1WYW

Crystal Structure of SUMO1-conjugated thymine DNA glycosylase

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
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	d1wywa_	Alpha and beta proteins (a/b)	Uracil-DNA glycosylase-like	Uracil-DNA glycosylase-like	Mug-like	G/T mismatch-specific thymine DNA glycosylase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1wywb_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	automated matches	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	SCOP2 Family	Mug-like	8020074	4003607	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Uracil-DNA glycosylase-like	8032454	3001106	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Ubiquitin-like	8043414	3000157	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	PF03167	e1wywA1	A: a/b three-layered sandwiches	X: Uracil-DNA glycosylase-like (From Topology)	H: Uracil-DNA glycosylase-like (From Topology)	T: Uracil-DNA glycosylase-like	F: PF03167	ECOD (1.6)
B	PF11976	e1wywB1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: PF11976	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.470.10	Alpha Beta	3-Layer(aba) Sandwich	Uracil-DNA Glycosylase, subunit E	Uracil-DNA glycosylase-like domain	CATH (4.3.0)
B	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03167	Uracil DNA glycosylase superfamily (UDG)	Uracil DNA glycosylase superfamily	-	Domain
B	PF11976	Ubiquitin-2 like Rad60 SUMO-like (Rad60-SLD)	Ubiquitin-2 like Rad60 SUMO-like	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	G/T mismatch-specific thymine DNA glycosylase	binding organic cyclic compound binding nucleic acid binding protein binding protein domain specific binding transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity 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 binding organic cyclic compound binding nucleic acid binding protein binding protein domain specific binding transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity 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 damaged DNA binding mismatch base pair DNA N-glycosylase activity pyrimidine-specific mismatch base pair DNA N-glycosylase activity ion binding anion binding chloride ion binding small molecule binding cation binding magnesium ion binding metal ion binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding double-stranded DNA binding G/T mismatch-specific thymine-DNA glycosylase activity G/U mismatch-specific uracil-DNA glycosylase activity transcription factor binding DNA-binding transcription factor binding mismatched DNA binding SUMO binding ubiquitin-like protein binding kinase binding protein kinase C binding enzyme binding protein kinase binding alkali metal ion binding sodium ion binding	primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA modification organic substance metabolic process DNA demethylation DNA dealkylation macromolecule modification metabolic process demethylation macromolecule metabolic process regulation of cellular process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA modification organic substance metabolic process DNA demethylation DNA dealkylation macromolecule modification metabolic process demethylation macromolecule metabolic process regulation of cellular process cellular biosynthetic process protein-DNA complex organization cellular component organization chromatin organization organic substance biosynthetic process chromatin remodeling cellular component organization or biogenesis regulation of biosynthetic process regulation of biological process protein-containing complex organization epigenetic regulation of gene expression cellular metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process cellular process regulation of macromolecule biosynthetic process regulation of metabolic process cellular response to stimulus deoxyribonucleotide catabolic process response to stimulus pyrimidine deoxyribonucleotide metabolic process pyrimidine-containing compound catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process pyrimidine nucleotide metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process nucleoside phosphate metabolic process organonitrogen compound catabolic process pyrimidine-containing compound metabolic process nucleotide metabolic process nucleobase-containing compound catabolic process base-excision repair, AP site formation pyrimidine deoxyribonucleotide catabolic process catabolic process deoxyribose phosphate catabolic process pyrimidine nucleotide catabolic process base-excision repair cellular response to stress deoxyribonucleotide metabolic process response to stress nucleobase-containing small molecule metabolic process depyrimidination nucleotide catabolic process DNA repair carbohydrate derivative catabolic process organonitrogen compound metabolic process 2'-deoxyribonucleotide metabolic process deoxyribose phosphate metabolic process organic cyclic compound catabolic process DNA damage response organophosphate metabolic process organic substance catabolic process developmental process multicellular organismal process regulation of embryonic development regulation of multicellular organismal development regulation of developmental process embryo development multicellular organism development anatomical structure development regulation of multicellular organismal process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process negative regulation of biosynthetic process	cell periphery plasma membrane membrane cellular anatomical entity membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle cell periphery plasma membrane membrane cellular anatomical entity membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen nuclear body PML body
B	Ubiquitin-like protein SMT3C	protein binding binding small protein activating enzyme binding enzyme binding RNA binding organic cyclic compound binding nucleic acid binding ubiquitin-specific protease binding protease binding transcription factor binding ubiquitin-like protein ligase binding protein tag activity molecular tag activity potassium channel regulator activity protein binding binding small protein activating enzyme binding enzyme binding RNA binding organic cyclic compound binding nucleic acid binding ubiquitin-specific protease binding protease binding transcription factor binding ubiquitin-like protein ligase binding protein tag activity molecular tag activity potassium channel regulator activity channel regulator activity ion channel regulator activity molecular function regulator activity transporter regulator activity ubiquitin protein ligase binding	regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cellular process protein localization negative regulation of protein transport regulation of localization establishment of protein localization negative regulation of nucleocytoplasmic transport nitrogen compound transport nucleocytoplasmic transport nuclear transport negative regulation of intracellular protein transport negative regulation of transport localization import into nucleus cellular macromolecule localization establishment of localization