1GKU | pdb_00001gku

Reverse gyrase from Archaeoglobus fulgidus

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 [auth B]	d1gkub1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Helicase-like domain of reverse gyrase	Helicase-like domain of reverse gyrase	(Archaeoglobus fulgidus DSM 4304 ) [TaxId: 224325 ],	SCOPe (2.08)
A [auth B]	d1gkub3	Multi-domain proteins (alpha and beta)	Prokaryotic type I DNA topoisomerase	Prokaryotic type I DNA topoisomerase	Prokaryotic type I DNA topoisomerase	Topoisomerase 'domain' of reverse gyrase	(Archaeoglobus fulgidus DSM 4304 ) [TaxId: 224325 ],	SCOPe (2.08)
A [auth B]	d1gkub4	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Archaeoglobus fulgidus DSM 4304 ) [TaxId: 224325 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth B]	SCOP2 Family	Tandem AAA-ATPase domain	8023534	4000282	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Family	Prokaryotic type I DNA topoisomerase clamp domain-like	8023537	4002819	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Family	Prokaryotic type I DNA topoisomerase N-terminal domain-like	8055740	4007652	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Superfamily	RecA-like P-loop NTPases	8035915	3002019	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Superfamily	Prokaryotic type I DNA topoisomerase clamp domain-like	8035917	3001789	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Superfamily	Toprim domain-like	8055741	3000737	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Superfamily	RecA-like P-loop NTPases	8035914	3002019	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 [auth B]	PRK14701	e1gkuB6	A: beta barrels	X: LigT-like	H: Prokaryotic type I DNA topoisomerase beta-barrel domain (From Topology)	T: Prokaryotic type I DNA topoisomerase beta-barrel domain	F: PRK14701	ECOD (1.6)
A [auth B]	Topoisom_bac_3rd	e1gkuB5	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Topoisom_bac_3rd	ECOD (1.6)
A [auth B]	Topoisom_bac_1st	e1gkuB4	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Topoisom_bac_1st	ECOD (1.6)
A [auth B]	DEAD_3	e1gkuB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_3	ECOD (1.6)
A [auth B]	UNK_F_TYPE	e1gkuB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: UNK_F_TYPE	ECOD (1.6)
A [auth B]	Toprim	e1gkuB3	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: Toprim	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth B]	2.20.20.30	Mainly Beta	Single Sheet	Anthopleurin-A	reverse gyrase domain	CATH (4.2.0)
A [auth B]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.2.0)
A [auth B]	3.30.56.120	Alpha Beta	2-Layer Sandwich	Phenylalanyl-tRNA Synthetase	Chain B, domain 1	CATH (4.2.0)
A [auth B]	3.40.50.140	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.2.0)
A [auth B]	1.10.460.10	Mainly Alpha	Orthogonal Bundle	Topoisomerase I	domain 2	CATH (4.2.0)
A [auth B]	2.60.510.20	Mainly Beta	Sandwich	EV matrix protein fold		CATH (4.2.0)
A [auth B]	1.10.290.10	Mainly Alpha	Orthogonal Bundle	Topoisomerase I	domain 4	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B]	PF00270	DEAD/DEAH box helicase (DEAD)	DEAD/DEAH box helicase	Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ...	Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.	Domain
A [auth B]	PF01131	DNA topoisomerase (Topoisom_bac)	DNA topoisomerase	-	Family
A [auth B]	PF01751	Toprim domain (Toprim)	Toprim domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B]	REVERSE GYRASE	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding nucleic acid conformation isomerase activity isomerase activity reverse gyrase activity catalytic activity, acting on DNA DNA topoisomerase activity catalytic activity, acting on a nucleic acid catalytic activity macromolecular conformation isomerase activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides ATP-dependent activity ATP-dependent activity, acting on DNA DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity cation binding transition metal ion binding zinc ion binding metal ion binding	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 cellular process metabolic process cellular component organization or biogenesis macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B]	IPR013497	DNA topoisomerase, type IA, central	Domain
A [auth B]	IPR003602	DNA topoisomerase, type IA, DNA-binding domain	Domain
A [auth B]	IPR023405	DNA topoisomerase, type IA, core domain	Homologous Superfamily
A [auth B]	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A [auth B]	IPR005736	Reverse gyrase	Family
A [auth B]	IPR003601	DNA topoisomerase, type IA, domain 2	Domain
A [auth B]	IPR013826	DNA topoisomerase, type IA, central region, subdomain 3	Homologous Superfamily
A [auth B]	IPR006171	TOPRIM domain	Domain
A [auth B]	IPR034142	Reverse gyrase, TOPRIM domain	Domain
A [auth B]	IPR040569	Reverse gyrase, zinc finger	Domain
A [auth B]	IPR011545	DEAD/DEAH-box helicase domain	Domain
A [auth B]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A [auth B]	IPR013824	DNA topoisomerase, type IA, central region, subdomain 1	Homologous Superfamily

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.