4RBN | pdb_00004rbn

The crystal structure of Nitrosomonas europaea sucrose synthase: Insights into the evolutionary origin of sucrose metabolism in prokaryotes

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Sucrose_synth_2nd	e4rbnD3	A: alpha bundles	X: ENOD40 peptide-binding domain in sucrose synthase-1 (From Topology)	H: ENOD40 peptide-binding domain in sucrose synthase-1 (From Topology)	T: ENOD40 peptide-binding domain in sucrose synthase-1	F: Sucrose_synth_2nd	ECOD (1.6)
D	Sucrose_synth_1st	e4rbnD4	A: a+b two layers	X: Cellular targeting domain in sucrose synthase-1 (From Topology)	H: Cellular targeting domain in sucrose synthase-1 (From Topology)	T: Cellular targeting domain in sucrose synthase-1	F: Sucrose_synth_1st	ECOD (1.6)
D	Glycos_transf_1	e4rbnD2	A: a/b three-layered sandwiches	X: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	H: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	T: UDP-Glycosyltransferase/glycogen phosphorylase	F: Glycos_transf_1	ECOD (1.6)
D	Sucrose_synth_3rd	e4rbnD1	A: a/b three-layered sandwiches	X: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	H: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	T: UDP-Glycosyltransferase/glycogen phosphorylase	F: Sucrose_synth_3rd	ECOD (1.6)
C [auth B]	Sucrose_synth_2nd	e4rbnB3	A: alpha bundles	X: ENOD40 peptide-binding domain in sucrose synthase-1 (From Topology)	H: ENOD40 peptide-binding domain in sucrose synthase-1 (From Topology)	T: ENOD40 peptide-binding domain in sucrose synthase-1	F: Sucrose_synth_2nd	ECOD (1.6)
C [auth B]	Sucrose_synth_1st	e4rbnB4	A: a+b two layers	X: Cellular targeting domain in sucrose synthase-1 (From Topology)	H: Cellular targeting domain in sucrose synthase-1 (From Topology)	T: Cellular targeting domain in sucrose synthase-1	F: Sucrose_synth_1st	ECOD (1.6)
C [auth B]	Glycos_transf_1	e4rbnB2	A: a/b three-layered sandwiches	X: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	H: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	T: UDP-Glycosyltransferase/glycogen phosphorylase	F: Glycos_transf_1	ECOD (1.6)
C [auth B]	Sucrose_synth_3rd	e4rbnB1	A: a/b three-layered sandwiches	X: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	H: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	T: UDP-Glycosyltransferase/glycogen phosphorylase	F: Sucrose_synth_3rd	ECOD (1.6)
B [auth C]	Sucrose_synth_2nd	e4rbnC3	A: alpha bundles	X: ENOD40 peptide-binding domain in sucrose synthase-1 (From Topology)	H: ENOD40 peptide-binding domain in sucrose synthase-1 (From Topology)	T: ENOD40 peptide-binding domain in sucrose synthase-1	F: Sucrose_synth_2nd	ECOD (1.6)
B [auth C]	Sucrose_synth_1st	e4rbnC4	A: a+b two layers	X: Cellular targeting domain in sucrose synthase-1 (From Topology)	H: Cellular targeting domain in sucrose synthase-1 (From Topology)	T: Cellular targeting domain in sucrose synthase-1	F: Sucrose_synth_1st	ECOD (1.6)
B [auth C]	Glycos_transf_1	e4rbnC2	A: a/b three-layered sandwiches	X: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	H: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	T: UDP-Glycosyltransferase/glycogen phosphorylase	F: Glycos_transf_1	ECOD (1.6)
B [auth C]	Sucrose_synth_3rd	e4rbnC1	A: a/b three-layered sandwiches	X: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	H: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	T: UDP-Glycosyltransferase/glycogen phosphorylase	F: Sucrose_synth_3rd	ECOD (1.6)
A	Sucrose_synth_2nd	e4rbnA3	A: alpha bundles	X: ENOD40 peptide-binding domain in sucrose synthase-1 (From Topology)	H: ENOD40 peptide-binding domain in sucrose synthase-1 (From Topology)	T: ENOD40 peptide-binding domain in sucrose synthase-1	F: Sucrose_synth_2nd	ECOD (1.6)
A	Sucrose_synth_1st	e4rbnA4	A: a+b two layers	X: Cellular targeting domain in sucrose synthase-1 (From Topology)	H: Cellular targeting domain in sucrose synthase-1 (From Topology)	T: Cellular targeting domain in sucrose synthase-1	F: Sucrose_synth_1st	ECOD (1.6)
A	Glycos_transf_1	e4rbnA2	A: a/b three-layered sandwiches	X: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	H: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	T: UDP-Glycosyltransferase/glycogen phosphorylase	F: Glycos_transf_1	ECOD (1.6)
