4XJW | pdb_00004xjw

Crystal structure of the NanB sialidase from streptococcus pneumoniae in complex with Optactin at pH 7.4 in PBS with DMSO as the cryoprotectant

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)
A	SCOP2 Family	Trans-sialidase catalytic domain-like	8049716	4006603	SCOP2 (2022-06-29)
A	SCOP2 Family	Trans-sialidase N-terminal domain-like	8052062	4002727	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Sialidases	8052061	3001607	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Concanavalin A-like lectins/glucanases	8052063	3000120	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)
A	JmjC,JmjN	e4xjwA1	A: alpha bundles	X: ACP-like	H: Phage tail fiber protein trimerization domain	T: Phage tail fiber protein trimerization domain	F: JmjC,JmjN	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
A	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (4.3.0)
A	2.40.220.10	Mainly Beta	Beta Barrel	Intramolecular trans-sialidase	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02012	BNR/Asp-box repeat (BNR)	BNR/Asp-box repeat	-	Repeat
A	PF13088	BNR repeat-like domain (BNR_2)	BNR repeat-like domain	-	Repeat
A	PF02973	Sialidase, N-terminal domain (Sialidase)	Sialidase, N-terminal domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Sialidase B	hydrolase activity, acting on glycosyl bonds alpha-sialidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity exo-alpha-sialidase activity catalytic activity	sphingolipid catabolic process ceramide metabolic process ganglioside catabolic process carbohydrate derivative catabolic process glycosphingolipid catabolic process lipid catabolic process catabolic process glycolipid metabolic process glycosphingolipid metabolic process liposaccharide metabolic process carbohydrate derivative metabolic process primary metabolic process sphingolipid metabolic process glycolipid catabolic process ceramide catabolic process sphingolipid catabolic process ceramide metabolic process ganglioside catabolic process carbohydrate derivative catabolic process glycosphingolipid catabolic process lipid catabolic process catabolic process glycolipid metabolic process glycosphingolipid metabolic process liposaccharide metabolic process carbohydrate derivative metabolic process primary metabolic process sphingolipid metabolic process glycolipid catabolic process ceramide catabolic process metabolic process cellular process ganglioside metabolic process lipid metabolic process carbohydrate metabolic process oligosaccharide catabolic process oligosaccharide metabolic process carbohydrate catabolic process	cellular anatomical structure membrane intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002860	BNR repeat	Repeat
A	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A	IPR004124	Glycoside hydrolase, family 33, N-terminal	Domain
A	IPR011040	Sialidase	Domain
A	IPR026856	Sialidase family	Family
A	IPR023364	Trans-sialidase, domain 3	Homologous Superfamily
A	IPR036278	Sialidase superfamily	Homologous Superfamily

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.