7PJ6

Crystal structure of catalytic domain of LytB (E585Q) from Streptococcus pneumoniae in complex with NAG-NAM-NAG-NAM-NAG peptidolycan analogue

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 AAA]	PF18342	e7pj6AAA1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF18342	ECOD (1.6)
A [auth AAA]	PF17890	e7pj6AAA3	A: beta meanders	X: WW domain-like	H: Peptidoglycan hydrolase LytB WW-like domain (From Topology)	T: Peptidoglycan hydrolase LytB WW-like domain	F: PF17890	ECOD (1.6)
A [auth AAA]	PF01832	e7pj6AAA2	A: a+b complex topology	X: Lysozyme-like (From Homology)	H: Lysozyme-like	T: Lysozyme-like	F: PF01832	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth AAA]	PF01832	Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase (Glucosaminidase)	Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase	This family includes Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase EC:3.2.1.96. As well as the flageller protein J Swiss:P75942 that has been shown to hydrolyse peptidoglycan [1].	Domain
A [auth AAA]	PF17890	Peptidoglycan hydrolase LytB WW-like domain (WW_like)	Peptidoglycan hydrolase LytB WW-like domain	Structural analysis revealed that the catalytic domain of LytB consists of three structurally independent modules: SH3b, WW domain-like, and the glycoside hydrolase family 73 (GH73). This entry is the WW like domain found in endo-beta-N-acetylglucosa ...	Structural analysis revealed that the catalytic domain of LytB consists of three structurally independent modules: SH3b, WW domain-like, and the glycoside hydrolase family 73 (GH73). This entry is the WW like domain found in endo-beta-N-acetylglucosaminidase LytB from Streptococcus pneumoniae. Functional analysis show that the deletion of both SH3b and WW modules almost completely abolished the activity of LytB. Furthermore, it was shown that the SH3b and WW modules are indispensable for LytB in cell separation [1].	Domain
A [auth AAA]	PF18342	Endo-beta-N-acetylglucosaminidase LytB SH3 domain (LytB_SH3)	Endo-beta-N-acetylglucosaminidase LytB SH3 domain	This domain has can be found in endo-beta-N-acetylglucosaminidase LytB (EC 3.2.1.96) of S. pneumoniae and other gram positive bacteria. This domain adopts an SH3-like structure.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth AAA]	Putative endo-beta-N-acetylglucosaminidase	amidase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds	cellular component organization cell wall organization or biogenesis cell wall organization cellular process cellular component organization or biogenesis external encapsulating structure organization	extracellular region cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth AAA]	IPR041074	Endo-beta-N-acetylglucosaminidase LytB, LytB SH3 domain	Domain
A [auth AAA]	IPR002901	Mannosyl-glycoprotein endo-beta-N-acetylglucosamidase-like domain	Domain
A [auth AAA]	IPR018337	Cell wall/choline-binding repeat	Repeat
A [auth AAA]	IPR040742	Peptidoglycan hydrolase LytB, WW-like 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 R01GM133198.