4LY4 | pdb_00004ly4

Crystal structure of peptidoglycan deacetylase (HP0310) with Zinc from Helicobacter pylori

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
D	Polysacc_deac_1	e4ly4D1	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	e4ly4C1	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	e4ly4B1	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	e4ly4A1	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 (4.2.0)
C	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (4.2.0)
B	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (4.2.0)
A	3.20.20.370	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycoside hydrolase/deacetylase	CATH (4.2.0)

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 deacetylase	hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds hydrolase activity, acting on ester bonds carboxylic ester hydrolase activity acetylxylan esterase activity cation binding ion binding binding metal ion binding small molecule binding	carbohydrate metabolic process xylan catabolic process catabolic process carbohydrate catabolic process hemicellulose catabolic process primary metabolic process macromolecule catabolic process xylan metabolic process polysaccharide metabolic process polysaccharide catabolic process metabolic process cellular process macromolecule metabolic process cellular component organization carbohydrate metabolic process xylan catabolic process catabolic process carbohydrate catabolic process hemicellulose catabolic process primary metabolic process macromolecule catabolic process xylan metabolic process polysaccharide metabolic process polysaccharide catabolic process metabolic process cellular process macromolecule metabolic process cellular component organization cell wall organization or biogenesis cell wall organization cellular component organization or biogenesis external encapsulating structure organization	-

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	IPR037950	Peptidoglycan deacetylase PgdA-like	Family
A, B, C, D	IPR002509	NodB homology domain	Domain

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.