNP   dbSNP   A 282 E - > V Helix 70% (Exposed) 6 37141770
    rs9349029 LS-SNP   dbSNP   A 300 A - > V Helix 0% (Buried) 6 37141824
    rs199624946 LS-SNP   dbSNP   A 302 I - > T Helix 55% (Exposed) 6 37141830