1XSK | pdb_00001xsk

Structure of a Family 31 alpha glycosidase glycosyl-enzyme intermediate

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)
F	d1xskf2	All beta proteins	Supersandwich	Galactose mutarotase-like	Glycosyl hydrolase family 31, N-terminal domain-like	Putative glucosidase YicI, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F	d1xskf3	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	Glycosyl hydrolase family 31, domain 3	Putative glucosidase YicI, domain 3	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F	d1xskf1	All beta proteins	Glycolsyl hydrolase family 31 C-terminal domain-like	Glycolsyl hydrolase family 31 C-terminal domain	Glycolsyl hydrolase family 31 C-terminal domain	Putative glucosidase YicI, C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F	d1xskf4	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Glycosyl hydrolase family 31 catalytic domain	Putative glucosidase YicI, domain 2	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F	d1xskf5	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d1xske2	All beta proteins	Supersandwich	Galactose mutarotase-like	Glycosyl hydrolase family 31, N-terminal domain-like	Putative glucosidase YicI, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d1xske3	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	Glycosyl hydrolase family 31, domain 3	Putative glucosidase YicI, domain 3	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d1xske1	All beta proteins	Glycolsyl hydrolase family 31 C-terminal domain-like	Glycolsyl hydrolase family 31 C-terminal domain	Glycolsyl hydrolase family 31 C-terminal domain	Putative glucosidase YicI, C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d1xske4	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Glycosyl hydrolase family 31 catalytic domain	Putative glucosidase YicI, domain 2	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d1xske5	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d1xskd2	All beta proteins	Supersandwich	Galactose mutarotase-like	Glycosyl hydrolase family 31, N-terminal domain-like	Putative glucosidase YicI, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d1xskd3	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	Glycosyl hydrolase family 31, domain 3	Putative glucosidase YicI, domain 3	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d1xskd1	All beta proteins	Glycolsyl hydrolase family 31 C-terminal domain-like	Glycolsyl hydrolase family 31 C-terminal domain	Glycolsyl hydrolase family 31 C-terminal domain	Putative glucosidase YicI, C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d1xskd4	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Glycosyl hydrolase family 31 catalytic domain	Putative glucosidase YicI, domain 2	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d1xskd5	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1xskc2	All beta proteins	Supersandwich	Galactose mutarotase-like	Glycosyl hydrolase family 31, N-terminal domain-like	Putative glucosidase YicI, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1xskc3	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	Glycosyl hydrolase family 31, domain 3	Putative glucosidase YicI, domain 3	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1xskc1	All beta proteins	Glycolsyl hydrolase family 31 C-terminal domain-like	Glycolsyl hydrolase family 31 C-terminal domain	Glycolsyl hydrolase family 31 C-terminal domain	Putative glucosidase YicI, C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1xskc4	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Glycosyl hydrolase family 31 catalytic domain	Putative glucosidase YicI, domain 2	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1xskc5	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1xskb2	All beta proteins	Supersandwich	Galactose mutarotase-like	Glycosyl hydrolase family 31, N-terminal domain-like	Putative glucosidase YicI, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1xskb3	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	Glycosyl hydrolase family 31, domain 3	Putative glucosidase YicI, domain 3	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1xskb1	All beta proteins	Glycolsyl hydrolase family 31 C-terminal domain-like	Glycolsyl hydrolase family 31 C-terminal domain	Glycolsyl hydrolase family 31 C-terminal domain	Putative glucosidase YicI, C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1xskb4	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Glycosyl hydrolase family 31 catalytic domain	Putative glucosidase YicI, domain 2	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1xskb5	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1xska2	All beta proteins	Supersandwich	Galactose mutarotase-like	Glycosyl hydrolase family 31, N-terminal domain-like	Putative glucosidase YicI, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1xska3	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	Glycosyl hydrolase family 31, domain 3	Putative glucosidase YicI, domain 3	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1xska1	All beta proteins	Glycolsyl hydrolase family 31 C-terminal domain-like	Glycolsyl hydrolase family 31 C-terminal domain	Glycolsyl hydrolase family 31 C-terminal domain	Putative glucosidase YicI, C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1xska4	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Glycosyl hydrolase family 31 catalytic domain	Putative glucosidase YicI, domain 2	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1xska5	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	(Trans)glycosidases	8040493	3000313	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	YicI C-terminal domain-like	8040489	3000267	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8040491	3001528	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Galactose mutarotase-like	8040490	3000035	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	(Trans)glycosidases	8040493	3000313	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8040491	3001528	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	YicI C-terminal domain-like	8040489	3000267	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Galactose mutarotase-like	8040490	3000035	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8040491	3001528	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Galactose mutarotase-like	8040490	3000035	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	YicI C-terminal domain-like	8040489	3000267	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	(Trans)glycosidases	8040493	3000313	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8040491	3001528	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Galactose mutarotase-like	8040490	3000035	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	(Trans)glycosidases	8040493	3000313	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	YicI C-terminal domain-like	8040489	3000267	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8040491	3001528	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	(Trans)glycosidases	8040493	3000313	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Galactose mutarotase-like	8040490	3000035	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	YicI C-terminal domain-like	8040489	3000267	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Galactose mutarotase-like	8040490	3000035	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	(Trans)glycosidases	8040493	3000313	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	YicI C-terminal domain-like	8040489	3000267	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8040491	3001528	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)
F	Crystall	e1xskF1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Crystall	ECOD (develop294)
F	DUF711	e1xskF4	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: DUF711	ECOD (develop294)
E	Crystall	e1xskE1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Crystall	ECOD (develop294)
E	DUF711	e1xskE4	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: DUF711	ECOD (develop294)
D	Crystall	e1xskD1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Crystall	ECOD (develop294)
D	DUF711	e1xskD4	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: DUF711	ECOD (develop294)
C	Crystall	e1xskC1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Crystall	ECOD (develop294)
C	DUF711	e1xskC4	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: DUF711	ECOD (develop294)
B	Crystall	e1xskB1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Crystall	ECOD (develop294)
B	DUF711	e1xskB4	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: DUF711	ECOD (develop294)
A	Crystall	e1xskA1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Crystall	ECOD (develop294)
A	DUF711	e1xskA4	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: DUF711	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	2.60.40.1760	Mainly Beta	Sandwich	Immunoglobulin-like	glycosyl hydrolase (family 31)	CATH (4.3.0)
F	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
F	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)
E	2.60.40.1760	Mainly Beta	Sandwich	Immunoglobulin-like	glycosyl hydrolase (family 31)	CATH (4.3.0)
E	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
E	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)
D	2.60.40.1760	Mainly Beta	Sandwich	Immunoglobulin-like	glycosyl hydrolase (family 31)	CATH (4.3.0)
D	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
D	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)
C	2.60.40.1760	Mainly Beta	Sandwich	Immunoglobulin-like	glycosyl hydrolase (family 31)	CATH (4.3.0)
C	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
C	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)
B	2.60.40.1760	Mainly Beta	Sandwich	Immunoglobulin-like	glycosyl hydrolase (family 31)	CATH (4.3.0)
B	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
B	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)
A	2.60.40.1760	Mainly Beta	Sandwich	Immunoglobulin-like	glycosyl hydrolase (family 31)	CATH (4.3.0)
A	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
A	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF21365	Glycosyl hydrolase family 31 C-terminal domain (Glyco_hydro_31_3rd)	Glycosyl hydrolase family 31 C-terminal domain	Glycosyl hydrolases are key enzymes of carbohydrate metabolism. Family 31 comprises of enzymes that are, or similar to, alpha- galactosidases. This entry represents the 3rd beta sandwich domain.	Domain
A, B, C, D, E A, B, C, D, E, F	PF13802	Glycosyl hydrolase 31 N-terminal galactose mutarotase-like domain (Gal_mutarotas_2)	Glycosyl hydrolase 31 N-terminal galactose mutarotase-like domain	This entry represents the first of three common domains found in Glycosyl hydrolase 31 family proteins. It has a galactose mutarotase superfamily fold.	Domain
A, B, C, D, E A, B, C, D, E, F	PF01055	Glycosyl hydrolases family 31 TIM-barrel domain (Glyco_hydro_31_2nd)	Glycosyl hydrolases family 31 TIM-barrel domain	Glycosyl hydrolases are key enzymes of carbohydrate metabolism. Family 31 comprises of enzymes that are, or similar to, alpha- galactosidases. This entry corresponds to the second domain of family 31 enzymes and adopts a TIM-barrel fold.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Putative family 31 glucosidase yicI	binding carbohydrate binding hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity alpha-D-xyloside xylohydrolase activity catalytic activity xyloglucan 1,6-alpha-xylosidase activity identical protein binding protein 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, E A, B, C, D, E, F	IPR000322	Glycoside hydrolase family 31, TIM barrel domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR050985	Alpha-glycosidase and related enzymes	Family
A, B, C, D, E A, B, C, D, E, F	IPR048395	Glycosyl hydrolase family 31, C-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR013780	Glycosyl hydrolase, all-beta	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR025887	Glycoside hydrolase family 31, N-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR011013	Galactose mutarotase-like domain superfamily	Homologous Superfamily