Annotations: 4GFJ

Crystal structure of Topo-78, an N-terminal 78kDa fragment of topoisomerase V

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	HHH_5	e4gfjA2	A: beta barrels	X: HTH	H: SH3	T: SH3	F: HHH_5	ECOD (v294.2)
A	KOW,Ribosomal_L14e	e4gfjA8	A: beta barrels	X: HTH	H: SH3	T: SH3	F: KOW,Ribosomal_L14e	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	6.10.250.950	Special	Helix non-globular	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF21872	SAM domain-like (SAM_5)	SAM domain-like	This entry corresponds to the most N-terminal SAM domain of several that is found topoisomerase V protein.	Domain
A	PF22409	Topoisomerase V, HHH domain (TopoV_HHH)	Topoisomerase V, HHH domain	This entry represents a helix-hairpin-helix (HHH) domain of topoisomerase V (Topo-V), the only member of a novel topoisomerase subtype. Topo-V is unique as it is a bifunctional enzyme carrying both topoisomerase and DNA repair lyase activities within ...	This entry represents a helix-hairpin-helix (HHH) domain of topoisomerase V (Topo-V), the only member of a novel topoisomerase subtype. Topo-V is unique as it is a bifunctional enzyme carrying both topoisomerase and DNA repair lyase activities within the same protein [1,2]. This prptein contains a topoisomerase domain at the N-terminal, followed byt twelve tandem helix-hairpin-helix (HhH)2 domains.	Domain
A	PF14520	SAM-like Helix-hairpin-helix tandem (HHH_5)	SAM-like Helix-hairpin-helix tandem	This entry represents a SAM-like helix-hairpin-helix domain found in functionally diverse proteins involved in DNA repair, recombination, transcription termination etc. This domain has a fold that is structurally similar to SAM domains. It is compose ...	This entry represents a SAM-like helix-hairpin-helix domain found in functionally diverse proteins involved in DNA repair, recombination, transcription termination etc. This domain has a fold that is structurally similar to SAM domains. It is composed of two helix-hairpin-helix motifs which are known DNA interaction motifs.	Domain
A	PF21616	Topoisomerase V, second (HhH)2 tandem domain (Topo-V_HhH_2_2nd)	Topoisomerase V, second (HhH)2 tandem domain	This domain is found in Topoisomerase V from Methanopyrus kandleri (Topo-V), is a bifunctional enzyme carrying both topoisomerase and DNA repair lyase activities. Topo-V consists of an N-terminal topoisomerase domain followed by 12 tandem (HhH)2 doma ...	This domain is found in Topoisomerase V from Methanopyrus kandleri (Topo-V), is a bifunctional enzyme carrying both topoisomerase and DNA repair lyase activities. Topo-V consists of an N-terminal topoisomerase domain followed by 12 tandem (HhH)2 domains, showing four active sites. This entry represents the second of these tandem domains [1,4,5].	Domain
A	PF13412	Winged helix-turn-helix DNA-binding (HTH_24)	Winged helix-turn-helix DNA-binding		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Topoisomerase V	DNA binding binding nucleic acid binding cation binding ion 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 cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR049334	Topoisomerase V, second (HhH)2 tandem domain	Domain
A	IPR010994	RuvA domain 2-like	Homologous Superfamily
A	IPR024065	DNA topoisomerase V, catalytic domain superfamily	Homologous Superfamily
A	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A	IPR060101	SAM-like helix-hairpin-helix tandem	Domain
A	IPR055246	Topoisomerase V, HHH domain	Domain
A	IPR003583	Helix-hairpin-helix DNA-binding motif, class 1	Domain
A	IPR054066	SAM domain-like	Domain

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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.