Brand  (β version)

PDB ID: 3U6D

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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
08Q 5'-O-{(S)-hydroxy[(2-sulfanylethyl)amino]phosphoryl}thymidine

Structure summary

Code : 3U6D   PDBj   RCSB PDB   PDBe
Header : HYDROLASE/DNA
Title : MutM set 1 GpGo
Release Data : 2012-04-25
Compound :
mol_id molecule chains
1 Formamidopyrimidine-DNA glycosylase A
ec: 3.2.2.23
mutation: E3Q, Q166C,V222P
mol_id molecule chains
2 DNA (5'-D(*A*GP*GP*TP*AP*GP*AP*TP*CP*CP*CP*GP*AP*CP*GP*C)-3') B
mol_id molecule chains
3 DNA (5'-D(*TP*GP*CP*GP*TP*CP*GP*(8OG)P*GP*AP*(TX)P*CP*TP*AP*CP*C)-3') C
Source :
mol_id organism_scientific expression_system
1 Geobacillus stearothermophilus  (taxid:1422) Escherichia coli  (taxid:562)
mol_id organism_scientific
2
synthetic: yes
other_details: synthetic DNA
mol_id organism_scientific
3
synthetic: yes
other_details: synthetic DNA
Authors : Sung, R.J., Zhang, M., Qi, Y., Verdine, G.L.
Keywords : DNA glycosylase, DNA repair, lesion recognition, sequence context, disulfide crosslinking, HYDROLASE-DNA complex
Exp. method : X-RAY DIFFRACTION ( 1.870 Å )
Citation :

Sequence-dependent structural variation in DNA undergoing intrahelical inspection by the DNA glycosylase MutM.

Sung, R.J.,Zhang, M.,Qi, Y.  et al.
(2012)  J.Biol.Chem.  287 : 18044 - 18054

PubMed: 22465958
DOI: 10.1074/jbc.M111.313635

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'-phospho-2'- deoxyribonucleoside-DNA + H(+) 4.2.99.18 ARBA:ARBA00044632, HAMAP-Rule:MF_00103
-
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
-
Cofactor: Evidence: Note:
Zn(2+) ECO:0000256 | HAMAP-Rule:MF_00103
Binds 1 zinc ion per subunit.