6S6U

Structure of Azospirillum brasilense Glutamate Synthase in a6b4 oligomeric state.

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	SCOP2B Superfamily	FMN-linked oxidoreductases	8056848	3000014	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Class II glutamine amidotransferases	8056846	3000131	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GXGXG domain-like	8056850	3000109	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FMN-linked oxidoreductases	8056848	3000014	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GXGXG domain-like	8056850	3000109	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Class II glutamine amidotransferases	8056846	3000131	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	FMN-linked oxidoreductases	8056848	3000014	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Class II glutamine amidotransferases	8056846	3000131	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GXGXG domain-like	8056850	3000109	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	FMN-linked oxidoreductases	8056848	3000014	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Class II glutamine amidotransferases	8056846	3000131	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GXGXG domain-like	8056850	3000109	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	FMN-linked oxidoreductases	8056848	3000014	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Class II glutamine amidotransferases	8056846	3000131	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	GXGXG domain-like	8056850	3000109	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	GXGXG domain-like	8056850	3000109	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	FMN-linked oxidoreductases	8056848	3000014	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Class II glutamine amidotransferases	8056846	3000131	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	PF01493	e6s6uA4	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Alpha subunit of glutamate synthase-C (From Topology)	T: Alpha subunit of glutamate synthase-C	F: PF01493	ECOD (1.6)
A	PF00310	e6s6uA3	A: a+b two layers	X: Alpha-beta plaits	H: Alpha subunit of glutamate synthase, insertion domain (From Topology)	T: Alpha subunit of glutamate synthase, insertion domain	F: PF00310	ECOD (1.6)
A	PF00310	e6s6uA2	A: a+b four layers	X: Ntn/PP2C	H: Ntn	T: Class II glutamine amidotransferases	F: PF00310	ECOD (1.6)
A	PF01645	e6s6uA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF01645	ECOD (1.6)
A	PF04898	e6s6uA5	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF04898	ECOD (1.6)
B	PF01493	e6s6uB2	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Alpha subunit of glutamate synthase-C (From Topology)	T: Alpha subunit of glutamate synthase-C	F: PF01493	ECOD (1.6)
B	PF00310	e6s6uB3	A: a+b two layers	X: Alpha-beta plaits	H: Alpha subunit of glutamate synthase, insertion domain (From Topology)	T: Alpha subunit of glutamate synthase, insertion domain	F: PF00310	ECOD (1.6)
B	PF00310	e6s6uB5	A: a+b four layers	X: Ntn/PP2C	H: Ntn	T: Class II glutamine amidotransferases	F: PF00310	ECOD (1.6)
B	PF01645	e6s6uB1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF01645	ECOD (1.6)
B	PF04898	e6s6uB4	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF04898	ECOD (1.6)
C	PF01493	e6s6uC3	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Alpha subunit of glutamate synthase-C (From Topology)	T: Alpha subunit of glutamate synthase-C	F: PF01493	ECOD (1.6)
C	PF00310	e6s6uC1	A: a+b two layers	X: Alpha-beta plaits	H: Alpha subunit of glutamate synthase, insertion domain (From Topology)	T: Alpha subunit of glutamate synthase, insertion domain	F: PF00310	ECOD (1.6)
C	PF00310	e6s6uC2	A: a+b four layers	X: Ntn/PP2C	H: Ntn	T: Class II glutamine amidotransferases	F: PF00310	ECOD (1.6)
C	PF01645	e6s6uC4	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF01645	ECOD (1.6)
C	PF04898	e6s6uC5	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF04898	ECOD (1.6)
D	PF01493	e6s6uD2	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Alpha subunit of glutamate synthase-C (From Topology)	T: Alpha subunit of glutamate synthase-C	F: PF01493	ECOD (1.6)
D	PF00310	e6s6uD4	A: a+b two layers	X: Alpha-beta plaits	H: Alpha subunit of glutamate synthase, insertion domain (From Topology)	T: Alpha subunit of glutamate synthase, insertion domain	F: PF00310	ECOD (1.6)
D	PF00310	e6s6uD5	A: a+b four layers	X: Ntn/PP2C	H: Ntn	T: Class II glutamine amidotransferases	F: PF00310	ECOD (1.6)
