2NYG

Crystal structure of YokD protein from Bacillus subtilis

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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	d2nyga1	Alpha and beta proteins (a/b)	TTHA0583/YokD-like	TTHA0583/YokD-like	Aminoglycoside 3-N-acetyltransferase-like	Uncharacterized protein YokD	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
A	d2nyga2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
E	d2nyge_	Alpha and beta proteins (a/b)	TTHA0583/YokD-like	TTHA0583/YokD-like	Aminoglycoside 3-N-acetyltransferase-like	Uncharacterized protein YokD	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
B	d2nygb_	Alpha and beta proteins (a/b)	TTHA0583/YokD-like	TTHA0583/YokD-like	Aminoglycoside 3-N-acetyltransferase-like	Uncharacterized protein YokD	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
C	d2nygc2	Alpha and beta proteins (a/b)	TTHA0583/YokD-like	TTHA0583/YokD-like	Aminoglycoside 3-N-acetyltransferase-like	Uncharacterized protein YokD	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
C	d2nygc3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
D	d2nygd2	Alpha and beta proteins (a/b)	TTHA0583/YokD-like	TTHA0583/YokD-like	Aminoglycoside 3-N-acetyltransferase-like	Uncharacterized protein YokD	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
D	d2nygd3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
F	d2nygf_	Alpha and beta proteins (a/b)	TTHA0583/YokD-like	TTHA0583/YokD-like	Aminoglycoside 3-N-acetyltransferase-like	Uncharacterized protein YokD	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Aminoglycoside 3-N-acetyltransferase-like	8022551	4002431	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	TTHA0583/YokD-like	8034931	3001081	SCOP2 (2022-06-29)
E	SCOP2B Superfamily	TTHA0583/YokD-like	8034931	3001081	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	TTHA0583/YokD-like	8034931	3001081	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	TTHA0583/YokD-like	8034931	3001081	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	TTHA0583/YokD-like	8034931	3001081	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	TTHA0583/YokD-like	8034931	3001081	SCOP2B (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	Antibiotic_NAT	e2nygA1	A: a/b three-layered sandwiches	X: Hypothetical protein TT1679 (From Topology)	H: Hypothetical protein TT1679 (From Topology)	T: Hypothetical protein TT1679	F: Antibiotic_NAT	ECOD (1.6)
E	Antibiotic_NAT	e2nygE1	A: a/b three-layered sandwiches	X: Hypothetical protein TT1679 (From Topology)	H: Hypothetical protein TT1679 (From Topology)	T: Hypothetical protein TT1679	F: Antibiotic_NAT	ECOD (1.6)
B	Antibiotic_NAT	e2nygB1	A: a/b three-layered sandwiches	X: Hypothetical protein TT1679 (From Topology)	H: Hypothetical protein TT1679 (From Topology)	T: Hypothetical protein TT1679	F: Antibiotic_NAT	ECOD (1.6)
C	Antibiotic_NAT	e2nygC1	A: a/b three-layered sandwiches	X: Hypothetical protein TT1679 (From Topology)	H: Hypothetical protein TT1679 (From Topology)	T: Hypothetical protein TT1679	F: Antibiotic_NAT	ECOD (1.6)
D	Antibiotic_NAT	e2nygD1	A: a/b three-layered sandwiches	X: Hypothetical protein TT1679 (From Topology)	H: Hypothetical protein TT1679 (From Topology)	T: Hypothetical protein TT1679	F: Antibiotic_NAT	ECOD (1.6)
F	Antibiotic_NAT	e2nygF1	A: a/b three-layered sandwiches	X: Hypothetical protein TT1679 (From Topology)	H: Hypothetical protein TT1679 (From Topology)	T: Hypothetical protein TT1679	F: Antibiotic_NAT	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF02522	Aminoglycoside 3-N-acetyltransferase (Antibiotic_NAT)	Aminoglycoside 3-N-acetyltransferase	This family consists of bacterial aminoglycoside 3-N-acetyltransferases EC:2.3.1.81, these catalyse the reaction: Acetyl-Co + a 2-deoxystreptamine antibiotic <=> CoA + N3'-acetyl-2-deoxystreptamine antibiotic. The enzyme can use ...	This family consists of bacterial aminoglycoside 3-N-acetyltransferases EC:2.3.1.81, these catalyse the reaction: Acetyl-Co + a 2-deoxystreptamine antibiotic <=> CoA + N3'-acetyl-2-deoxystreptamine antibiotic. The enzyme can use a range of antibiotics with 2-deoxystreptamine rings as acceptor for its acetyltransferase activity, this inactivates and confers resistance to gentamicin, kanamycin, tobramycin, neomycin and apramycin amongst others.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	YokD protein	acetyltransferase activity N-acetyltransferase activity acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity N-acyltransferase activity	response to stimulus response to chemical response to antibiotic	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR003679	Aminoglycoside N(3)-acetyltransferase-like	Family
A, B, C, D, E A, B, C, D, E, F	IPR028345	Aminoglycoside 3-N-acetyltransferase-like	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.