1YI7 | pdb_00001yi7

Beta-d-xylosidase (selenomethionine) XYND from Clostridium Acetobutylicum

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)
D	d1yi7d1	All beta proteins	Concanavalin A-like lectins/glucanases	Concanavalin A-like lectins/glucanases	Beta-D-xylosidase C-terminal domain-like	Beta-D-xylosidase C-terminal domain	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
D	d1yi7d2	All beta proteins	5-bladed beta-propeller	Arabinanase/levansucrase/invertase	alpha-L-arabinanase-like	Beta-D-xylosidase N-terminal domain	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
D	d1yi7d4	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
D	d1yi7d3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
C	d1yi7c1	All beta proteins	Concanavalin A-like lectins/glucanases	Concanavalin A-like lectins/glucanases	Beta-D-xylosidase C-terminal domain-like	Beta-D-xylosidase C-terminal domain	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
C	d1yi7c2	All beta proteins	5-bladed beta-propeller	Arabinanase/levansucrase/invertase	alpha-L-arabinanase-like	Beta-D-xylosidase N-terminal domain	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
C	d1yi7c4	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
C	d1yi7c3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
B	d1yi7b1	All beta proteins	Concanavalin A-like lectins/glucanases	Concanavalin A-like lectins/glucanases	Beta-D-xylosidase C-terminal domain-like	Beta-D-xylosidase C-terminal domain	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
B	d1yi7b2	All beta proteins	5-bladed beta-propeller	Arabinanase/levansucrase/invertase	alpha-L-arabinanase-like	Beta-D-xylosidase N-terminal domain	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
B	d1yi7b4	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
B	d1yi7b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
A	d1yi7a1	All beta proteins	Concanavalin A-like lectins/glucanases	Concanavalin A-like lectins/glucanases	Beta-D-xylosidase C-terminal domain-like	Beta-D-xylosidase C-terminal domain	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
A	d1yi7a2	All beta proteins	5-bladed beta-propeller	Arabinanase/levansucrase/invertase	alpha-L-arabinanase-like	Beta-D-xylosidase N-terminal domain	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
A	d1yi7a4	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)
A	d1yi7a3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Clostridium acetobutylicum ATCC 824 ) [TaxId: 272562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Furanosidase-like	8034154	3000845	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8034152	3000120	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8034152	3000120	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Furanosidase-like	8034154	3000845	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8034152	3000120	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Furanosidase-like	8034154	3000845	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Furanosidase-like	8034154	3000845	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8034152	3000120	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	CBM27	e1yi7D1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: CBM27	ECOD (v294.1)
D	Ldl_recept_b	e1yi7D2	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: Phage tail fiber protein trimerization domain	T: Phage tail fiber protein trimerization domain	F: Ldl_recept_b	ECOD (v294.1)
C	CBM27	e1yi7C1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: CBM27	ECOD (v294.1)
C	Ldl_recept_b	e1yi7C2	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: Phage tail fiber protein trimerization domain	T: Phage tail fiber protein trimerization domain	F: Ldl_recept_b	ECOD (v294.1)
B	CBM27	e1yi7B1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: CBM27	ECOD (v294.1)
B	Ldl_recept_b	e1yi7B2	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: Phage tail fiber protein trimerization domain	T: Phage tail fiber protein trimerization domain	F: Ldl_recept_b	ECOD (v294.1)
A	CBM27	e1yi7A1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: CBM27	ECOD (v294.1)
A	Ldl_recept_b	e1yi7A2	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: Phage tail fiber protein trimerization domain	T: Phage tail fiber protein trimerization domain	F: Ldl_recept_b	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.115.10.20	Mainly Beta	5 Propeller	Tachylectin-2	Chain A	CATH (4.3.0)
D	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
C	2.115.10.20	Mainly Beta	5 Propeller	Tachylectin-2	Chain A	CATH (4.3.0)
C	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
B	2.115.10.20	Mainly Beta	5 Propeller	Tachylectin-2	Chain A	CATH (4.3.0)
B	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
A	2.115.10.20	Mainly Beta	5 Propeller	Tachylectin-2	Chain A	CATH (4.3.0)
A	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF04616	Glycosyl hydrolases family 43 (Glyco_hydro_43)	Glycosyl hydrolases family 43	-	Repeat
A, B, C, D	PF17851	Beta xylosidase C-terminal Concanavalin A-like domain (GH43_C2)	Beta xylosidase C-terminal Concanavalin A-like domain	This domain is found to the C-terminus of the Pfam:PF04616 domain. This domain adopts a concanavalin A-like fold.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Beta-xylosidase, family 43 glycosyl hydrolase	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, C, D	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A, B, C, D	IPR023296	Glycosyl hydrolase, five-bladed beta-propeller domain superfamily	Homologous Superfamily
A, B, C, D	IPR006710	Glycoside hydrolase, family 43	Family
A, B, C, D	IPR041542	Beta-xylosidase, C-terminal Concanavalin A-like domain	Domain
A, B, C, D	IPR051795	Glycosyl Hydrolase Family 43	Family

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.