D	PF01645	e6s6uD1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF01645	ECOD (1.6)
D	PF04898	e6s6uD3	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF04898	ECOD (1.6)
E	PF01493	e6s6uE2	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Alpha subunit of glutamate synthase-C (From Topology)	T: Alpha subunit of glutamate synthase-C	F: PF01493	ECOD (1.6)
E	PF00310	e6s6uE1	A: a+b two layers	X: Alpha-beta plaits	H: Alpha subunit of glutamate synthase, insertion domain (From Topology)	T: Alpha subunit of glutamate synthase, insertion domain	F: PF00310	ECOD (1.6)
E	PF00310	e6s6uE3	A: a+b four layers	X: Ntn/PP2C	H: Ntn	T: Class II glutamine amidotransferases	F: PF00310	ECOD (1.6)
E	PF01645	e6s6uE4	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF01645	ECOD (1.6)
E	PF04898	e6s6uE5	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF04898	ECOD (1.6)
F	PF01493	e6s6uF4	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Alpha subunit of glutamate synthase-C (From Topology)	T: Alpha subunit of glutamate synthase-C	F: PF01493	ECOD (1.6)
F	PF00310	e6s6uF2	A: a+b two layers	X: Alpha-beta plaits	H: Alpha subunit of glutamate synthase, insertion domain (From Topology)	T: Alpha subunit of glutamate synthase, insertion domain	F: PF00310	ECOD (1.6)
F	PF00310	e6s6uF1	A: a+b four layers	X: Ntn/PP2C	H: Ntn	T: Class II glutamine amidotransferases	F: PF00310	ECOD (1.6)
F	PF01645	e6s6uF5	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF01645	ECOD (1.6)
F	PF04898	e6s6uF3	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF04898	ECOD (1.6)
G	PF14691	e6s6uG2	A: alpha arrays	X: alpha-helical ferredoxin-like	H: alpha-helical ferredoxin (From Topology)	T: alpha-helical ferredoxin	F: PF14691	ECOD (1.6)
G	PF07992	e6s6uG3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: PF07992	ECOD (1.6)
G	PF13450	e6s6uG1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: PF13450	ECOD (1.6)
H	PF14691	e6s6uH1	A: alpha arrays	X: alpha-helical ferredoxin-like	H: alpha-helical ferredoxin (From Topology)	T: alpha-helical ferredoxin	F: PF14691	ECOD (1.6)
H	PF07992	e6s6uH3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: PF07992	ECOD (1.6)
H	PF13450	e6s6uH2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: PF13450	ECOD (1.6)
I	PF14691	e6s6uI1	A: alpha arrays	X: alpha-helical ferredoxin-like	H: alpha-helical ferredoxin (From Topology)	T: alpha-helical ferredoxin	F: PF14691	ECOD (1.6)
I	PF07992	e6s6uI2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: PF07992	ECOD (1.6)
I	PF13450	e6s6uI3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: PF13450	ECOD (1.6)
J	PF14691	e6s6uJ1	A: alpha arrays	X: alpha-helical ferredoxin-like	H: alpha-helical ferredoxin (From Topology)	T: alpha-helical ferredoxin	F: PF14691	ECOD (1.6)
J	PF07992	e6s6uJ3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: PF07992	ECOD (1.6)
J	PF13450	e6s6uJ2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: PF13450	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.60.20.10	Alpha Beta	4-Layer Sandwich	Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1	Aminohydrolase, N-terminal nucleophile (Ntn) domain	CATH (utative)
A	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (utative)
A	2.160.20.60	Mainly Beta	3 Solenoid	Pectate Lyase C-like	Glutamate synthase, alpha subunit, C-terminal domain	CATH (utative)
B	3.60.20.10	Alpha Beta	4-Layer Sandwich	Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1	Aminohydrolase, N-terminal nucleophile (Ntn) domain	CATH (utative)
B	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (utative)
B	2.160.20.60	Mainly Beta	3 Solenoid	Pectate Lyase C-like	Glutamate synthase, alpha subunit, C-terminal domain	CATH (utative)
C	3.60.20.10	Alpha Beta	4-Layer Sandwich	Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1	Aminohydrolase, N-terminal nucleophile (Ntn) domain	CATH (utative)
C	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (utative)
C	2.160.20.60	Mainly Beta	3 Solenoid	Pectate Lyase C-like	Glutamate synthase, alpha subunit, C-terminal domain	CATH (utative)
D	3.60.20.10	Alpha Beta	4-Layer Sandwich	Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1	Aminohydrolase, N-terminal nucleophile (Ntn) domain	CATH (utative)
D	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (utative)
D	2.160.20.60	Mainly Beta	3 Solenoid	Pectate Lyase C-like	Glutamate synthase, alpha subunit, C-terminal domain	CATH (utative)
