5J72 | pdb_00005j72

Cwp6 from Clostridium difficile

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Zn-dependent exopeptidases	8056035	3000662	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	CWBR2-like	8056033	3002334	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	E set domains	8056037	3000070	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	CWBR2-like	8056031	3002334	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	CWBR2-like	8056033	3002334	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	CWBR2-like	8056032	3002334	SCOP2B (2022-06-29)
A	SCOP2 Family	CWBR2 triplet-like	8056030	4007661	SCOP2 (2022-06-29)
A	SCOP2 Family	N-acetylmuramoyl-L-alanine amidase-like	8056034	4001130	SCOP2 (2022-06-29)
A	SCOP2 Family	Cwp6 N-terminal domain-like	8056036	4007662	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	CWBR2-like	8056031	3002334	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Zn-dependent exopeptidases	8056035	3000662	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	E set domains	8056037	3000070	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	CWBR2-like	8056032	3002334	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	CWBR2-like	8056033	3002334	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)
B	EUF07773	e5j72B2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07773	ECOD (1.6)
B	Amidase_3	e5j72B3	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Zn-dependent exopeptidases (From Topology)	T: Zn-dependent exopeptidases	F: Amidase_3	ECOD (1.6)
B	CW_binding_2	e5j72B1	A: a/b three-layered sandwiches	X: Endolysin C-terminal domain (From Topology)	H: Endolysin C-terminal domain (From Topology)	T: Endolysin C-terminal domain	F: CW_binding_2	ECOD (1.6)
A	EUF07773	e5j72A1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07773	ECOD (1.6)
A	Amidase_3	e5j72A5	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Zn-dependent exopeptidases (From Topology)	T: Zn-dependent exopeptidases	F: Amidase_3	ECOD (1.6)
A	CW_binding_2	e5j72A3	A: a/b three-layered sandwiches	X: Endolysin C-terminal domain (From Topology)	H: Endolysin C-terminal domain (From Topology)	T: Endolysin C-terminal domain	F: CW_binding_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.630.40	Alpha Beta	3-Layer(aba) Sandwich	Aminopeptidase	Zn-dependent exopeptidases	CATH (utative)
A	3.40.630.40	Alpha Beta	3-Layer(aba) Sandwich	Aminopeptidase	Zn-dependent exopeptidases	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF21465	Putative N-acetylmuramoyl-L-alanine amidase cwp6, N-terminal domain (Cwp6_N)	Putative N-acetylmuramoyl-L-alanine amidase cwp6, N-terminal domain	This domain is found in the putative N-acetylmuramoyl-L-alanine amidase cwp6 from Clostridioides difficile and similar proteins from firmicutes. Cwp6, which is involved in cell wall remodelling, consists of five domains: an N-terminal (this entry), a ...	This domain is found in the putative N-acetylmuramoyl-L-alanine amidase cwp6 from Clostridioides difficile and similar proteins from firmicutes. Cwp6, which is involved in cell wall remodelling, consists of five domains: an N-terminal (this entry), a trimer of CWB2 (Pfam:PF04122) and a C-terminal (Pfam:PF01520). This domain, which locates at the bottom of the molecule, folds into a seven-stranded beta-barrel with one alpha-helix and with two additional short beta-strands [1].	Domain
A, B	PF04122	Cell wall binding domain 2 (CWB2) (CW_binding_2)	Cell wall binding domain 2 (CWB2)	This domain is found in 1 to 3 tandem copies in a wide variety of bacterial cell surface proteins. It has been show the three tandem repeats of the CWB2 domain are essential for correct anchoring to the cell wall [1]. It was shown that in SlpA and Cw ...	This domain is found in 1 to 3 tandem copies in a wide variety of bacterial cell surface proteins. It has been show the three tandem repeats of the CWB2 domain are essential for correct anchoring to the cell wall [1]. It was shown that in SlpA and Cwp2 that these domains were essential for the binding of PSII an anionic teichoic acid-like component of the cell wall [1]. The structure of the Cwp8 and Cwp6 proteins shows that this domain forms a trimeric arrangement with each domain adopting a structure with some similarity to the Toprim fold [2]. A groove containing many conserved residues was predicted to be the site of the PSII molecule [2].	Domain
A, B	PF01520	N-acetylmuramoyl-L-alanine amidase (Amidase_3)	N-acetylmuramoyl-L-alanine amidase	This enzyme domain cleaves the amide bond between N-acetylmuramoyl and L-amino acids in bacterial cell walls.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Putative N-acetylmuramoyl-L-alanine amidase,autolysin cwp6	cation binding ion binding binding metal ion binding small molecule binding peptidoglycan muralytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides hydrolase activity catalytic activity N-acetylmuramoyl-L-alanine amidase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	carbohydrate derivative catabolic process catabolic process peptidoglycan catabolic process glycosaminoglycan metabolic process carbohydrate derivative metabolic process aminoglycan catabolic process macromolecule catabolic process glycosaminoglycan catabolic process aminoglycan metabolic process peptidoglycan metabolic process metabolic process cellular process macromolecule metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR051922	Bacterial Sporulation-Associated	Family
A, B	IPR007253	Cell wall binding repeat 2	Repeat
A, B	IPR048586	N-acetylmuramoyl-L-alanine amidase Cwp6-like, N-terminal domain	Domain
A, B	IPR002508	N-acetylmuramoyl-L-alanine amidase, catalytic 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.