5O6Y | pdb_00005o6y

Crystal structure of the Bc1960 peptidoglycan N-acetylglucosamine deacetylase in complex with 4-naphthalen-1-yl-~{N}-oxidanyl-benzamide

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d5o6yd_	Alpha and beta proteins (a/b)	7-stranded beta/alpha barrel	Glycoside hydrolase/deacetylase	automated matches	automated matches	(Bacillus cereus ATCC 14579 ) [TaxId: 226900 ],	SCOPe (2.08)
C	d5o6yc_	Alpha and beta proteins (a/b)	7-stranded beta/alpha barrel	Glycoside hydrolase/deacetylase	automated matches	automated matches	(Bacillus cereus ATCC 14579 ) [TaxId: 226900 ],	SCOPe (2.08)
B	d5o6yb_	Alpha and beta proteins (a/b)	7-stranded beta/alpha barrel	Glycoside hydrolase/deacetylase	automated matches	automated matches	(Bacillus cereus ATCC 14579 ) [TaxId: 226900 ],	SCOPe (2.08)
A	d5o6ya_	Alpha and beta proteins (a/b)	7-stranded beta/alpha barrel	Glycoside hydrolase/deacetylase	automated matches	automated matches	(Bacillus cereus ATCC 14579 ) [TaxId: 226900 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Polysacc_deac_1	e5o6yD1	A: a/b barrels	X: TIM beta/alpha-barrel	H: Glycoside hydrolase/deacetylase (From Topology)	T: Glycoside hydrolase/deacetylase	F: Polysacc_deac_1	ECOD (1.6)
C	Polysacc_deac_1	e5o6yC1	A: a/b barrels	X: TIM beta/alpha-barrel	H: Glycoside hydrolase/deacetylase (From Topology)	T: Glycoside hydrolase/deacetylase	F: Polysacc_deac_1	ECOD (1.6)
B	Polysacc_deac_1	e5o6yB1	A: a/b barrels	X: TIM beta/alpha-barrel	H: Glycoside hydrolase/deacetylase (From Topology)	T: Glycoside hydrolase/deacetylase	F: Polysacc_deac_1	ECOD (1.6)
A	Polysacc_deac_1	e5o6yA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: Glycoside hydrolase/deacetylase (From Topology)	T: Glycoside hydrolase/deacetylase	F: Polysacc_deac_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (utative)
C	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (utative)
B	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (utative)
A	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, C, D	PF01522	Polysaccharide deacetylase (Polysacc_deac_1)	Polysaccharide deacetylase	-	Family
A	PF01522	Polysaccharide deacetylase (Polysacc_deac_1)	Polysaccharide deacetylase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, C, D	Peptidoglycan N-acetylglucosamine deacetylase	hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding ion binding binding metal ion binding small molecule binding	carbohydrate metabolic process primary metabolic process metabolic process cellular process	-
A	Peptidoglycan N-acetylglucosamine deacetylase	hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding ion binding binding metal ion binding small molecule binding	carbohydrate metabolic process primary metabolic process metabolic process cellular process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, C, D	IPR011330	Glycoside hydrolase/deacetylase, beta/alpha-barrel	Homologous Superfamily
B, C, D	IPR050248	Polysaccharide deacetylase, ArnD subfamily	Family
B, C, D	IPR054895	PGN N-acetylglucosamine deacetylase	Family
B, C, D	IPR002509	NodB homology domain	Domain
A	IPR011330	Glycoside hydrolase/deacetylase, beta/alpha-barrel	Homologous Superfamily
A	IPR050248	Polysaccharide deacetylase, ArnD subfamily	Family
A	IPR054895	PGN N-acetylglucosamine deacetylase	Family
A	IPR002509	NodB homology domain	Domain

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B, C, D	PXU	Parent Component: PRO RESID: AA0602 PSI-MOD : 2-hydroxyproline MOD:01957

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.