E	3.60.20.10	Alpha Beta	4-Layer Sandwich	Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1	Aminohydrolase, N-terminal nucleophile (Ntn) domain	CATH (utative)
E	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (utative)
E	2.160.20.60	Mainly Beta	3 Solenoid	Pectate Lyase C-like	Glutamate synthase, alpha subunit, C-terminal domain	CATH (utative)
F	3.60.20.10	Alpha Beta	4-Layer Sandwich	Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1	Aminohydrolase, N-terminal nucleophile (Ntn) domain	CATH (utative)
F	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (utative)
F	2.160.20.60	Mainly Beta	3 Solenoid	Pectate Lyase C-like	Glutamate synthase, alpha subunit, C-terminal domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF01645	Conserved region in glutamate synthase (Glu_synthase)	Conserved region in glutamate synthase	This family represents a region of the glutamate synthase protein. This region is expressed as a separate subunit in the glutamate synthase alpha subunit from archaebacteria, or part of a large multidomain enzyme in other organisms. The aligned regi ...	This family represents a region of the glutamate synthase protein. This region is expressed as a separate subunit in the glutamate synthase alpha subunit from archaebacteria, or part of a large multidomain enzyme in other organisms. The aligned region of these proteins contains a putative FMN binding site and Fe-S cluster.	Domain
A, B, C, D, E A, B, C, D, E, F	PF01493	GXGXG motif (GXGXG)	GXGXG motif	-	Family
A, B, C, D, E A, B, C, D, E, F	PF00310	Glutamine amidotransferases class-II (GATase_2)	Glutamine amidotransferases class-II	-	Domain
A, B, C, D, E A, B, C, D, E, F	PF04898	Glutamate synthase central domain (Glu_syn_central)	Glutamate synthase central domain	The central domain of glutamate synthase connects the amino terminal amidotransferase domain with the FMN-binding domain and has an alpha / beta overall topology [1]. This domain appears to be a rudimentary form of the FMN-binding TIM barrel accordi ...	The central domain of glutamate synthase connects the amino terminal amidotransferase domain with the FMN-binding domain and has an alpha / beta overall topology [1]. This domain appears to be a rudimentary form of the FMN-binding TIM barrel according to SCOP.	Domain
G, H, I, J	PF07992	Pyridine nucleotide-disulphide oxidoreductase (Pyr_redox_2)	Pyridine nucleotide-disulphide oxidoreductase	This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. This domain is actually a small NADH binding domain within a larger FAD binding domain.	Domain
G, H, I, J	PF14691	Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster (Fer4_20)	Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster	Domain II of the enzyme dihydroprymidine dehydrogenase binds FAD. Dihydroprymidine dehydrogenase catalyses the first and rate-limiting step of pyrimidine degradation by converting pyrimidines to the corresponding 5,6- dihydro compounds [1]. This doma ...	Domain II of the enzyme dihydroprymidine dehydrogenase binds FAD. Dihydroprymidine dehydrogenase catalyses the first and rate-limiting step of pyrimidine degradation by converting pyrimidines to the corresponding 5,6- dihydro compounds [1]. This domain carries two Fe4-S4 clusters.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Glutamate synthase [NADPH] large chain	iron-sulfur cluster binding binding 3 iron, 4 sulfur cluster binding metal cluster binding small molecule binding oxidoreductase activity, acting on the CH-NH2 group of donors glutamate synthase activity, NAD(P)H as acceptor oxidoreductase activity glutamate synthase (NADPH) activity oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor catalytic activity glutamate synthase activity cation binding ion binding iron-sulfur cluster binding binding 3 iron, 4 sulfur cluster binding metal cluster binding small molecule binding oxidoreductase activity, acting on the CH-NH2 group of donors glutamate synthase activity, NAD(P)H as acceptor oxidoreductase activity glutamate synthase (NADPH) activity oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor catalytic activity glutamate synthase activity cation binding ion binding metal ion binding	glutamine metabolic process organonitrogen compound metabolic process oxoacid metabolic process cellular metabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid metabolic process alpha-amino acid metabolic process L-amino acid