Brand  (β version)

PDB ID: 3GO8

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Ligands
Code Name Style Show Link
ZN Zinc ion PoSSuM
Non-standard Residues
Code Name Show
8OG 8-oxo-2'-deoxy-guanosine-5'-monophosphate
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 3GO8   PDBj   RCSB PDB   PDBe
Header : LYASE/DNA
Title : MutM encountering an intrahelical 8-oxoguanine (oxoG) lesion in EC3-loop deletion complex
Release Data : 2009-12-15
Compound :
mol_id molecule chains synonym
1 Formamidopyrimidine-DNA glycosylase A Fapy-DNA glycosylase,DNA-(apurinic or apyrimidinic site) lyase MutM,AP lyase MutM
ec: 3.2.2.23,4.2.99.18
fragment: MutM
mutation: Q166C, deletion of 220-235
mol_id molecule chains
2 5'-D(P*GP*GP*TP*AP*GP*AP*TP*CP*CP*GP*GP*AP*CP*G)-3' B
mol_id molecule chains
3 5'-D(*GP*CP*GP*TP*CP*CP*(8OG)P*GP*AP*TP*CP*TP*AP*C)-3' C
Source :
mol_id organism_scientific organism_common expression_system
1 Geobacillus stearothermophilus  (taxid:1422) Bacillus stearothermophilus Escherichia coli  (taxid:562)
gene: mutM, fpg
expression_system_strain: BL21(DE3) PlysS
expression_system_vector_type: plasmid
expression_system_plasmid: pET24B
mol_id organism_scientific
2 Synthetic construct  (taxid:32630)
synthetic: yes
other_details: synthetic DNA
mol_id organism_scientific
3 Synthetic construct  (taxid:32630)
synthetic: yes
other_details: synthetic DNA
Authors : Spong, M.C., Qi, Y., Verdine, G.L.
Keywords : DNA glycosylase, DNA repair, damage search, base extrusion, disulfide crosslinking, DNA damage, DNA-binding, Glycosidase, Hydrolase, Lyase, Metal-binding, Multifunctional enzyme, Zinc-finger, LYASE-DNA COMPLEX
Exp. method : X-RAY DIFFRACTION ( 1.890 Å )
Citation :

Encounter and extrusion of an intrahelical lesion by a DNA repair enzyme

Qi, Y.,Spong, M.C.,Nam, K.  et al.
(2009)  Nature  462 : 762 - 766

PubMed: 20010681
DOI: 10.1038/nature08561

Reaction

Chain : A
UniProt : P84131 (P84131_GEOSE)
Reaction: EC: Evidence:
Physiological Direction:
2'-deoxyribonucleotide-(2'-deoxyribose 5'-phosphate)-2'- deoxyribonucleotide-DNA = a 3'-end 2'-deoxyribonucleotide-(2,3- dehydro-2,3-deoxyribose 5'-phosphate)-DNA + a 5'-end 5'-monophospho- 2'-deoxyribonucleoside-DNA + H(+) 4.2.99.18 ARBA:ARBA00024490, HAMAP- Rule:MF_00103
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Hydrolysis of DNA containing ring-opened 7-methylguanine residues, releasing 2,6-diamino-4-hydroxy-5-(N- methyl)formamidopyrimidine. 3.2.2.23 ARBA:ARBA00001668, HAMAP- Rule:MF_00103
-