4L1G

Crystal structure of the Bc1960 peptidoglycan N-acetylglucosamine deacetylase from Bacillus cereus

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
Structure Motif: Primary M-CSA Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4l1ga_	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	d4l1gb_	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	d4l1gc_	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)
D	d4l1gd_	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)
A	Polysacc_deac_1	e4l1gA1	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	e4l1gB1	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	e4l1gC1	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)
D	Polysacc_deac_1	e4l1gD1	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)
A	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (4.3.0)
B	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (4.3.0)
C	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (4.3.0)
D	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	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
A, 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	-

InterPro: Protein Family Classification InterPro Database Homepage

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

Protein Modification Annotation

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

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
C	Peptidoglycan-N-acetylglucosamine deacetylase Bc1960 M-CSA #996	Peptidoglycan N-acetylglucosamine (GlcNAc) deacetylase Bc1960 is a Bacillus cereus enzyme with backbone modifications is the Cα hydroxylation of a proline in the active site. Bc1960 is a polysaccharide deacetylase (PDA) that catalyzes the reaction of turning peptidoglycan-N-acetyl-D-glucosamine to peptidoglycan-D-glucosamine. Modification of peptidoglycan by N-deacetylation is an important factor in virulence of Helicobacter pylori, Listeria monocytogenes and Streptococcus suis.	Defined by 6 residues: ASP:C-80ASP:C-81HIS:C-131HIS:C-135UNK:C-171HIS:C-225 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 3.5.1 (PDB Primary Data) Search M-CSA Motif + EC 3.5.1 EC: 3.5.1.104 (UniProt) Search M-CSA Motif + EC 3.5.1.104

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.