in cell regulation of intracellular transport organic substance transport negative regulation of establishment of protein localization intracellular transport regulation of nucleocytoplasmic transport protein localization to nucleus establishment of localization establishment of protein localization to organelle regulation of intracellular protein transport intracellular protein transport cellular localization regulation of protein localization transport regulation of protein localization to nucleus negative regulation of protein import into nucleus regulation of protein import into nucleus protein import into nucleus negative regulation of protein localization negative regulation of intracellular transport regulation of transport regulation of establishment of protein localization regulation of protein transport negative regulation of protein localization to nucleus protein transport regulation of cellular localization macromolecule localization protein localization to organelle regulation of protein stability regulation of biological quality protein stabilization negative regulation of DNA-binding transcription factor activity negative regulation of molecular function regulation of molecular function regulation of DNA-binding transcription factor activity positive regulation of cellular component organization regulation of cellular component organization protein-containing complex organization positive regulation of cellular component biogenesis positive regulation of biological process regulation of cellular component biogenesis cellular component organization cellular component biogenesis positive regulation of protein-containing complex assembly regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly cellular component organization or biogenesis positive regulation of cellular process cellular response to stimulus cellular response to heat response to stimulus cellular response to stress response to stress response to heat response to abiotic stimulus response to temperature stimulus organonitrogen compound metabolic process peptidyl-lysine modification protein sumoylation macromolecule modification peptidyl-amino acid modification protein metabolic process protein modification process post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal positive regulation of proteasomal protein catabolic process catabolic process positive regulation of protein metabolic process proteolysis involved in protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process positive regulation of metabolic process positive regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis regulation of proteolysis involved in protein catabolic process modification-dependent macromolecule catabolic process proteolysis positive regulation of macromolecule metabolic process organonitrogen compound catabolic process regulation of protein metabolic process proteasomal protein catabolic process protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of proteolysis involved in protein catabolic process positive regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process positive regulation of proteolysis regulation of proteasomal protein catabolic process positive regulation of proteasomal ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process organic substance catabolic process regulation of protein catabolic process negative regulation of ion transmembrane transporter activity negative regulation of potassium ion transmembrane transporter activity regulation of delayed rectifier potassium channel activity negative regulation of voltage-gated potassium channel activity negative regulation of cation transmembrane transport monoatomic cation transport regulation of potassium ion transmembrane transporter activity regulation of monoatomic ion transport inorganic ion transmembrane transport regulation of potassium ion transmembrane transport regulation of cation channel activity inorganic cation transmembrane transport transmembrane transport regulation of transmembrane transport potassium ion transport regulation of potassium ion transport negative regulation of cation channel activity monoatomic ion transmembrane transport negative regulation of monoatomic ion transport regulation of transmembrane transporter activity potassium ion transmembrane transport regulation of monoatomic ion transmembrane transport negative regulation of transmembrane transport metal ion transport regulation of transporter activity monoatomic cation transmembrane transport negative regulation of monoatomic ion transmembrane transport negative regulation of delayed rectifier potassium channel activity monoatomic ion transport regulation of metal ion transport negative regulation of potassium ion transport regulation of monoatomic ion transmembrane transporter activity negative regulation of transporter activity negative regulation of potassium ion transmembrane transport regulation of monoatomic cation transmembrane transport regulation of action potential negative regulation of action potential action potential regulation of membrane potential DNA metabolic process DNA damage response DNA repair regulation of DNA binding regulation of binding negative regulation of binding negative regulation of DNA binding cellular response to inorganic substance cellular response to metal ion response to cadmium ion response to inorganic substance cellular response to chemical stimulus response to metal ion response to chemical cellular response to cadmium ion negative regulation of transcription by transcription factor localization developmental process anatomical structure development roof of mouth development	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle nuclear speck nuclear body nucleoplasm nuclear membrane membrane endomembrane system organelle envelope nuclear envelope organelle membrane cytoplasm cytosol cell periphery plasma membrane protein-containing complex nuclear protein-containing complex nuclear pore nuclear stress granule ribonucleoprotein granule supramolecular complex PML body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036895	Uracil-DNA glycosylase-like domain superfamily	Homologous Superfamily
A	IPR003310	G/T mismatch-specific thymine DNA glycosylasee TDG-like, eukaryotes	Family
A	IPR005122	Uracil-DNA glycosylase-like	Domain
A	IPR015637	Uracil DNA glycosylase family 2	Family
B	IPR046332	Small ubiquitin-related modifier 1, Ubl domain	Domain
B	IPR000626	Ubiquitin-like domain	Domain
B	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
B	IPR022617	Rad60/SUMO-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q13569	atypical teratoid rhabdoid tumor invasive ductal breast carcinoma lymphoplasmacytic lymphoma Pick disease progressive supranuclear palsy dermatomyositis large cell medulloblastoma medulloblastoma plasma cell myeloma glioblastoma lung cancer osteosarcoma primitive neuroectodermal tumor
B	Pharos: P63165	orofacial cleft 10 cleft palate Neoplasm Invasiveness cleft lip pancreatic intraductal papillary-mucinous neoplasm

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.