DNA-glycosylase superfamily

SCOP classification

• Root: SCOP hierarchy in SUPERFAMILY [ 0] (11)
• Class: All alpha proteins [ 46456] (284)
• Fold: DNA-glycosylase [ 48149]
• Superfamily: DNA-glycosylase [ 48150] (6)
• Families:
  • Endonuclease III [ 48151]
  • Mismatch glycosylase [ 48154] (3)
  • 3-Methyladenine DNA glycosylase I (Tag) [ 74756]
  • 3-Methyladenine DNA glycosylase III (MagIII) [ 101349]
  • DNA repair glycosylase, 2 C-terminal domains [ 48157] (2)
  • AgoG-like [ 116976] (2)

---

Superfamily statistics

	Genomes (3,147)	Uniprot 2018_03 genome	PDB chains (SCOP 1.75)
Domains	13,031	94,988	36
Proteins	12,993	94,818	36

---

Functional annotation

• General category: Information
• Detailed category: DNA replication/repair

---

Enzyme Commission (EC)

Highlighted in gray are those with FDR_all>0.001

	EC term	FDR (all)	IC level	SDEO level	Annotation (direct or inherited)
Enzyme Commission (EC)	Carbon-oxygen lyases	0	0.7274	--	DIRECT
Enzyme Commission (EC)	DNA-3-methyladenine glycosylase II	0.00000000000001237	2.259	--	DIRECT
Enzyme Commission (EC)	Glycosylases	0.000001459	0.8356	--	DIRECT
Enzyme Commission (EC)	Hydrolases	1	0.04271	--	INHERITED FROM: DNA-3-methyladenine glycosylase II || Glycosylases || Hydrolyzing N-glycosyl compounds
Enzyme Commission (EC)	Lyases	0	0.4169	Least Informative	DIRECT
Enzyme Commission (EC)	Other carbon-oxygen lyases	0	1.715	Informative	DIRECT
Enzyme Commission (EC)	Hydrolyzing N-glycosyl compounds	0.000000000006815	1.481	Informative	DIRECT
Enzyme Commission (EC)	DNA-(apurinic or apyrimidinic site) lyase	0	1.782	Highly Informative	DIRECT

---

Disease Ontology (DO)

Highlighted in gray are those with FDR_all>0.001

	DO term	FDR (all)	IC level	SDDO level	Annotation (direct or inherited)
Disease Ontology (DO)	disease of cellular proliferation	0	0.2812	--	DIRECT
Disease Ontology (DO)	cancer	0	0.3104	--	DIRECT

---

Human Phenotype (HP)

Highlighted in gray are those with FDR_all>0.001

	HP term	FDR (all)	IC level	SDHP level	Annotation (direct or inherited)
Phenotypic Abnormality (PA)	Neoplasm by anatomical site	0	1.151	--	DIRECT
Phenotypic Abnormality (PA)	Abnormality of the genitourinary system	0	0.5432	Least Informative	DIRECT
Phenotypic Abnormality (PA)	Neoplasm	0	1.106	Moderately Informative	DIRECT

---

Mouse Phenotype (MP)

