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Crystal structure of the human squalene synthase
Biology and Chemistry Report
3VJ8
  •   Structure Details   Hide

    Structure Keywords

    Keywords Transferase
    Text Farnesyl-diphosphate farnesyltransferase, Head-to-head synthases, Cholesterol biosynthesis, Oxidoreductase, Transferase

    Polymeric Molecules

    Chain A
    Description Squalene synthase 
    Fragment UNP residues 31-370 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 39449.3 
    Source Method genetically manipulated  
    Entity Name SQS, SS, FPP:FPP farnesyltransferase, Farnesyl-diphosphate farnesyltransferase 

     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A FDFT_HUMAN P37268     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    2.5.1.21      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    8610   Lipid Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Lipids Compounds Soluble in an Organic Solvent But Not or Sparingly in an Aqueous Solvent. 
    9058   Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Substances; Typically the Energy Requiring Part of Metabolism in Which Simpler Substances Are Transformed Into More Complex Ones. 
    16021   Integral Component of Membrane  The Component of a Membrane Consisting of Gene Products and Protein Complexes That Have Some Part That Penetrates At Least One Leaflet of the Membrane Bilayer. This Component Includes Gene Products That Are Buried in the Bilayer with No Exposure Outside the Bilayer. 
    4310   Farnesyl Diphosphate Farnesyltransferase Activity  Catalysis of the Reaction: 2 Farnesyl Diphosphate = Diphosphate + Presqualene Diphosphate. 
    16740   Transferase Activity  Catalysis of the Transfer of a Group E.g. a Methyl Group Glycosyl Group Acyl Group Phosphorus Containing or Other Groups From One Compound (generally Regarded As the Donor) to Another Compound (generally Regarded As the Acceptor). Transferase Is the Systematic Name For Any Enzyme of EC Class 2. 
    16765   Transferase Activity Transferring Alkyl or Aryl (other Than Methyl) Groups  Catalysis of the Transfer of an Alkyl or Aryl (but Not Methyl) Group From One Compound (donor) to Another (acceptor). 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Gene fdft1
    Host Scientific Name Escherichia coli  
    Host Strain Bl 21 (de3)
    Host Vector Type Plasmid
    Host Plasmid Name pET-28a


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    8 8p23.1-p22 2222     farnesyl-diphosphate farnesyltransferase 1 FDFT1    

    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
    rs11549147 LS-SNP   dbSNP   A 45 K - > MR Helix 51% (Exposed) 8 11666337
    rs200217031 LS-SNP   dbSNP   A 87 T - > S Turn 64% (Exposed) 8 11667238
    rs201072068 LS-SNP   dbSNP   A 88 I - > V Bend 5% (Buried) 8 11667240
    rs145118363 LS-SNP   dbSNP   A 101 H - > D Helix 28% (Intermediate) 8 11667279
    rs149103491 LS-SNP   dbSNP   A 102 S - > C Helix 35% (Intermediate) 8 11667283
    rs61732866 LS-SNP   dbSNP   A 104 L - > F Turn 0% (Buried) 8 11667288
    rs61732865 LS-SNP   dbSNP   A 105 Y - > S Turn 51% (Exposed) 8 11667292
    rs11549152 LS-SNP   dbSNP   A 114 S - > G Coil 2% (Buried) 8 11667318
    rs150867299 LS-SNP   dbSNP   A 141 T - > I Helix 54% (Exposed) 8 11679299
    rs200465082 LS-SNP   dbSNP   A 142 V - > E Helix 6% (Buried) 8 11679302
    rs201022112 LS-SNP   dbSNP   A 148 R - > Q Helix 38% (Exposed) 8 11679320
    rs138781417 LS-SNP   dbSNP   A 148 R - > W Helix 38% (Exposed) 8 11679319
    rs200916527 LS-SNP   dbSNP   A 163 T - > S Coil 38% (Exposed) 8 11679365
    rs199864384 LS-SNP   dbSNP   A 164 S - > F Bend 15% (Intermediate) 8 11679368
    rs76858827 LS-SNP   dbSNP   A 171 Y - > S Helix 6% (Buried) 8 11683534
    rs139230476 LS-SNP   dbSNP   A 174 Y - > C Helix 16% (Intermediate) 8 11683543
    rs141644705 LS-SNP   dbSNP   A 176 A - > S Turn 10% (Intermediate) 8 11683548
    rs140001524 LS-SNP   dbSNP   A 203 R - > H Helix 23% (Intermediate) 8 11683630
    rs200601839 LS-SNP   dbSNP   A 205 N - > H Helix 19% (Intermediate) 8 11683635
    rs139729511 LS-SNP   dbSNP   A 220 Y - > F Helix 3% (Buried) 8 11683681
    rs202060379 LS-SNP   dbSNP   A 249 P - > L 3/10 Helix 78% (Exposed) 8 11687796
    rs140063318 LS-SNP   dbSNP   A 252 I - > T Helix 15% (Intermediate) 8 11687805
    rs151238023 LS-SNP   dbSNP   A 257 Q - > L Helix 29% (Intermediate) 8 11687820
    rs140885465 LS-SNP   dbSNP   A 265 N - > S Helix 14% (Intermediate) 8 11687844
    rs113265443 LS-SNP   dbSNP   A 297 I - > V Helix 2% (Buried) 8 11689036
    rs199509756 LS-SNP   dbSNP   A 303 C - > G Helix 0% (Buried) 8 11689054
    rs138035023 LS-SNP   dbSNP   A 307 Q - > H 3/10 Helix 39% (Exposed) 8 11689068
    rs200992419 LS-SNP   dbSNP   A 317 R - > Q Coil 58% (Exposed) 8 11689097
    rs148180939 LS-SNP   dbSNP   A 330 N - > S Bend 48% (Exposed) 8 11689136
    rs111415615 LS-SNP   dbSNP   A 333 A - > S Helix 26% (Intermediate) 8 11689144
    rs141148322 LS-SNP   dbSNP   A 337 I - > V Helix 9% (Intermediate) 8 11689156
    rs79708434 LS-SNP   dbSNP   A 356 S - > C Helix 13% (Intermediate) 8 11695931
    rs202175915 LS-SNP   dbSNP   A 358 K - > R Helix 53% (Exposed) 8 11695937
    rs150943942 LS-SNP   dbSNP   A 359 T - > R Helix 0% (Buried) 8 11695940
    rs189378553 LS-SNP   dbSNP   A 369 Q - > R Coil 49% (Exposed) 8 11695970