metabolic process glutamine family amino acid metabolic process proteinogenic amino acid metabolic process organic substance metabolic process metabolic process glutamine metabolic process organonitrogen compound metabolic process oxoacid metabolic process cellular metabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid metabolic process alpha-amino acid metabolic process L-amino acid metabolic process glutamine family amino acid metabolic process proteinogenic amino acid metabolic process organic substance metabolic process metabolic process small molecule metabolic process cellular process glutamine family amino acid biosynthetic process cellular biosynthetic process organonitrogen compound biosynthetic process organic acid biosynthetic process L-glutamate biosynthetic process carboxylic acid biosynthetic process glutamate metabolic process organic substance biosynthetic process dicarboxylic acid biosynthetic process small molecule biosynthetic process dicarboxylic acid metabolic process L-amino acid biosynthetic process amino acid biosynthetic process biosynthetic process proteinogenic amino acid biosynthetic process glutamate biosynthetic process alpha-amino acid biosynthetic process	-
G, H, I, J	Glutamate synthase [NADPH] small chain	iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding oxidoreductase activity, acting on the CH-NH2 group of donors glutamate synthase activity, NAD(P)H as acceptor oxidoreductase activity glutamate synthase (NADPH) activity oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor catalytic activity glutamate synthase activity cation binding ion binding iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding oxidoreductase activity, acting on the CH-NH2 group of donors glutamate synthase activity, NAD(P)H as acceptor oxidoreductase activity glutamate synthase (NADPH) activity oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor catalytic activity glutamate synthase activity cation binding ion binding metal ion binding	oxoacid metabolic process glutamine family amino acid biosynthetic process cellular biosynthetic process organonitrogen compound biosynthetic process amino acid metabolic process organic acid metabolic process organic acid biosynthetic process L-glutamate biosynthetic process alpha-amino acid metabolic process carboxylic acid biosynthetic process glutamine family amino acid metabolic process organic substance metabolic process glutamate metabolic process organic substance biosynthetic process oxoacid metabolic process glutamine family amino acid biosynthetic process cellular biosynthetic process organonitrogen compound biosynthetic process amino acid metabolic process organic acid metabolic process organic acid biosynthetic process L-glutamate biosynthetic process alpha-amino acid metabolic process carboxylic acid biosynthetic process glutamine family amino acid metabolic process organic substance metabolic process glutamate metabolic process organic substance biosynthetic process small molecule metabolic process dicarboxylic acid biosynthetic process organonitrogen compound metabolic process small molecule biosynthetic process cellular metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process primary metabolic process L-amino acid biosynthetic process L-amino acid metabolic process proteinogenic amino acid metabolic process amino acid biosynthetic process biosynthetic process proteinogenic amino acid biosynthetic process metabolic process cellular process glutamate biosynthetic process alpha-amino acid biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR029055	Nucleophile aminohydrolases, N-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR036485	Glutamate synthase, alpha subunit, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR006982	Glutamate synthase, central-N	Domain
A, B, C, D, E A, B, C, D, E, F	IPR002489	Glutamate synthase, alpha subunit, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR017932	Glutamine amidotransferase type 2 domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR002932	Glutamate synthase domain	Domain
G, H, I, J	IPR028261	Dihydroprymidine dehydrogenase domain II	Domain
G, H, I, J	IPR006006	Glutamate synthase NADPH small chain-like	Family
G, H, I, J	IPR023753	FAD/NAD(P)-binding domain	Domain
G, H, I, J	IPR036188	FAD/NAD(P)-binding domain superfamily	Homologous Superfamily
G, H, I, J	IPR009051	Alpha-helical ferredoxin	Homologous Superfamily