6VBA | pdb_00006vba

Structure of human Uracil DNA Glycosylase (UDG) bound to Aurintricarboxylic acid (ATA)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6vbaa1	Alpha and beta proteins (a/b)	Uracil-DNA glycosylase-like	Uracil-DNA glycosylase-like	Uracil-DNA glycosylase	Uracil-DNA glycosylase	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d6vbaa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Uracil-DNA glycosylase-like	8042482	3001106	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		e6vbaA1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Med7	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03167	Uracil DNA glycosylase superfamily (UDG)	Uracil DNA glycosylase superfamily		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Uracil-DNA glycosylase	uracil DNA N-glycosylase activity hydrolase activity, acting on glycosyl bonds deaminated base DNA N-glycosylase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid hydrolase activity DNA N-glycosylase activity hydrolase activity, hydrolyzing N-glycosyl compounds catalytic activity DNA binding binding damaged DNA binding nucleic acid binding ribonucleoprotein complex binding uracil DNA N-glycosylase activity hydrolase activity, acting on glycosyl bonds deaminated base DNA N-glycosylase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid hydrolase activity DNA N-glycosylase activity hydrolase activity, hydrolyzing N-glycosyl compounds catalytic activity DNA binding binding damaged DNA binding nucleic acid binding ribonucleoprotein complex binding protein-containing complex binding ribosomal small subunit binding ribosome binding	cellular response to stimulus response to stimulus single strand break repair primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process 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 single strand break repair primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair base-excision repair regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death immune system development adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains multicellular organismal process lymphocyte mediated immunity immunoglobulin production immunoglobulin production involved in immunoglobulin-mediated immune response somatic cell DNA recombination B cell activation involved in immune response lymphocyte activation cell activation involved in immune response leukocyte activation multicellular organism development somatic diversification of immunoglobulins involved in immune response somatic recombination of immunoglobulin gene segments leukocyte activation involved in immune response anatomical structure development leukocyte mediated immunity somatic diversification of immune receptors lymphocyte activation involved in immune response somatic recombination of immunoglobulin genes involved in immune response system development developmental process production of molecular mediator of immune response immune response B cell activation DNA recombination cell activation gene expression macromolecule biosynthetic process immunoglobulin mediated immune response adaptive immune response immune effector process somatic diversification of immunoglobulins biosynthetic process immune system process somatic diversification of immune receptors via germline recombination within a single locus B cell mediated immunity isotype switching pyrimidine deoxyribonucleotide catabolic process deoxyribonucleotide catabolic process catabolic process pyrimidine deoxyribonucleotide metabolic process pyrimidine-containing compound catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process deoxyribose phosphate catabolic process pyrimidine nucleotide metabolic process pyrimidine nucleotide catabolic process DNA modification deoxyribonucleotide metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process depyrimidination nucleotide catabolic process nucleoside phosphate metabolic process carbohydrate derivative catabolic process pyrimidine-containing compound metabolic process 2'-deoxyribonucleotide metabolic process nucleotide metabolic process nucleobase-containing compound catabolic process organophosphate metabolic process macromolecule modification base-excision repair, AP site formation somatic diversification of immune receptors via somatic mutation somatic hypermutation of immunoglobulin genes base-excision repair, AP site formation via deaminated base removal	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036895	Uracil-DNA glycosylase-like domain superfamily	Homologous Superfamily
A	IPR002043	Uracil-DNA glycosylase family 1	Family
A	IPR018085	Uracil-DNA glycosylase, active site	Active Site
A	IPR005122	Uracil-DNA glycosylase-like	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P13051	Bloom syndrome colorectal cancer hyper-IgM syndrome type 1 hyper-IgM syndrome type 5 acute myeloid leukemia Hyper-IgM Immunodeficiency Syndrome, Type 2 hyper-IgM syndrome large cell medulloblastoma nasopharyngeal carcinoma ovarian cancer colorectal carcinoma lung cancer non-small cell lung carcinoma cervical cancer medulloblastoma Bloom syndrome colorectal cancer hyper-IgM syndrome type 1 hyper-IgM syndrome type 5 acute myeloid leukemia Hyper-IgM Immunodeficiency Syndrome, Type 2 hyper-IgM syndrome large cell medulloblastoma nasopharyngeal carcinoma ovarian cancer colorectal carcinoma lung cancer non-small cell lung carcinoma cervical cancer medulloblastoma osteosarcoma

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.