2XCI | pdb_00002xci

Membrane-embedded monofunctional glycosyltransferase WaaA of Aquifex aeolicus, substrate-free form

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
Membrane Protein Annotation: OPM
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Type B glycosyltransferase-like	8092324	3001586	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Type B glycosyltransferase-like	8092324	3001586	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Type B glycosyltransferase-like	8092324	3001586	SCOP2B (2022-06-29)
A	SCOP2 Family	WaaA-like	8045883	4004738	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Type B glycosyltransferase-like	8092324	3001586	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)
D	Glyco_transf_4	e2xciD1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_transf_4	ECOD (v294.1)
C	Glyco_transf_4	e2xciC1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_transf_4	ECOD (v294.1)
B		e2xciB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (v294.1)
B	Glyco_transf_4	e2xciB2	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_transf_4	ECOD (v294.1)
A	Glycos_transf_N	e2xciA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: Glycos_transf_N	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.50.11720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	3-Deoxy-D-manno-octulosonic-acid transferase, N-terminal domain	CATH (4.3.0)
D	3.40.50.2000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Glycogen Phosphorylase B	CATH (4.3.0)
C	3.40.50.11720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	3-Deoxy-D-manno-octulosonic-acid transferase, N-terminal domain	CATH (4.3.0)
C	3.40.50.2000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Glycogen Phosphorylase B	CATH (4.3.0)
B	3.40.50.11720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	3-Deoxy-D-manno-octulosonic-acid transferase, N-terminal domain	CATH (4.3.0)
B	3.40.50.2000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Glycogen Phosphorylase B	CATH (4.3.0)
A	3.40.50.11720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	3-Deoxy-D-manno-octulosonic-acid transferase, N-terminal domain	CATH (4.3.0)
A	3.40.50.2000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Glycogen Phosphorylase B	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF04413	3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase) (Glycos_transf_N)	3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase)	Members of this family transfer activated sugars to a variety of substrates, including glycogen, fructose-6-phosphate and lipopolysaccharides. Members of the family transfer UDP, ADP, GDP or CMP linked sugars. The Glycos_transf_N region is flanked ...	Members of this family transfer activated sugars to a variety of substrates, including glycogen, fructose-6-phosphate and lipopolysaccharides. Members of the family transfer UDP, ADP, GDP or CMP linked sugars. The Glycos_transf_N region is flanked at the N-terminus by a signal peptide and at the C-terminus by Glycos_transf_1 (Pfam:PF00534). The eukaryotic glycogen synthases may be distant members of this bacterial family [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	3-DEOXY-D-MANNO-2-OCTULOSONIC ACID TRANSFERASE	Kdo transferase activity glycosyltransferase activity transferase activity catalytic activity	lipopolysaccharide biosynthetic process carbohydrate derivative biosynthetic process carbohydrate metabolic process polysaccharide biosynthetic process carbohydrate biosynthetic process oligosaccharide metabolic process liposaccharide metabolic process lipid biosynthetic process carbohydrate derivative metabolic process primary metabolic process macromolecule biosynthetic process lipopolysaccharide metabolic process lipopolysaccharide core region biosynthetic process polysaccharide metabolic process biosynthetic process lipopolysaccharide biosynthetic process carbohydrate derivative biosynthetic process carbohydrate metabolic process polysaccharide biosynthetic process carbohydrate biosynthetic process oligosaccharide metabolic process liposaccharide metabolic process lipid biosynthetic process carbohydrate derivative metabolic process primary metabolic process macromolecule biosynthetic process lipopolysaccharide metabolic process lipopolysaccharide core region biosynthetic process polysaccharide metabolic process biosynthetic process oligosaccharide biosynthetic process metabolic process cellular process macromolecule metabolic process lipid metabolic process lipooligosaccharide metabolic process glycolipid metabolic process lipid A biosynthetic process glycolipid biosynthetic process phospholipid biosynthetic process phospholipid metabolic process lipid A metabolic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process lipooligosaccharide biosynthetic process phosphorus metabolic process	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR039901	3-deoxy-D-manno-octulosonic acid transferase	Family
A, B, C, D	IPR007507	3-deoxy-D-manno-octulosonic-acid transferase, N-terminal	Domain
A, B, C, D	IPR038107	3-deoxy-D-manno-octulosonic-acid transferase, N-terminal domain superfamily	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D	OPM	Monotopic/peripheral	Alpha/Beta monotopic/peripheral	UDP-Glycosyltransferase/glycogen phosphorylase	Glycosyltransferase family 30

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D	mpstruc	MONOTOPIC MEMBRANE PROTEINS	Glycosyltransferases	Monofunctional glycosyltransferase WaaA, substrate free

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.

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