6QX2

3.4A structure of benzoisoxazole 3 with S.aureus DNA gyrase and DNA

External Resource: Annotation

Domain Annotation: ECOD Classification
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 [auth B]	PF00986,PF01751	e6qx2B1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
M [auth S]	PF00986,PF01751	e6qx2S1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
S [auth b]	PF00986,PF01751	e6qx2b1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
EA [auth s]	PF00986,PF01751	e6qx2s1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
B [auth A]	PF00521	e6qx2A2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
B [auth A]	PF00521	e6qx2A1	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 [auth A]	PF00521	e6qx2A3	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)
BA [auth l]	PF00521	e6qx2l2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
BA [auth l]	PF00521	e6qx2l1	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)
BA [auth l]	PF00521	e6qx2l3	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)
D [auth C]	PF00521	e6qx2C3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
D [auth C]	PF00521	e6qx2C2	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)
D [auth C]	PF00521	e6qx2C1	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)
HA [auth t]	PF00521	e6qx2t2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
HA [auth t]	PF00521	e6qx2t3	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)
HA [auth t]	PF00521	e6qx2t1	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)
J [auth L]	PF00521	e6qx2L3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
J [auth L]	PF00521	e6qx2L2	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)
J [auth L]	PF00521	e6qx2L1	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)
N [auth R]	PF00521	e6qx2R1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
N [auth R]	PF00521	e6qx2R2	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)
N [auth R]	PF00521	e6qx2R3	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)
P [auth T]	PF00521	e6qx2T1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
P [auth T]	PF00521	e6qx2T2	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)
P [auth T]	PF00521	e6qx2T3	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)
T [auth a]	PF00521	e6qx2a3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
T [auth a]	PF00521	e6qx2a2	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)
T [auth a]	PF00521	e6qx2a1	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)
V [auth c]	PF00521	e6qx2c2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
V [auth c]	PF00521	e6qx2c3	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)
V [auth c]	PF00521	e6qx2c1	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)
Z [auth j]	PF00521	e6qx2j2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
Z [auth j]	PF00521	e6qx2j1	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)
Z [auth j]	PF00521	e6qx2j3	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)
FA [auth r]	PF00521	e6qx2r3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
FA [auth r]	PF00521	e6qx2r2	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)
FA [auth r]	PF00521	e6qx2r1	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)
AA [auth m]	PF00986,PF01751	e6qx2m1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
C [auth D]	PF00986,PF01751	e6qx2D1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
O [auth U]	PF00986,PF01751	e6qx2U1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
G [auth K]	PF00986,PF01751	e6qx2K1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
H [auth J]	PF00521	e6qx2J2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00521	ECOD (1.6)
H [auth J]	PF00521	e6qx2J1	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)
H [auth J]	PF00521	e6qx2J3	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)
I [auth M]	PF00986,PF01751	e6qx2M1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
U [auth d]	PF00986,PF01751	e6qx2d1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
Y [auth k]	PF00986,PF01751	e6qx2k1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)
GA [auth u]	PF00986,PF01751	e6qx2u1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: PF00986,PF01751	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], EA [auth s], M [auth S], S [auth b]	PF01751	Toprim domain (Toprim)	Toprim domain	-	Family
B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], J [auth L], N [auth R], P [auth T], T [auth a], V [auth c], Z [auth j]	PF00521	DNA gyrase/topoisomerase IV, subunit A (DNA_topoisoIV)	DNA gyrase/topoisomerase IV, subunit A	-	Family
AA [auth m], C [auth D], O [auth U]	PF01751	Toprim domain (Toprim)	Toprim domain	-	Family
