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STRUCTURE OF HUMAN CYTOCHROME P450 CYP2C9
Biology and Chemistry Report
1OG5
  •   Structure Details   Hide

    Structure Keywords

    Keywords ELECTRON TRANSPORT
    Text DRUG METABOLISM, ELECTRON TRANSPORT, OXIDOREDUCTASE, HEME, MONOOXYGENASE

    Polymeric Molecules

    Chain A,B
    Description CYTOCHROME P450 2C9 
    Fragment SOLUBLE DOMAIN, RESIDUES 30-490 
    Mutation YES 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 54169.2 
    Source Method genetically manipulated  
    Entity Name (R)-LIMONENE 6-MONOOXYGENASE, (S)-LIMONENE 6-MONOOXYGENASE, (S)-LIMONENE 7-MONOOXYGENASE, CYPIIC9, CYTOCHROME P-450MP, CYTOCHROME P450 MP-4, CYTOCHROME P450 MP-8, CYTOCHROME P450 PB-1, S-MEPHENYTOIN 4-HYDROXYLASE 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    HEC  HEME C  C34 H34 Fe N4 O4   618.50  View 
    SWF  S-WARFARIN  C19 H16 O4   308.33  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B CP2C9_HUMAN P11712     

    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)
    A B  1.14.13.48        
    A B  1.14.13.49        
    A B  1.14.13.80        
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B
    GO ID   Ontology GO Term Definition
    55114   Oxidation Reduction Process  A Metabolic Process That Results in the Removal or Addition of One or More Electrons to or From a Substance with or Without the Concomitant Removal or Addition of a Proton or Protons. 
    5783   Endoplasmic Reticulum  The Irregular Network of Unit Membranes Visible Only by Electron Microscopy That Occurs in the Cytoplasm of Many Eukaryotic Cells. the Membranes Form a Complex Meshwork of Tubular Channels Which Are Often Expanded Into Slitlike Cavities Called Cisternae. the Er Takes Two Forms Rough (or Granular) with Ribosomes Adhering to the Outer Surface and Smooth (with No Ribosomes Attached). 
    5789   Endoplasmic Reticulum Membrane  The Lipid Bilayer Surrounding the Endoplasmic Reticulum. 
    16020   Membrane  Double Layer of Lipid Molecules That Encloses All Cells and in Eukaryotes Many Organelles; May Be a Single or Double Lipid Bilayer; Also Includes Associated Proteins. 
    31090   Organelle Membrane  A Membrane That Is One of the Two Lipid Bilayers of an Organelle Envelope or the Outermost Membrane of Single Membrane Bound Organelle. 
    43231   Intracellular Membrane Bounded Organelle  Organized Structure of Distinctive Morphology and Function Bounded by a Single or Double Lipid Bilayer Membrane and Occurring Within the Cell. Includes the Nucleus Mitochondria Plastids Vacuoles and Vesicles. Excludes the Plasma Membrane. 
    4497   Monooxygenase Activity  Catalysis of the Incorporation of One Atom From Molecular Oxygen Into a Compound and the Reduction of the Other Atom of Oxygen to Water. 
    16491   Oxidoreductase Activity  Catalysis of an Oxidation Reduction (redox) Reaction a Reversible Chemical Reaction in Which the Oxidation State of an Atom or Atoms Within a Molecule Is Altered. One Substrate Acts As a Hydrogen or Electron Donor and Becomes Oxidized While the Other Acts As Hydrogen or Electron Acceptor and Becomes Reduced. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B
    Common Name Human
    Scientific Name Homo sapiens  
    Host Scientific Name Escherichia coli  
    Host Strain Xl1 Blue
    Host Vector Pcwori+


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    10 10q24 1559     cytochrome P450, family 2, subfamily C, polypeptide 9 CYP2C9    

