2MKX | pdb_00002mkx

Solution structure of LysM the peptidoglycan binding domain of autolysin AtlA from Enterococcus faecalis

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2mkxa1	Alpha and beta proteins (a+b)	LysM domain	LysM domain	automated matches	automated matches	(Enterococcus faecalis V583 ) [TaxId: 226185 ],	SCOPe (2.08)
A	d2mkxa2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Enterococcus faecalis V583 ) [TaxId: 226185 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	LysM domain	8076158	4000905	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	LysM domain-like	8076159	3001938	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Hormone_recep	e2mkxA1	A: a/b three-layered sandwiches	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Hormone_recep	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.350.10	Alpha Beta	Roll	Membrane-bound Lytic Murein Transglycosylase D	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01476	LysM domain (LysM)	LysM domain	The LysM (lysin motif) domain is about 40 residues long. It is found in a variety of enzymes involved in bacterial cell wall degradation [1]. This domain may have a general peptidoglycan binding function. The structure of this domain is known [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Autolysin	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 peptidoglycan lytic transglycosylase activity peptidoglycan muralytic activity lytic endotransglycosylase activity lyase activity carbon-oxygen lyase activity, acting on polysaccharides carbon-oxygen lyase activity hydrolase activity, acting on glycosyl bonds	cell septum assembly cytokinesis cellular component biogenesis cellular component organization cellular component assembly cytokinetic process division septum assembly cellular process cell cycle cell division cellular component organization or biogenesis cell cycle process defense response to bacterium biological process involved in interspecies interaction between organisms cell septum assembly cytokinesis cellular component biogenesis cellular component organization cellular component assembly cytokinetic process division septum assembly cellular process cell cycle cell division cellular component organization or biogenesis cell cycle process defense response to bacterium biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response response to bacterium response to stress response to external stimulus response to external biotic stimulus response to biotic stimulus cell wall organization or biogenesis cell wall organization external encapsulating structure organization disruption of cell in another organism disruption of anatomical structure in another organism killing of cells of another organism cell killing	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036779	LysM domain superfamily	Homologous Superfamily
A	IPR002901	Mannosyl-glycoprotein endo-beta-N-acetylglucosamidase-like domain	Domain
A	IPR018392	LysM 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.