G [auth K]	PF01751	Toprim domain (Toprim)	Toprim domain	-	Family
H [auth J]	PF00521	DNA gyrase/topoisomerase IV, subunit A (DNA_topoisoIV)	DNA gyrase/topoisomerase IV, subunit A	-	Family
I [auth M]	PF01751	Toprim domain (Toprim)	Toprim domain	-	Family
U [auth d]	PF01751	Toprim domain (Toprim)	Toprim domain	-	Family
Y [auth k]	PF01751	Toprim domain (Toprim)	Toprim domain	-	Family
GA [auth u]	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], EA [auth s], M [auth S], S [auth b]	DNA gyrase subunit B,DNA gyrase 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	response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization DNA conformation change cellular component organization DNA topological change organelle organization cellular process cellular component organization or biogenesis	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cytoplasm
B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], J [auth L], N [auth R], P [auth T], T [auth a], V [auth c], Z [auth j]	DNA gyrase 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 DNA negative supercoiling 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	response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization DNA conformation change cellular component organization DNA topological change organelle organization cellular process cellular component organization or biogenesis	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cytoplasm
AA [auth m], C [auth D], O [auth U]	DNA gyrase subunit B,DNA gyrase 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	response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization DNA conformation change cellular component organization DNA topological change organelle organization cellular process cellular component organization or biogenesis	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cytoplasm
CA [auth n], E, F, IA [auth v], JA [auth w], CA [auth n], E, F, IA [auth v], JA [auth w], K [auth N], L [auth O], R [auth W], W [auth e]	DNA (5'-D(GPAPGPCPGPTPAPCPGPGPCPCPGPTPAPCPGPCPTPT)-3')	-	-	-
G [auth K]	DNA gyrase subunit B,DNA gyrase 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	response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization DNA conformation change cellular component organization DNA topological change organelle organization cellular process cellular component organization or biogenesis	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cytoplasm
H [auth J]	DNA gyrase 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 DNA negative supercoiling 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	response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization DNA conformation change cellular component organization DNA topological change organelle organization cellular process cellular component organization or biogenesis	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cytoplasm
I [auth M]	DNA gyrase subunit B,DNA gyrase 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	response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization DNA conformation change cellular component organization DNA topological change organelle organization cellular process cellular component organization or biogenesis	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cytoplasm
DA [auth o], Q [auth V]	DNA (5'-D(GPAPGPCPGPTPAPCPGPGPCPCPGPTPAPCPGPCPTPT)-3')	-	-	-
U [auth d]	DNA gyrase subunit B,DNA gyrase 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	response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization DNA conformation change cellular component organization DNA topological change organelle organization cellular process cellular component organization or biogenesis	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cytoplasm
Y [auth k]	DNA gyrase subunit B,DNA gyrase 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	response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization DNA conformation change cellular component organization DNA topological change organelle organization cellular process cellular component organization or biogenesis	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cytoplasm
GA [auth u]	DNA gyrase subunit B,DNA gyrase 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	response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization response to stimulus response to chemical response to antibiotic nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA-templated DNA replication DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization DNA conformation change cellular component organization DNA topological change organelle organization cellular process cellular component organization or biogenesis	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle chromosome cellular anatomical entity non-membrane-bounded organelle cytoplasm
X [auth f]	DNA (5'-D(GPAPGPCPGPTPAPCPGPGPCPCPGPTPAPCPGPCPTPT)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR011557	DNA gyrase, subunit B	Family
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR034160	DNA gyrase subunit B, TOPRIM domain	Domain
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR018522	DNA topoisomerase, type IIA, conserved site	Conserved Site
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR003594	Histidine kinase/HSP90-like ATPase	Domain
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR013506	DNA topoisomerase, type IIA, subunit B, domain 2	Domain
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR006171	TOPRIM domain	Domain
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR000565	DNA topoisomerase, type IIA, subunit B	Family
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR013759	DNA topoisomerase, type IIA, subunit B, C-terminal	Homologous Superfamily
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR001241	DNA topoisomerase, type IIA	Family
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR002288	DNA gyrase B subunit, C-terminal	Domain
A [auth B], EA [auth s], M [auth S], S [auth b]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily
B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], J [auth L], N [auth R], P [auth T], T [auth a], V [auth c], Z [auth j]	IPR035516	DNA gyrase/topoisomerase IV, subunit A, C-terminal	Homologous Superfamily
B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], J [auth L], N [auth R], P [auth T], T [auth a], V [auth c], Z [auth j]	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], J [auth L], N [auth R], P [auth T], T [auth a], V [auth c], Z [auth j]	IPR013757	DNA topoisomerase, type IIA, alpha-helical domain superfamily	Homologous Superfamily
B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], J [auth L], N [auth R], P [auth T], T [auth a], V [auth c], Z [auth j]	IPR013758	DNA topoisomerase, type IIA, domain A, alpha-beta	Homologous Superfamily
B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], J [auth L], N [auth R], P [auth T], T [auth a], V [auth c], Z [auth j]	IPR005743	DNA gyrase, subunit A	Family
B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], J [auth L], N [auth R], P [auth T], T [auth a], V [auth c], Z [auth j]	IPR006691	DNA gyrase/topoisomerase IV, subunit A, C-terminal repeat	Repeat
B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], B [auth A], BA [auth l], D [auth C], FA [auth r], HA [auth t], J [auth L], N [auth R], P [auth T], T [auth a], V [auth c], Z [auth j]	IPR002205	DNA topoisomerase, type IIA, domain A	Domain
AA [auth m], C [auth D], O [auth U]	IPR011557	DNA gyrase, subunit B	Family
AA [auth m], C [auth D], O [auth U]	IPR034160	DNA gyrase subunit B, TOPRIM domain	Domain
AA [auth m], C [auth D], O [auth U]	IPR018522	DNA topoisomerase, type IIA, conserved site	Conserved Site
AA [auth m], C [auth D], O [auth U]	IPR003594	Histidine kinase/HSP90-like ATPase	Domain
AA [auth m], C [auth D], O [auth U]	IPR013506	DNA topoisomerase, type IIA, subunit B, domain 2	Domain
AA [auth m], C [auth D], O [auth U]	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
AA [auth m], C [auth D], O [auth U]	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
AA [auth m], C [auth D], O [auth U]	IPR006171	TOPRIM domain	Domain
AA [auth m], C [auth D], O [auth U]	IPR000565	DNA topoisomerase, type IIA, subunit B	Family
AA [auth m], C [auth D], O [auth U]	IPR013759	DNA topoisomerase, type IIA, subunit B, C-terminal	Homologous Superfamily
AA [auth m], C [auth D], O [auth U]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
AA [auth m], C [auth D], O [auth U]	IPR001241	DNA topoisomerase, type IIA	Family
AA [auth m], C [auth D], O [auth U]	IPR002288	DNA gyrase B subunit, C-terminal	Domain
AA [auth m], C [auth D], O [auth U]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily
G [auth K]	IPR011557	DNA gyrase, subunit B	Family
G [auth K]	IPR034160	DNA gyrase subunit B, TOPRIM domain	Domain
G [auth K]	IPR018522	DNA topoisomerase, type IIA, conserved site	Conserved Site
G [auth K]	IPR003594	Histidine kinase/HSP90-like ATPase	Domain
G [auth K]	IPR013506	DNA topoisomerase, type IIA, subunit B, domain 2	Domain
G [auth K]	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
G [auth K]	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
G [auth K]	IPR006171	TOPRIM domain	Domain
G [auth K]	IPR000565	DNA topoisomerase, type IIA, subunit B	Family
G [auth K]	IPR013759	DNA topoisomerase, type IIA, subunit B, C-terminal	Homologous Superfamily
G [auth K]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