Highlighted in gray are those with FDR_all>0.001

	MP term	FDR (all)	IC level	SDMP level	Annotation (direct or inherited)
Mammalian Phenotype (MP)	homeostasis/metabolism phenotype	0	0.3617	--	DIRECT
Mammalian Phenotype (MP)	abnormal cell physiology	0	0.6214	--	DIRECT
Mammalian Phenotype (MP)	abnormal adenoma incidence	0.000007265	2.031	--	DIRECT
Mammalian Phenotype (MP)	increased classified tumor incidence	0.0004648	1.207	--	DIRECT
Mammalian Phenotype (MP)	abnormal classified tumor incidence	0.0004835	1.207	--	DIRECT
Mammalian Phenotype (MP)	increased organ/body region tumor incidence	0.0005744	1.186	--	DIRECT
Mammalian Phenotype (MP)	abnormal organ/body region tumor incidence	0.0006211	1.186	--	DIRECT
Mammalian Phenotype (MP)	increased tumor incidence	0.0009392	1.11	--	DIRECT
Mammalian Phenotype (MP)	abnormal tumor incidence	0.0014	1.11	--	INHERITED FROM: increased organ/body region tumor incidence || abnormal adenoma incidence || increased tumor incidence || abnormal classified tumor incidence || abnormal organ/body region tumor incidence || increased adenoma incidence || increased classified tumor incidence
Mammalian Phenotype (MP)	altered tumor susceptibility	0.001477	1.11	--	INHERITED FROM: increased organ/body region tumor incidence || abnormal adenoma incidence || increased tumor incidence || abnormal classified tumor incidence || abnormal organ/body region tumor incidence || increased classified tumor incidence || increased adenoma incidence
Mammalian Phenotype (MP)	cellular phenotype	0	0.5301	Least Informative	DIRECT
Mammalian Phenotype (MP)	neoplasm	0.002	1.003	Moderately Informative	INHERITED FROM: increased classified tumor incidence || increased adenoma incidence || abnormal organ/body region tumor incidence || abnormal classified tumor incidence || increased tumor incidence || abnormal adenoma incidence || increased organ/body region tumor incidence
Mammalian Phenotype (MP)	abnormal metabolism	0.00586	1.093	Moderately Informative	INHERITED FROM: abnormal DNA repair
Mammalian Phenotype (MP)	abnormal DNA repair	0.00004562	1.73	Informative	DIRECT
Mammalian Phenotype (MP)	abnormal physiological response to xenobiotic	0.005234	1.73	Informative	INHERITED FROM: decreased physiological sensitivity to xenobiotic
Mammalian Phenotype (MP)	increased adenoma incidence	0.000007265	2.031	Highly Informative	DIRECT
Mammalian Phenotype (MP)	decreased physiological sensitivity to xenobiotic	0.00004743	2.207	Highly Informative	DIRECT

---

Yeast Phenotype (YP)

Highlighted in gray are those with FDR_all>0.001

	YP term	FDR (all)	IC level	SDYP level	Annotation (direct or inherited)
Yeast Phenotype (YP)	cellular processes	0	0.1328	--	DIRECT
Yeast Phenotype (YP)	stress resistance	0	0.2018	--	DIRECT
Yeast Phenotype (YP)	competitive fitness	0	0.1389	--	DIRECT
Yeast Phenotype (YP)	fitness	0	0.1328	--	DIRECT
Yeast Phenotype (YP)	metabolism and growth	0	0.5905	Least Informative	DIRECT

---

Xenopus Anatomy (XA)

Highlighted in gray are those with FDR_all>0.001

	XA term	FDR (all)	IC level	SDXA level	Annotation (direct or inherited)
Xenopus ANatomical entity (XAN)	anatomical structure	0	0	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical group	0	0.1442	--	DIRECT
Xenopus ANatomical entity (XAN)	organism subdivision	0	0.1871	--	DIRECT
Xenopus ANatomical entity (XAN)	anatomical region	0	0.193	--	DIRECT
Xenopus ANatomical entity (XAN)	multicellular anatomical structure	0	0.1217	--	DIRECT
Xenopus ANatomical entity (XAN)	whole organism	1	0.09747	--	INHERITED FROM: anatomical group || multicellular anatomical structure || anatomical region || organism subdivision
Xenopus DEvelopment stage (XDE)	NF stage	0	0.02327	--	DIRECT

---

Arabidopsis Plant Ontology (AP)