    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
    rs142240658 LS-SNP   dbSNP   A 30 P - > L Coil 50% (Exposed) 10 96698528
    rs111639787 LS-SNP   dbSNP   A 42 I - > V Helix 19% (Intermediate) 10 96698563
    rs201491545 LS-SNP   dbSNP   A 73 P - > T Beta Ladder 43% (Exposed) 10 96701663
    rs111808915 LS-SNP   dbSNP   A 74 I - > V Beta Ladder 0% (Buried) 10 96701666
    rs139656048 LS-SNP   dbSNP   A 88 I - > T Turn 49% (Exposed) 10 96701709
    rs72558187 LS-SNP   dbSNP   A 90 L - > P Turn 26% (Intermediate) 10 96701715
    rs12414460 LS-SNP   dbSNP   A 124 R - > LQ Helix 11% (Intermediate) 10 96701988 HEC
    rs72558189 LS-SNP   dbSNP   A 125 R - > H Helix 70% (Exposed) 10 96701991
    rs200965026 LS-SNP   dbSNP   A 130 T - > M Helix 4% (Buried) 10 96702006
    rs200183364 LS-SNP   dbSNP   A 132 R - > Q Bend 44% (Exposed) 10 96702012
    rs199523631 LS-SNP   dbSNP   A 132 R - > W Bend 44% (Exposed) 10 96702011
    rs148615754 LS-SNP   dbSNP   A 141 I - > N Helix 4% (Buried) 10 96702039
    rs1799853 LS-SNP   dbSNP   A 144 R - > C Helix 1% (Buried) 10 96702047
    rs141489852 LS-SNP   dbSNP   A 144 R - > H Helix 1% (Buried) 10 96702048
    rs17847037 LS-SNP   dbSNP   A 150 R - > C Helix 55% (Exposed) 10 96702065
    rs75838422 LS-SNP   dbSNP   A 150 R - > H Helix 55% (Exposed) 10 96702066
    rs7900194 LS-SNP   dbSNP   A 150 R - > L Helix 55% (Exposed) 10 96702066
    rs202199847 LS-SNP   dbSNP   A 159 T - > N Turn 17% (Intermediate) 10 96702093
    rs147617899 LS-SNP   dbSNP   A 172 C - > S Helix 0% (Buried) 10 96707569
    rs199539783 LS-SNP   dbSNP   A 174 P - > A Helix 0% (Buried) 10 96707574
    rs142123260 LS-SNP   dbSNP   A 178 I - > S Helix 5% (Buried) 10 96707587 HEC
    rs201560188 LS-SNP   dbSNP   A 178 I - > V Helix 5% (Buried) 10 96707586 HEC
    rs200149294 LS-SNP   dbSNP   A 180 S - > F Helix 1% (Buried) 10 96707593
    rs150435881 LS-SNP   dbSNP   A 186 R - > C Coil 17% (Intermediate) 10 96707610
    rs200629270 LS-SNP   dbSNP   A 190 K - > E Turn 67% (Exposed) 10 96707622
    rs72558191 LS-SNP   dbSNP   A 208 L - > V Helix 55% (Exposed) 10 96707676 SWF
    rs199841629 LS-SNP   dbSNP   A 241 K - > E Helix 15% (Intermediate) 10 96708943
    rs2256871 LS-SNP   dbSNP   A 251 H - > R Helix 10% (Intermediate) 10 96708974
    rs9332130 LS-SNP   dbSNP   A 272 E - > G Helix 51% (Exposed) 10 96709037
    rs182132442 LS-SNP   dbSNP   A 279 P - > T Bend 98% (Exposed) 10 96731876
    rs111719851 LS-SNP   dbSNP   A 287 L - > M Helix 0% (Buried) 10 96731900
    rs150071523 LS-SNP   dbSNP   A 289 N - > S Helix 4% (Buried) 10 96731907
    rs72558192 LS-SNP   dbSNP   A 299 T - > A Helix 1% (Buried) 10 96731936
    rs74441467 LS-SNP   dbSNP   A 306 L - > M Helix 1% (Buried) 10 96731957
    rs57505750 LS-SNP   dbSNP   A 327 I - > T Helix 2% (Buried) 10 96740958
    rs28371685 LS-SNP   dbSNP   A 335 R - > W Bend 42% (Exposed) 10 96740981
    rs58368927 LS-SNP   dbSNP   A 337 P - > L Coil 1% (Buried) 10 96740988
    rs201055266 LS-SNP   dbSNP   A 345 M - > T Coil 0% (Buried) 10 96741012
    rs1057909 LS-SNP   dbSNP   A 358 Y - > C Helix 10% (Intermediate) 10 96741051
    rs56165452 LS-SNP   dbSNP   A 359 I - > NT Helix 1% (Buried) 10 96741054
    rs1057910 LS-SNP   dbSNP   A 359 I - > L Helix 1% (Buried) 10 96741053
    rs28371686 LS-SNP   dbSNP   A 360 D - > E Coil 7% (Buried) 10 96741058
    rs150663116 LS-SNP   dbSNP   A 363 P - > L Turn 2% (Buried) 10 96741066
    rs139532088 LS-SNP   dbSNP   A 365 S - > R Coil 13% (Intermediate) 10 96741073 HEC,SWF
    rs139413779 LS-SNP   dbSNP   A 394 V - > M Helix 0% (Buried) 10 96745820
    rs187793133 LS-SNP   dbSNP   A 396 H - > R Turn 16% (Intermediate) 10 96745827
    rs72558193 LS-SNP   dbSNP   A 397 D - > A Coil 23% (Intermediate) 10 96745830
    rs28371687 LS-SNP   dbSNP   A 413 L - > P Beta 6% (Buried) 10 96745878
    rs145299907 LS-SNP   dbSNP   A 422 S - > G Coil 17% (Intermediate) 10 96745904
    rs147634562 LS-SNP   dbSNP   A 424 Y - > H Turn 14% (Intermediate) 10 96745910
    rs200382419 LS-SNP   dbSNP   A 445 L - > P Helix 2% (Buried) 10 96748646 HEC
    rs59485260 LS-SNP   dbSNP   A 447 L - > F Helix 1% (Buried) 10 96748653
    rs202201137 LS-SNP   dbSNP   A 457 N - > S Beta Ladder 41% (Exposed) 10 96748682
    rs141011391 LS-SNP   dbSNP   A 474 N - > S Coil 43% (Exposed) 10 96748733
    rs9332239 LS-SNP   dbSNP   A 489 P - > S Beta Ladder 45% (Exposed) 10 96748777