3RAE

Quinolone(Levofloxacin)-DNA cleavage complex of type IV topoisomerase from S. pneumoniae

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	d3raea_	Multi-domain proteins (alpha and beta)	Type II DNA topoisomerase C-terminal domain-like	Type II DNA topoisomerase C-terminal domain-like	automated matches	automated matches	(Streptococcus pneumoniae ) [TaxId: 1313 ],	SCOPe (2.08)
B	d3raeb_	Multi-domain proteins (alpha and beta)	Type II DNA topoisomerase C-terminal domain-like	Type II DNA topoisomerase C-terminal domain-like	automated matches	automated matches	(Streptococcus pneumoniae ) [TaxId: 1313 ],	SCOPe (2.08)
C	d3raec_	Multi-domain proteins (alpha and beta)	DNA gyrase B, C-terminal domain-like	DNA gyrase B, C-terminal domain-like	DNA gyrase B, C-terminal domain	DNA gyrase beta-prime domain	(Streptococcus pneumoniae ) [TaxId: 1313 ],	SCOPe (2.08)
D	d3raed_	Multi-domain proteins (alpha and beta)	DNA gyrase B, C-terminal domain-like	DNA gyrase B, C-terminal domain-like	DNA gyrase B, C-terminal domain	DNA gyrase beta-prime domain	(Streptococcus pneumoniae ) [TaxId: 1313 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Toprim domain-like	8090034	3000737	SCOP2B (2022-06-29)
D	SCOP2 Family	DNA gyrase B toprim domain-like	8048547	4006142	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	Toprim domain-like	8090034	3000737	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	PF00521	e3raeA5	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
A	PF00521	e3raeA6	A: alpha bundles	X: alpha-helical domain in type II DNA topoisomerase (From Topology)	H: alpha-helical domain in type II DNA topoisomerase (From Topology)	T: alpha-helical domain in type II DNA topoisomerase	F: PF00521	ECOD (1.6)
A	PF00521	e3raeA4	A: a+b two layers	X: a+b domain in type II DNA topoisomerase (From Topology)	H: a+b domain in type II DNA topoisomerase (From Topology)	T: a+b domain in type II DNA topoisomerase	F: PF00521	ECOD (1.6)
B	PF00521	e3raeB5	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
B	PF00521	e3raeB6	A: alpha bundles	X: alpha-helical domain in type II DNA topoisomerase (From Topology)	H: alpha-helical domain in type II DNA topoisomerase (From Topology)	T: alpha-helical domain in type II DNA topoisomerase	F: PF00521	ECOD (1.6)
B	PF00521	e3raeB4	A: a+b two layers	X: a+b domain in type II DNA topoisomerase (From Topology)	H: a+b domain in type II DNA topoisomerase (From Topology)	T: a+b domain in type II DNA topoisomerase	F: PF00521	ECOD (1.6)
C	F_UNCLASSIFIED	e3raeC2	A: a+b two layers	X: SSHS domain	H: SSHS domain in type II DNA topoisomerase (From Topology)	T: SSHS domain in type II DNA topoisomerase	F: F_UNCLASSIFIED	ECOD (1.6)
C	PF00986,PF01751	e3raeC1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
D	F_UNCLASSIFIED	e3raeD2	A: a+b two layers	X: SSHS domain	H: SSHS domain in type II DNA topoisomerase (From Topology)	T: SSHS domain in type II DNA topoisomerase	F: F_UNCLASSIFIED	ECOD (1.6)
D	PF00986,PF01751	e3raeD1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.40.50.670	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
D	3.40.50.670	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00521	DNA gyrase/topoisomerase IV, subunit A (DNA_topoisoIV)	DNA gyrase/topoisomerase IV, subunit A	-	Family
C, D	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, B	DNA topoisomerase 4 subunit A	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding ATP-dependent activity, acting on DNA isomerase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid DNA topoisomerase activity DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity catalytic activity ATP-dependent activity	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 organic cyclic compound metabolic process organelle organization 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 organic cyclic compound metabolic process organelle organization organic substance metabolic process metabolic process cellular component organization or biogenesis macromolecule metabolic process	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cell periphery extrinsic component of plasma membrane membrane plasma membrane extrinsic component of membrane
C, D	DNA topoisomerase 4 subunit B	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding ATP-dependent activity, acting on DNA isomerase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid DNA topoisomerase activity DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity catalytic activity ATP-dependent activity cation binding metal ion 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 organic cyclic compound metabolic process organelle organization 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 organic cyclic compound metabolic process organelle organization organic substance metabolic process metabolic process cellular component organization or biogenesis macromolecule metabolic process	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle
E	5'-D(CPAPTPGPAPAP*T)-3'	-	-	-
F	5'-D(PAPGPTPCPAPTPTPCPAPTP*G)-3'	-	-	-
G	5'-D(CPGPTPGPCPAP*T)-3'	-	-	-
H	5'-D(PGPAPCPTPAPTPGPCPAPCP*G)-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR035516	DNA gyrase/topoisomerase IV, subunit A, C-terminal	Homologous Superfamily
A, B	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
A, B	IPR013757	DNA topoisomerase, type IIA, alpha-helical domain superfamily	Homologous Superfamily
A, B	IPR013758	DNA topoisomerase, type IIA, domain A, alpha-beta	Homologous Superfamily
A, B	IPR006691	DNA gyrase/topoisomerase IV, subunit A, C-terminal repeat	Repeat
A, B	IPR005741	DNA topoisomerase IV subunit A, Gram-positive	Family
A, B	IPR002205	DNA topoisomerase, type IIA, domain A	Domain
C, D	IPR018522	DNA topoisomerase, type IIA, conserved site	Conserved Site
C, D	IPR003594	Histidine kinase/HSP90-like ATPase	Domain
C, D	IPR013506	DNA topoisomerase, type IIA, subunit B, domain 2	Domain
C, D	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
C, D	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
C, D	IPR006171	TOPRIM domain	Domain
C, D	IPR000565	DNA topoisomerase, type IIA, subunit B	Family
C, D	IPR013759	DNA topoisomerase, type IIA, subunit B, C-terminal	Homologous Superfamily
C, D	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
C, D	IPR001241	DNA topoisomerase, type IIA	Family
C, D	IPR005740	DNA topoisomerase 4 subunit B, Firmicutes/Mollicutes	Family
C, D	IPR002288	DNA gyrase B subunit, C-terminal	Domain
C, D	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily