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Crystal structure of histone methyltransferase SET7/9 in comlex with AAM-1
Biology and Chemistry Report
3VUZ
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSFERASE/TRANSFERASE INHIBITOR
    Text SET domain, transferase, adenosylmethionine binding, TRANSFERASE-TRANSFERASE INHIBITOR complex

    Polymeric Molecules

    Chain A
    Description Histone-lysine N-methyltransferase SETD7 
    Fragment UNP residues 111-366 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 29083.4 
    Source Method genetically manipulated  
    Entity Name Histone H3-K4 methyltransferase SETD7, H3-K4-HMTase SETD7, Lysine N-methyltransferase 7, SET domain-containing protein 7, SET7/9 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    K15  5'-{[(3S)-3-amino-3-carboxypropyl](hexyl)amino}-5'-deoxyadenosine  C20 H33 N7 O5   451.52  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A SETD7_HUMAN B5WWL3     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    2.1.1.43      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    6355   Regulation of Transcription DNA Templated  Any Process That Modulates the Frequency Rate or Extent of Cellular DNA Templated Transcription. 
    34968   Histone Lysine Methylation  The Modification of a Histone by Addition of a Methyl Group to a Lysine Residue. 
    5694   Chromosome  A Structure Composed of a Very Long Molecule of DNA and Associated Proteins (e.g. Histones) That Carries Hereditary Information. 
    18024   Histone Lysine N Methyltransferase Activity  Catalysis of the Reaction: S Adenosyl L Methionine + Histone L Lysine = S Adenosyl L Homocysteine + Histone N6 Methyl L Lysine. the Methylation of Peptidyl Lysine in Histones Forms N6 Methyl L Lysine N6 N6 Dimethyl L Lysine and N6 N6 N6 Trimethyl L Lysine Derivatives. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Gene setd7, kiaa1717, kmt7, set7, set9
    Host Scientific Name Cell-free synthesis  
    Host Vector Type Plasmid
    Host Plasmid Name PX100709-08


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    4 4q28 80854     SET domain containing (lysine methyltransferase) 7 SETD7    

    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
    rs78984848 LS-SNP   dbSNP   A 13 E - > G Coil 0% (Buried) 4 140477254
    rs147068285 LS-SNP   dbSNP   A 30 Y - > D Coil 0% (Buried) 4 140468156
    rs141627277 LS-SNP   dbSNP   A 42 H - > Q Coil 0% (Buried) 4 140468118
    rs147886067 LS-SNP   dbSNP   A 48 R - > Q Coil 0% (Buried) 4 140468101
    rs201937432 LS-SNP   dbSNP   A 48 R - > W Coil 0% (Buried) 4 140468102
    rs139666025 LS-SNP   dbSNP   A 85 T - > M Coil 0% (Buried) 4 140454437
    rs146233760 LS-SNP   dbSNP   A 111 K - > T Coil 0% (Buried) 4 140454359
    rs143297123 LS-SNP   dbSNP   A 115 R - > C Coil 0% (Buried) 4 140454348
    rs76651232 LS-SNP   dbSNP   A 154 A - > T Beta Ladder 0% (Buried) 4 140450287
    rs149456418 LS-SNP   dbSNP   A 160 I - > V Beta Ladder 50% (Exposed) 4 140450269
    rs150697186 LS-SNP   dbSNP   A 200 C - > G Coil 42% (Exposed) 4 140444554
    rs141988823 LS-SNP   dbSNP   A 214 E - > K Helix 51% (Exposed) 4 140444512
    rs200323700 LS-SNP   dbSNP   A 249 R - > Q Beta Ladder 12% (Intermediate) 4 140441447
    rs61734299 LS-SNP   dbSNP   A 266 T - > I Coil 11% (Intermediate) 4 140439162 NULL
    rs200291509 LS-SNP   dbSNP   A 288 C - > SY Coil 20% (Intermediate) 4 140439096
    rs139141710 LS-SNP   dbSNP   A 304 I - > M Beta Ladder 38% (Exposed) 4 140439047
    rs149141539 LS-SNP   dbSNP   A 309 V - > A Beta Ladder 37% (Exposed) 4 140432992