1WCQ

Mutagenesis of the Nucleophilic Tyrosine in a Bacterial Sialidase to Phenylalanine.

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)
A	d1wcqa1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	automated matches	automated matches	(Micromonospora viridifaciens ) [TaxId: 1881 ],	SCOPe (2.08)
A	d1wcqa2	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	automated matches	automated matches	(Micromonospora viridifaciens ) [TaxId: 1881 ],	SCOPe (2.08)
A	d1wcqa3	All beta proteins	6-bladed beta-propeller	Sialidases	Sialidases (neuraminidases)	automated matches	(Micromonospora viridifaciens ) [TaxId: 1881 ],	SCOPe (2.08)
B	d1wcqb1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	automated matches	automated matches	(Micromonospora viridifaciens ) [TaxId: 1881 ],	SCOPe (2.08)
B	d1wcqb2	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	automated matches	automated matches	(Micromonospora viridifaciens ) [TaxId: 1881 ],	SCOPe (2.08)
B	d1wcqb3	All beta proteins	6-bladed beta-propeller	Sialidases	Sialidases (neuraminidases)	automated matches	(Micromonospora viridifaciens ) [TaxId: 1881 ],	SCOPe (2.08)
C	d1wcqc1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	automated matches	automated matches	(Micromonospora viridifaciens ) [TaxId: 1881 ],	SCOPe (2.08)
C	d1wcqc2	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	automated matches	automated matches	(Micromonospora viridifaciens ) [TaxId: 1881 ],	SCOPe (2.08)
C	d1wcqc3	All beta proteins	6-bladed beta-propeller	Sialidases	Sialidases (neuraminidases)	automated matches	(Micromonospora viridifaciens ) [TaxId: 1881 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	galactose-binding domain-like	8043343	3000087	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Sialidases	8043344	3001607	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	E set domains	8054893	3000070	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	galactose-binding domain-like	8043343	3000087	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	E set domains	8054893	3000070	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Sialidases	8043344	3001607	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	E set domains	8054893	3000070	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Sialidases	8043344	3001607	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	galactose-binding domain-like	8043343	3000087	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	F5_F8_type_C_1	e1wcqA1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F5_F8_type_C_1	ECOD (1.6)
A	NPCBM_assoc_like	e1wcqA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: NPCBM_assoc_like	ECOD (1.6)
A	BNR_2	e1wcqA3	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: BNR_2	ECOD (1.6)
B	F5_F8_type_C_1	e1wcqB1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F5_F8_type_C_1	ECOD (1.6)
B	NPCBM_assoc_like	e1wcqB2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: NPCBM_assoc_like	ECOD (1.6)
B	BNR_2	e1wcqB3	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: BNR_2	ECOD (1.6)
C	F5_F8_type_C_1	e1wcqC1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F5_F8_type_C_1	ECOD (1.6)
C	NPCBM_assoc_like	e1wcqC2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: NPCBM_assoc_like	ECOD (1.6)
C	BNR_2	e1wcqC3	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: BNR_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (4.3.0)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
B	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (4.3.0)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
C	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (4.3.0)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00754	F5/8 type C domain (F5_F8_type_C)	F5/8 type C domain	This domain is also known as the discoidin (DS) domain family [1].	Domain
A, B, C	PF13088	BNR repeat-like domain (BNR_2)	BNR repeat-like domain	-	Repeat
A, B, C	PF10633	NPCBM-associated, NEW3 domain of alpha-galactosidase (NPCBM_assoc)	NPCBM-associated, NEW3 domain of alpha-galactosidase	The English-language version of the first reference can be found on pages 388-399 of the above. This domain has been named NEW3 but its actual function is not known. It is found on proteins which are bacterial galactosidases [1]. The domain is associ ...	The English-language version of the first reference can be found on pages 388-399 of the above. This domain has been named NEW3 but its actual function is not known. It is found on proteins which are bacterial galactosidases [1]. The domain is associated with the NPCBM family, Pfam:PF08305, a novel putative carbohydrate binding module found at the N-terminus of glycosyl hydrolases.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	SIALIDASE	-	carbohydrate metabolic process catabolic process oligosaccharide catabolic process oligosaccharide metabolic process carbohydrate catabolic process primary metabolic process metabolic process sphingolipid catabolic process ganglioside catabolic process glycolipid metabolic process carbohydrate derivative metabolic process cellular lipid catabolic process cellular catabolic process ceramide catabolic process carbohydrate metabolic process catabolic process oligosaccharide catabolic process oligosaccharide metabolic process carbohydrate catabolic process primary metabolic process metabolic process sphingolipid catabolic process ganglioside catabolic process glycolipid metabolic process carbohydrate derivative metabolic process cellular lipid catabolic process cellular catabolic process ceramide catabolic process amide metabolic process membrane lipid metabolic process ceramide metabolic process carbohydrate derivative catabolic process glycosphingolipid catabolic process lipid catabolic process glycosphingolipid metabolic process cellular metabolic process liposaccharide metabolic process sphingolipid metabolic process membrane lipid catabolic process glycolipid catabolic process cellular lipid metabolic process cellular process ganglioside metabolic process lipid metabolic process	membrane cellular anatomical entity extracellular region membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle intracellular membrane-bounded organelle cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR018905	Alpha-galactosidase, NEW3 domain	Domain
A, B, C	IPR006311	Twin-arginine translocation pathway, signal sequence	Conserved Site
A, B, C	IPR011040	Sialidase	Domain
A, B, C	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A, B, C	IPR036278	Sialidase superfamily	Homologous Superfamily
A, B, C	IPR000421	Coagulation factor 5/8, C-terminal domain	Domain
A, B, C	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B, C	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, B, C	IPR026856	Sialidase family	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.