G [auth K]	IPR001241	DNA topoisomerase, type IIA	Family
G [auth K]	IPR002288	DNA gyrase B subunit, C-terminal	Domain
G [auth K]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily
H [auth J]	IPR035516	DNA gyrase/topoisomerase IV, subunit A, C-terminal	Homologous Superfamily
H [auth J]	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
H [auth J]	IPR013757	DNA topoisomerase, type IIA, alpha-helical domain superfamily	Homologous Superfamily
H [auth J]	IPR013758	DNA topoisomerase, type IIA, domain A, alpha-beta	Homologous Superfamily
H [auth J]	IPR005743	DNA gyrase, subunit A	Family
H [auth J]	IPR006691	DNA gyrase/topoisomerase IV, subunit A, C-terminal repeat	Repeat
H [auth J]	IPR002205	DNA topoisomerase, type IIA, domain A	Domain
I [auth M]	IPR011557	DNA gyrase, subunit B	Family
I [auth M]	IPR034160	DNA gyrase subunit B, TOPRIM domain	Domain
I [auth M]	IPR018522	DNA topoisomerase, type IIA, conserved site	Conserved Site
I [auth M]	IPR003594	Histidine kinase/HSP90-like ATPase	Domain
I [auth M]	IPR013506	DNA topoisomerase, type IIA, subunit B, domain 2	Domain
I [auth M]	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
I [auth M]	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
I [auth M]	IPR006171	TOPRIM domain	Domain
I [auth M]	IPR000565	DNA topoisomerase, type IIA, subunit B	Family
I [auth M]	IPR013759	DNA topoisomerase, type IIA, subunit B, C-terminal	Homologous Superfamily
I [auth M]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
I [auth M]	IPR001241	DNA topoisomerase, type IIA	Family
I [auth M]	IPR002288	DNA gyrase B subunit, C-terminal	Domain
I [auth M]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily
U [auth d]	IPR011557	DNA gyrase, subunit B	Family
U [auth d]	IPR034160	DNA gyrase subunit B, TOPRIM domain	Domain
U [auth d]	IPR018522	DNA topoisomerase, type IIA, conserved site	Conserved Site
U [auth d]	IPR003594	Histidine kinase/HSP90-like ATPase	Domain
U [auth d]	IPR013506	DNA topoisomerase, type IIA, subunit B, domain 2	Domain
U [auth d]	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
U [auth d]	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
U [auth d]	IPR006171	TOPRIM domain	Domain
U [auth d]	IPR000565	DNA topoisomerase, type IIA, subunit B	Family
U [auth d]	IPR013759	DNA topoisomerase, type IIA, subunit B, C-terminal	Homologous Superfamily
U [auth d]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
U [auth d]	IPR001241	DNA topoisomerase, type IIA	Family
U [auth d]	IPR002288	DNA gyrase B subunit, C-terminal	Domain
U [auth d]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily
Y [auth k]	IPR011557	DNA gyrase, subunit B	Family
Y [auth k]	IPR034160	DNA gyrase subunit B, TOPRIM domain	Domain
Y [auth k]	IPR018522	DNA topoisomerase, type IIA, conserved site	Conserved Site
Y [auth k]	IPR003594	Histidine kinase/HSP90-like ATPase	Domain
Y [auth k]	IPR013506	DNA topoisomerase, type IIA, subunit B, domain 2	Domain
Y [auth k]	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
Y [auth k]	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
Y [auth k]	IPR006171	TOPRIM domain	Domain
Y [auth k]	IPR000565	DNA topoisomerase, type IIA, subunit B	Family
Y [auth k]	IPR013759	DNA topoisomerase, type IIA, subunit B, C-terminal	Homologous Superfamily
Y [auth k]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
Y [auth k]	IPR001241	DNA topoisomerase, type IIA	Family
Y [auth k]	IPR002288	DNA gyrase B subunit, C-terminal	Domain
Y [auth k]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily
GA [auth u]	IPR011557	DNA gyrase, subunit B	Family
GA [auth u]	IPR034160	DNA gyrase subunit B, TOPRIM domain	Domain
GA [auth u]	IPR018522	DNA topoisomerase, type IIA, conserved site	Conserved Site
GA [auth u]	IPR003594	Histidine kinase/HSP90-like ATPase	Domain
GA [auth u]	IPR013506	DNA topoisomerase, type IIA, subunit B, domain 2	Domain
GA [auth u]	IPR013760	DNA topoisomerase, type IIA-like domain superfamily	Homologous Superfamily
GA [auth u]	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
GA [auth u]	IPR006171	TOPRIM domain	Domain
GA [auth u]	IPR000565	DNA topoisomerase, type IIA, subunit B	Family
GA [auth u]	IPR013759	DNA topoisomerase, type IIA, subunit B, C-terminal	Homologous Superfamily
GA [auth u]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
GA [auth u]	IPR001241	DNA topoisomerase, type IIA	Family
GA [auth u]	IPR002288	DNA gyrase B subunit, C-terminal	Domain
GA [auth u]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	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 R01GM133198.

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6QX2

3.4A structure of benzoisoxazole 3 with S.aureus DNA gyrase and DNA

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage