3RO8 | pdb_00003ro8

Crystal structure of the catalytic domain of XynA1 from Paenibacillus sp. JDR-2

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	d3ro8a1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	automated matches	automated matches	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
A	d3ro8a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
B	d3ro8b1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	automated matches	automated matches	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
B	d3ro8b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
C	d3ro8c1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	automated matches	automated matches	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
C	d3ro8c2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
D	d3ro8d1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	automated matches	automated matches	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
D	d3ro8d2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
E	d3ro8e1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	automated matches	automated matches	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
E	d3ro8e2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
G	d3ro8g1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	automated matches	automated matches	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
G	d3ro8g2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
H	d3ro8h1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	automated matches	automated matches	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
H	d3ro8h2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
F	d3ro8f1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	automated matches	automated matches	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)
F	d3ro8f2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Paenibacillus sp. JDR-2 ) [TaxId: 324057 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	(Trans)glycosidases	8066729	3000313	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	(Trans)glycosidases	8066729	3000313	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	(Trans)glycosidases	8066729	3000313	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	(Trans)glycosidases	8066729	3000313	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	(Trans)glycosidases	8066729	3000313	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	(Trans)glycosidases	8066729	3000313	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	(Trans)glycosidases	8066729	3000313	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	(Trans)glycosidases	8066729	3000313	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)
A	MR_MLE_C	e3ro8A2	A: alpha bundles	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: MR_MLE_C	ECOD (develop294)
B	V-set	e3ro8B1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (develop294)
C	Plexin_RBD	e3ro8C1	A: alpha bundles	X: YrdC/RibB	H: YrdC/RibB	T: YrdC/RibB	F: Plexin_RBD	ECOD (develop294)
D	PI3K_C2	e3ro8D2	A: alpha bundles	X: YrdC/RibB	H: SH3	T: SH3	F: PI3K_C2	ECOD (develop294)
E	PI3K_C2	e3ro8E2	A: alpha bundles	X: YrdC/RibB	H: SH3	T: SH3	F: PI3K_C2	ECOD (develop294)
G	V-set	e3ro8G1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (develop294)
H	V-set	e3ro8H1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (develop294)
F	V-set	e3ro8F1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
B	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
C	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
D	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
E	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
G	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
H	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
F	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)

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, G, H	Endo-1,4-beta-xylanase	binding carbohydrate binding xylanase activity hydrolase activity, acting on glycosyl bonds endo-1,4-beta-xylanase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity	carbohydrate metabolic process xylan catabolic process catabolic process carbohydrate catabolic process hemicellulose catabolic process primary metabolic process macromolecule catabolic process xylan metabolic process polysaccharide metabolic process polysaccharide catabolic process metabolic process cellular process macromolecule metabolic process	cell periphery cellular anatomical structure external encapsulating structure cell wall

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR010502	Carbohydrate-binding domain, family 9	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR003305	Carbohydrate-binding, CenC-like	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR044846	Glycoside hydrolase family 10	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001000	Glycoside hydrolase family 10 domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR031158	Glycosyl hydrolases family 10, active site	Active Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001119	S-layer homology 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.