Highlighted in gray are those with FDR_all>0.001

	AP term	FDR (all)	IC level	SDAP level	Annotation (direct or inherited)
Plant ANatomical entity (PAN)	shoot system	0	0.05747	--	DIRECT
Plant ANatomical entity (PAN)	collective plant structure	0	0.01577	--	DIRECT
Plant ANatomical entity (PAN)	plant structure	1	0	--	INHERITED FROM: collective plant structure || shoot system
Plant ANatomical entity (PAN)	collective plant organ structure	1	0.04502	--	INHERITED FROM: shoot system
Plant structure DEvelopment stage (PDE)	whole plant development stage	0	0.1968	--	DIRECT
Plant structure DEvelopment stage (PDE)	sporophyte vegetative stage	0	0.2036	--	DIRECT
Plant structure DEvelopment stage (PDE)	floral organ differentiation stage	0	0.0937	--	DIRECT
Plant structure DEvelopment stage (PDE)	corolla development stage	0	0.1981	--	DIRECT
Plant structure DEvelopment stage (PDE)	flowering stage	0	0.2162	--	DIRECT
Plant structure DEvelopment stage (PDE)	collective plant organ structure development stage	0	0.03771	--	DIRECT
Plant structure DEvelopment stage (PDE)	plant organ development stage	0	0.08108	--	DIRECT
Plant structure DEvelopment stage (PDE)	reproductive shoot system development stage	0	0.05008	--	DIRECT
Plant structure DEvelopment stage (PDE)	collective phyllome structure development stage	0	0.0937	--	DIRECT
Plant structure DEvelopment stage (PDE)	floral organ formation stage	0	0.0937	--	DIRECT
Plant structure DEvelopment stage (PDE)	flower development stage	1	0.07083	--	INHERITED FROM: corolla development stage || flowering stage || floral organ differentiation stage || floral organ formation stage
Plant structure DEvelopment stage (PDE)	life of whole plant stage	1	0.2022	--	INHERITED FROM: sporophyte vegetative stage
Plant structure DEvelopment stage (PDE)	shoot system development stage	1	0.04053	--	INHERITED FROM: reproductive shoot system development stage || floral organ formation stage || floral organ differentiation stage || flowering stage || corolla development stage || plant organ development stage
Plant structure DEvelopment stage (PDE)	sporophyte development stage	1	0.2022	--	INHERITED FROM: sporophyte vegetative stage

---

Enzyme Commission (EC)

Highlighted in gray are those with FDR_all>0.001

	EC term	FDR (all)	IC level	SDEC level	Annotation (direct or inherited)
Enzyme Commission (EC)	Adenine glycosylase	0	2.651	--	DIRECT
Enzyme Commission (EC)	Other carbon-oxygen lyases	0	1.91	--	DIRECT
Enzyme Commission (EC)	DNA-3-methyladenine glycosylase II	0.0000000005903	2.475	--	DIRECT
Enzyme Commission (EC)	Lyases	0	0.6918	Least Informative	DIRECT
Enzyme Commission (EC)	Hydrolases	0.02377	0.3541	Least Informative	INHERITED FROM: Hydrolyzing N-glycosyl compounds || Glycosylases || DNA-3-methyladenine glycosylase II || Adenine glycosylase
Enzyme Commission (EC)	Glycosylases	0	1.094	Moderately Informative	DIRECT
Enzyme Commission (EC)	Carbon-oxygen lyases	0	1.012	Moderately Informative	DIRECT
Enzyme Commission (EC)	Hydrolyzing N-glycosyl compounds	0	1.63	Informative	DIRECT
Enzyme Commission (EC)	DNA-(apurinic or apyrimidinic site) lyase	0	1.952	Highly Informative	DIRECT

---

InterPro annotation

• Cross references: IPR011257 SSF48150 Protein matches
• Abstract:

  DNA glycosylases act to repair oxidative damage in DNA. These proteins are redundant as there are several different types of DNA glycosylases that are ale to compensate for one another. Examples include the endonuclease III subfamily, the mismatch glycosylases subfamily, the 3-methyladenine DNA glycosylases I subfamily, and the DNA repair glycosylases subfamily [14637253].

InterPro database

---