3LV4 | pdb_00003lv4

Crystal structure of the glycoside hydrolase, family 43 YxiA protein from Bacillus licheniformis. Northeast Structural Genomics Consortium Target BiR14.

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	Quinohemoprotein amine dehydrogenase A chain, domain 3	8090568	3000299	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Furanosidase-like	8090567	3000845	SCOP2B (2022-06-29)
A	SCOP2 Family	GH43 ABNs, C-terminal domain-like	8045478	4004488	SCOP2 (2022-06-29)
A	SCOP2 Family	alpha-L-arabinanase-like	8090566	4002120	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Quinohemoprotein amine dehydrogenase A chain, domain 3	8090568	3000299	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Furanosidase-like	8090567	3000845	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	GH43_C	e3lv4B2	A: beta barrels	X: Lipocalins/Streptavidin	H: Barrel domain in extracellular arabinanase (From Topology)	T: Barrel domain in extracellular arabinanase	F: GH43_C	ECOD (1.6)
B	Glyco_hydro_43	e3lv4B1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 5-bladed	F: Glyco_hydro_43	ECOD (1.6)
A	GH43_C	e3lv4A2	A: beta barrels	X: Lipocalins/Streptavidin	H: Barrel domain in extracellular arabinanase (From Topology)	T: Barrel domain in extracellular arabinanase	F: GH43_C	ECOD (1.6)
A	Glyco_hydro_43	e3lv4A1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 5-bladed	F: Glyco_hydro_43	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.115.10.20	Mainly Beta	5 Propeller	Tachylectin-2	Chain A	CATH (4.2.0)
B	2.40.128.10	Mainly Beta	Beta Barrel	Lipocalin		CATH (4.2.0)
A	2.115.10.20	Mainly Beta	5 Propeller	Tachylectin-2	Chain A	CATH (4.2.0)
A	2.40.128.10	Mainly Beta	Beta Barrel	Lipocalin		CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF16369	C-terminal lipocalin-like domain (GH43_C)	C-terminal lipocalin-like domain	This is the C-terminal domain of Glycosyl hydrolases family 43. It is around 100 residues in length from various Bacteroides species. The function of this family is unknown. The domain is distantly related to lipocalins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Glycoside hydrolase YxiA	hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding	carbohydrate metabolic process primary metabolic process metabolic process cellular process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR050727	Glycosyl hydrolase 43 family arabinanases	Family
A, B	IPR023296	Glycosyl hydrolase, five-bladed beta-propeller domain superfamily	Homologous Superfamily
A, B	IPR006710	Glycoside hydrolase, family 43	Family
A, B	IPR032291	Extracellular endo-alpha-(1->5)-L-arabinanase, C-terminal	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.