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Ligands
Code Name Style Show Link
MG Magnesium ion
SO4 Sulfate ion
FRU Beta-D-fructofuranose
GLC Alpha-D-glucopyranose
: Polysaccharide
Non-standard Residues
Code Name Show
FOX ((1r,2s,4r)-4-{[2-amino-5-(formylamino)-6-oxo-3,6-dihydropyrimidin-4-yl]amino}-2-hydroxycyclopentyl)methyl 5'-phosphate
Glycosylation
Code Name Emphasize
Modification
Code Name Show
Code : 4B9S   PDBj   RCSB PDB   PDBe
Header : TRANSFERASE/DNA
Title : Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion outside of the pre-insertion site.
Release Data : 2013-04-17
Compound :
mol_id molecule chains synonym
1 DNA POLYMERASE A DNA POLYMERASE I
ec: 2.7.7.7
mol_id molecule chains
2 5'-D(*AP*CP*CP*TP*GP*AP*CP*TP*CP*TP)-3' B
other_details: OXIDATIVE DNA LESION FAPYG AT C4
mol_id molecule chains
3 5'-D(*CP*AP*TP*FOXP*AP*GP*AP*GP*TP*CP*AP*GP*GP*TP*TP)-3' C
other_details: OXIDATIVE DNA LESION FAPYG AT C4
Source :
mol_id organism_scientific expression_system
1 GEOBACILLUS STEAROTHERMOPHILUS  (taxid:1422) ESCHERICHIA COLI  (taxid:511693)
expression_system_strain: BL21
expression_system_plasmid: PDEST007
other_details: GERMAN COLLECTION OF MICROORGANISMS DSM NO. 22
mol_id organism_scientific
2 GEOBACILLUS STEAROTHERMOPHILUS  (taxid:1422)
synthetic: yes
mol_id organism_scientific
3 GEOBACILLUS STEAROTHERMOPHILUS  (taxid:1422)
synthetic: yes
Authors : Gehrke, T.H., Lischke, U., Arnold, S., Schneider, S., Carell, T.
Keywords : TRANSFERASE-DNA COMPLEX, OXIDATIVE DNA LESION, DNA DAMAGE, TRANSLESION DNA SYNTHESIS, REPLICATION
Exp. method : X-RAY DIFFRACTION ( 1.73 Å )
Citation :

Unexpected Non-Hoogsteen-Based Mutagenicity Mechanism of Fapy-DNA Lesions.

Gehrke, T.H.,Lischke, U.,Gasteiger, K.L.  et al.
(2013)  Nat.Chem.Biol.  9 : 455

PubMed: 23685671
DOI: 10.1038/NCHEMBIO.1254

Chain : A
UniProt : E1C9K5 (E1C9K5_GEOSE)
Reaction: EC: Evidence:
Physiological Direction:
a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) = diphosphate + DNA(n+1) 2.7.7.7 ARBA:ARBA00024632, RuleBase:RU004460
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