A	Sucrose_synth_3rd	e4rbnA1	A: a/b three-layered sandwiches	X: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	H: UDP-Glycosyltransferase/glycogen phosphorylase (From Topology)	T: UDP-Glycosyltransferase/glycogen phosphorylase	F: Sucrose_synth_3rd	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.10.450.330	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (4.3.0)
D	1.20.120.1230	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		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 [auth B]	3.10.450.330	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (4.3.0)
C [auth B]	1.20.120.1230	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		CATH (4.3.0)
C [auth B]	3.40.50.2000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Glycogen Phosphorylase B	CATH (4.3.0)
B [auth C]	3.10.450.330	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (4.3.0)
B [auth C]	1.20.120.1230	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		CATH (4.3.0)
B [auth C]	3.40.50.2000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Glycogen Phosphorylase B	CATH (4.3.0)
A	3.10.450.330	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (4.3.0)
A	1.20.120.1230	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		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 [auth C], C [auth B], D	PF00534	Glycosyl transferases group 1 (Glycos_transf_1)	Glycosyl transferases group 1	Mutations in this domain of Swiss:P37287 lead to disease (Paroxysmal Nocturnal haemoglobinuria). Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members o ...	Mutations in this domain of Swiss:P37287 lead to disease (Paroxysmal Nocturnal haemoglobinuria). Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP, ADP, GDP or CMP linked sugars. The eukaryotic glycogen synthases may be distant members of this family.	Domain
A, B [auth C], C [auth B], D	PF24862	Sucrose synthase EPBD domain (SUS_EPBD)	Sucrose synthase EPBD domain	This entry represents the EPBD domain (ENOD40 peptide binding domain, also referred to as SSN2) of sucrose synthases, which corresponds to the second domain and together with the N-terminal one, referred to as the cellular targeting domain (CTD) have ...	This entry represents the EPBD domain (ENOD40 peptide binding domain, also referred to as SSN2) of sucrose synthases, which corresponds to the second domain and together with the N-terminal one, referred to as the cellular targeting domain (CTD) have regulatory functions in plant species, however, the function of these domains in bacteria is not yet clear [1,2]. Sucrose synthases are sucrose-cleaving enzymes that provides UDP-glucose and fructose for various metabolic pathways.	Domain
A, B [auth C], C [auth B], D	PF00862	Sucrose synthase first GT-B domain (GT-B_Sucrose_synth)	Sucrose synthase first GT-B domain	Sucrose synthases catalyse the synthesis of sucrose from UDP-glucose and fructose. This represents the first GT-B domain (also referred to as GT-BN in [1] of sucrose synthases, while the second one, at the C-terminal (GT-BC), is represented in Pfam:P ...	Sucrose synthases catalyse the synthesis of sucrose from UDP-glucose and fructose. This represents the first GT-B domain (also referred to as GT-BN in [1] of sucrose synthases, while the second one, at the C-terminal (GT-BC), is represented in Pfam:PF00534 [1,2]. The substrates of these proteins (UDP-Glc or UDP and fructose) bound in the cleft between the GT-B domains [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C], C [auth B], D	Sucrose synthase:Glycosyl transferases group 1	UDP-glycosyltransferase activity glycosyltransferase activity transferase activity glucosyltransferase activity hexosyltransferase activity catalytic activity sucrose synthase activity UDP-glucosyltransferase activity	sucrose metabolic process carbohydrate metabolic process oligosaccharide metabolic process primary metabolic process metabolic process cellular process disaccharide metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth B], D	IPR012820	Sucrose synthase, plant/cyanobacteria	Family
A, B [auth C], C [auth B], D	IPR000368	Sucrose synthase, first GT-B domain	Domain
A, B [auth C], C [auth B], D	IPR056736	Sucrose synthase, EPBD domain	Domain
A, B [auth C], C [auth B], D	IPR056735	Sucrose synthase, N-terminal	Domain
A, B [auth C], C [auth B], D	IPR001296	Glycosyl transferase, family 1	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.