6PPZ

Crystal structure of NeuB, an N-acetylneuraminate synthase from Neisseria meningitidis, in complex with manganese, inorganic phosphate, and N-acetylmannosamine (NeuB.Mn2+.Pi.ManNAc)

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	d6ppza2	All beta proteins	beta-clip	AFP III-like domain	AFP III-like domain	Capsule biosynthesis protein SiaC, C-terminal domain	(Neisseria meningitidis serogroup B ) [TaxId: 491 ],	SCOPe (2.08)
A	d6ppza1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	NeuB-like	Capsule biosynthesis protein SiaC, N-terminal domain	(Neisseria meningitidis serogroup B ) [TaxId: 491 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	AFP III-like domain	8038408	3001936	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Aldolase	8038411	3000445	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	SAF	e6ppzA1	A: beta barrels	X: beta-clip	H: SET domain-like (From Topology)	T: SET domain-like	F: SAF	ECOD (1.6)
A	NeuB	e6ppzA2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: NeuB	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (utative)
A	3.90.1210.10	Alpha Beta	Alpha-Beta Complex	Type Iii Antifreeze Protein Isoform Hplc 12	Antifreeze-like/N-acetylneuraminic acid synthase C-terminal domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03102	NeuB family (NeuB)	NeuB family	NeuB is the prokaryotic N-acetylneuraminic acid (Neu5Ac) synthase. It catalyses the direct formation of Neu5Ac (the most common sialic acid) by condensation of phosphoenolpyruvate (PEP) and N-acetylmannosamine (ManNAc). This reaction has only been ob ...	NeuB is the prokaryotic N-acetylneuraminic acid (Neu5Ac) synthase. It catalyses the direct formation of Neu5Ac (the most common sialic acid) by condensation of phosphoenolpyruvate (PEP) and N-acetylmannosamine (ManNAc). This reaction has only been observed in prokaryotes; eukaryotes synthesise the 9-phosphate form, Neu5Ac-9-P, and utilise ManNAc-6-P instead of ManNAc. Such eukaryotic enzymes are not present in this family [1]. This family also contains SpsE spore coat polysaccharide biosynthesis proteins.	Domain
A	PF08666	SAF domain (SAF)	SAF domain	This domain family includes a range of different proteins. Such as antifreeze proteins and flagellar FlgA proteins, and CpaB pilus proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	N-acetylneuraminate synthase	transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity N-acylneuraminate-9-phosphate synthase activity N-acetylneuraminate synthase activity cation binding ion binding binding metal ion binding small molecule binding	carbohydrate metabolic process biosynthetic process carbohydrate biosynthetic process primary metabolic process metabolic process cellular process glycosylation	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR006190	Antifreeze-like/N-acetylneuraminic acid synthase C-terminal	Domain
A	IPR036732	Antifreeze-like/N-acetylneuraminic acid synthase C-terminal domain superfamily	Homologous Superfamily
A	IPR051690	Nonulosonic Acid Synthase	Family
A	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A	IPR013974	SAF domain	Domain
A	IPR013132	N-acetylneuraminic acid synthase, N-terminal	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.