1YUA | pdb_00001yua

C-TERMINAL DOMAIN OF ESCHERICHIA COLI TOPOISOMERASE 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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1yuaa1	Small proteins	Rubredoxin-like	Zinc beta-ribbon	Prokaryotic DNA topoisomerase I, a C-terminal fragment	Prokaryotic DNA topoisomerase I, a C-terminal fragment	(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	SCOP2 Family	Prokaryotic DNA topoisomerase I, a C-terminal fragment	8026778	4003681	SCOP2 (2022-06-29)
A	SCOP2 Family	Prokaryotic DNA topoisomerase I, a C-terminal fragment	8026780	4003681	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Zinc beta-ribbon	8039157	3001238	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Zinc beta-ribbon	8039159	3001238	SCOP2 (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	Topo_Zn_Ribbon	e1yuaA1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: Topo_Zn_Ribbon	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.65.10	Alpha Beta	2-Layer Sandwich	Bacterial Topoisomerase I	domain 1	CATH (4.3.0)
A	2.20.25.10	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF08272	Topoisomerase I zinc-ribbon-like (Zn_Ribbon_Topo)	Topoisomerase I zinc-ribbon-like	Some Proteobacteria topoisomerase I contain two zinc-ribbon-like domains at the C-terminus that structurally homologous to Pfam:PF01396. However, this domain no longer bind zinc. Indeed, only one of the four cysteine residues remains [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	TOPOISOMERASE I	DNA binding binding nucleic acid binding RNA topoisomerase activity nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid macromolecular conformation isomerase activity catalytic activity DNA topoisomerase type I (single strand cut, ATP-independent) activity catalytic activity, acting on DNA DNA topoisomerase activity cation binding DNA binding binding nucleic acid binding RNA topoisomerase activity nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid macromolecular conformation isomerase activity catalytic activity DNA topoisomerase type I (single strand cut, ATP-independent) activity catalytic activity, acting on DNA DNA topoisomerase activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular process cell cycle chromosome segregation cell cycle process chromosome organization primary metabolic process DNA conformation change DNA metabolic process nucleic acid metabolic process cellular component organization nucleobase-containing compound metabolic process DNA topological change organelle organization metabolic process cellular process cell cycle chromosome segregation cell cycle process chromosome organization primary metabolic process DNA conformation change DNA metabolic process nucleic acid metabolic process cellular component organization nucleobase-containing compound metabolic process DNA topological change organelle organization metabolic process cellular component organization or biogenesis macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR013498	DNA topoisomerase, type IA, zn finger	Domain
A	IPR003601	DNA topoisomerase, type IA, domain 2	Domain
A	IPR028612	DNA topoisomerase I, type IA	Family
A	IPR000380	DNA topoisomerase, type IA	Family
A	IPR013826	DNA topoisomerase, type IA, central region, subdomain 3	Homologous Superfamily
A	IPR006171	TOPRIM domain	Domain
A	IPR005733	DNA topoisomerase I, bacterial-type	Family
A	IPR013497	DNA topoisomerase, type IA, central	Domain
A	IPR003602	DNA topoisomerase, type IA, DNA-binding domain	Domain
A	IPR049330	Topoisomerase I, zinc finger	Domain
A	IPR013263	DNA topoisomerase I, zinc ribbon-like, bacterial-type	Domain
A	IPR023405	DNA topoisomerase, type IA, core domain	Homologous Superfamily
A	IPR013825	DNA topoisomerase, type IA, central region, subdomain 2	Homologous Superfamily
A	IPR023406	DNA topoisomerase, type IA, active site	Active Site
A	IPR034149	DNA topoisomerase 1, TOPRIM domain	Domain
A	IPR013824	DNA topoisomerase, type IA, central region, subdomain 1	Homologous Superfamily

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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.