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Human DNA polymerase iota incorporating dATP opposite N-(deoxyguanosin-8-yl)-1-aminopyrene lesion
Biology and Chemistry Report
4EYI
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSFERASE/DNA
    Text DNA polymerase, TRANSFERASE-DNA complex

    Polymeric Molecules

    Chain B
    Description DNA polymerase iota 
    Fragment UNP residues 26-445 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 47027.8 
    Source Method genetically manipulated  
    Entity Name Eta2, RAD30 homolog B 
    Chain T
    Description DNA template 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polydeoxyribonucleotide 
    Formula Weight 2673.9 
    Source Method synthetic  
    Chain P
    Description DNA primer 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polydeoxyribonucleotide 
    Formula Weight 2107.4 
    Source Method synthetic  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    DTP  2'-DEOXYADENOSINE 5'-TRIPHOSPHATE  C10 H16 N5 O12 P3   491.18  View 
    MG  MAGNESIUM ION  Mg   24.31  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    B POLI_HUMAN Q8N590     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    2.7.7.7      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain B
    GO ID   Ontology GO Term Definition
    6281   DNA Repair  The Process of Restoring DNA After Damage. Genomes Are Subject to Damage by Chemical and Physical Agents in the Environment (e.g. Uv and Ionizing Radiations Chemical Mutagens Fungal and Bacterial Toxins Etc.) and by Free Radicals or Alkylating Agents Endogenously Generated in Metabolism. DNA Is Also Damaged Because of Errors During Its Replication. a Variety of Different DNA Repair Pathways Have Been Reported That Include Direct Reversal Base Excision Repair Nucleotide Excision Repair Photoreactivation Bypass Double Strand Break Repair Pathway and Mismatch Repair Pathway. 
    3684   Damaged DNA Binding  Interacting Selectively and Non Covalently with Damaged Dna. 
    3887   DNA Directed DNA Polymerase Activity  Catalysis of the Reaction: Deoxynucleoside Triphosphate + Dna(n) = Diphosphate + Dna(n+1); the Synthesis of DNA From Deoxyribonucleotide Triphosphates in the Presence of a DNA Template and a 3'hydroxyl Group. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain B
    Common Name Human
    Scientific Name Homo sapiens  
    Gene poli, rad30b
    Host Scientific Name Escherichia coli  


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    18 18q21.1 11201     polymerase (DNA directed) iota POLI    

    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
    rs139346720 LS-SNP   dbSNP   B 45 I - > V Helix 40% (Exposed) 18 51797822
    rs3218778 LS-SNP   dbSNP   B 71 R - > G Turn 27% (Intermediate) 18 51800340 DTP
    rs200195344 LS-SNP   dbSNP   B 79 M - > I Beta Ladder 19% (Intermediate) 18 51800366
    rs142974796 LS-SNP   dbSNP   B 92 V - > I Beta Ladder 28% (Intermediate) 18 51800403
    rs151128120 LS-SNP   dbSNP   B 105 M - > V Helix 12% (Intermediate) 18 51800442
    rs143166193 LS-SNP   dbSNP   B 139 R - > S Helix 30% (Intermediate) 18 51804158
    rs140298800 LS-SNP   dbSNP   B 150 A - > V Coil 63% (Exposed) 18 51804190
    rs142549889 LS-SNP   dbSNP   B 154 S - > L Bend 24% (Intermediate) 18 51804202
    rs150991803 LS-SNP   dbSNP   B 159 N - > D 3/10 Helix 48% (Exposed) 18 51804216
    rs200895161 LS-SNP   dbSNP   B 164 N - > K Coil 50% (Exposed) 18 51807044
    rs140364196 LS-SNP   dbSNP   B 168 V - > I Helix 63% (Exposed) 18 51807054
    rs200234897 LS-SNP   dbSNP   B 203 K - > I Helix 11% (Intermediate) 18 51807160
    rs200319776 LS-SNP   dbSNP   B 231 H - > R Helix 28% (Intermediate) 18 51807244
    rs3218784 LS-SNP   dbSNP   B 236 I - > M 3/10 Helix 3% (Buried) 18 51807260
    rs76578033 LS-SNP   dbSNP   B 236 I - > L 3/10 Helix 3% (Buried) 18 51807258
    rs3218783 LS-SNP   dbSNP   B 251 E - > *K Helix 43% (Exposed) 18 51809236
    rs201346546 LS-SNP   dbSNP   B 259 R - > H Helix 56% (Exposed) 18 51809261
    rs200692792 LS-SNP   dbSNP   B 260 D - > G Helix 38% (Exposed) 18 51809264
    rs143700892 LS-SNP   dbSNP   B 264 F - > L Bend 22% (Intermediate) 18 51809277
    rs148150744 LS-SNP   dbSNP   B 266 P - > T Helix 36% (Exposed) 18 51809281
    rs141942738 LS-SNP   dbSNP   B 278 A - > P Helix 2% (Buried) 18 51809317
    rs146107490 LS-SNP   dbSNP   B 280 R - > H Helix 50% (Exposed) 18 51809324
    rs199780326 LS-SNP   dbSNP   B 289 D - > G Coil 17% (Intermediate) 18 51809351
    rs112212191 LS-SNP   dbSNP   B 290 N - > D Coil 83% (Exposed) 18 51809353
    rs11558769 LS-SNP   dbSNP   B 349 Y - > N Coil 101% (Exposed) 18 51813703
    rs149914424 LS-SNP   dbSNP   B 357 R - > C Coil 73% (Exposed) 18 51813727
    rs192363974 LS-SNP   dbSNP   B 364 I - > V Coil 10% (Intermediate) 18 51813748
    rs200852409 LS-SNP   dbSNP   B 365 P - > R Coil 34% (Intermediate) 18 51813752
    rs200028845 LS-SNP   dbSNP   B 382 P - > S Helix 33% (Intermediate) 18 51818223
    rs148677085 LS-SNP   dbSNP   B 388 M - > T Helix 11% (Intermediate) 18 51818242
    rs113888456 LS-SNP   dbSNP   B 392 R - > Q Helix 46% (Exposed) 18 51818254
    rs142168361 LS-SNP   dbSNP   B 394 M - > V Helix 9% (Buried) 18 51818259