Annotations: 4Q2W

Crystal Structure of pneumococcal peptidoglycan hydrolase LytB

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	LytB_SH3	e4q2wA1	A: a/b three-layered sandwiches	X: HTH	H: SH3	T: SH3	F: LytB_SH3	ECOD (v294.1)
A	Mg-por_mtran_C, Methyltransf_25	e4q2wA2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: Three-helical HTH	F: Mg-por_mtran_C, Methyltransf_25	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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	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	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	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	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR041074	Endo-beta-N-acetylglucosaminidase LytB, LytB SH3 domain	Domain
A	IPR051056	Glycosyl Hydrolase Family 73	Family
A	IPR002901	Mannosyl-glycoprotein endo-beta-N-acetylglucosamidase-like domain	Domain
A	IPR018337	Cell wall/choline-binding repeat	Repeat
A	IPR040742	Peptidoglycan hydrolase LytB, WW-like domain	Domain

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

4Q2W | pdb_00004q2w

Crystal Structure of pneumococcal peptidoglycan hydrolase LytB

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage