1P7M

SOLUTION STRUCTURE AND BASE PERTURBATION STUDIES REVEAL A NOVEL MODE OF ALKYLATED BASE RECOGNITION BY 3-METHYLADENINE DNA GLYCOSYLASE I

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1p7ma_	All alpha proteins	DNA-glycosylase	DNA-glycosylase	3-Methyladenine DNA glycosylase I (Tag)	3-Methyladenine DNA glycosylase I (Tag)	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	DNA-glycosylase	8033415	3000905	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Adenine_glyco	e1p7mA1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: DNA-glycosylase	F: Adenine_glyco	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.340.30	Mainly Alpha	Orthogonal Bundle	Endonuclease III	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03352	Methyladenine glycosylase (Adenine_glyco)	Methyladenine glycosylase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	DNA-3-methyladenine glycosylase I	DNA-3-methyladenine glycosylase activity alkylbase DNA N-glycosylase activity hydrolase activity, acting on glycosyl bonds catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid hydrolase activity DNA-3-methylbase glycosylase activity DNA N-glycosylase activity hydrolase activity, hydrolyzing N-glycosyl compounds catalytic activity cation binding ion binding binding metal ion binding DNA-3-methyladenine glycosylase activity alkylbase DNA N-glycosylase activity hydrolase activity, acting on glycosyl bonds catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid hydrolase activity DNA-3-methylbase glycosylase activity DNA N-glycosylase activity hydrolase activity, hydrolyzing N-glycosyl compounds catalytic activity cation binding ion binding binding metal ion binding small molecule binding	cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA alkylation repair cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA alkylation repair cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair base-excision repair	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR005019	Methyladenine glycosylase	Family
A	IPR004597	DNA-3-methyladenine glycosylase I	Family
A	IPR011257	DNA glycosylase	Homologous Superfamily
A	IPR052891	DNA-3-methyladenine glycosylase	Family

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	DNA-3-methyladenine glycosylase I M-CSA #655	DNA glycosylases are able to remove bases from DNA by hydrolysing the glycosidic bond between the ribose sugar and the base. This enables specific glycosylases to correct particular defects in DNA such as mispairing or the insertion of a base analogue, making them of particular interest towards an understanding of DNA repair in cells. 3-methyladenine DNA glycosylase I is able to recognise the cationic base 3-methyladenine and remove it wherever it occurs in the sequence. As part of the HhH-GPD superfamily of DNA glycosylases, which includes well characterised members such as MutY, it works by a monofunctional mechanism to remove a purine, resulting in a relatively low rate enhancement of between 10 and 20 times the rate of spontaneous hydrolysis. Unlike other glycosylases that have a HhH motif, 3-methyladenine DNA glycosylase I does not have a conserved aspartate, indicating an alternative base excision mechanism is in place.	Defined by 3 residues: TYR:A-16GLU:A-38TRP:A-46 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 3.2.2.20 (PDB Primary Data) Search M-CSA Motif + EC 3.2.2.20

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.