6S6X | pdb_00006s6x

Structure of Azospirillum brasilense Glutamate Synthase in a6b6 oligomeric state.


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyGXGXG domain-like 8056850 3000109 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyFMN-linked oxidoreductases 8056848 3000014 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyClass II glutamine amidotransferases 8056846 3000131 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyFMN-linked oxidoreductases 8056848 3000014 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyClass II glutamine amidotransferases 8056846 3000131 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyGXGXG domain-like 8056850 3000109 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyClass II glutamine amidotransferases 8056846 3000131 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyFMN-linked oxidoreductases 8056848 3000014 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyGXGXG domain-like 8056850 3000109 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyClass II glutamine amidotransferases 8056846 3000131 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyFMN-linked oxidoreductases 8056848 3000014 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyGXGXG domain-like 8056850 3000109 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyClass II glutamine amidotransferases 8056846 3000131 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyFMN-linked oxidoreductases 8056848 3000014 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyGXGXG domain-like 8056850 3000109 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyFMN-linked oxidoreductases 8056848 3000014 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyClass II glutamine amidotransferases 8056846 3000131 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyGXGXG domain-like 8056850 3000109 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AGXGXGe6s6xA1 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Alpha subunit of glutamate synthase-C (From Topology)T: Alpha subunit of glutamate synthase-CF: GXGXGECOD (1.6)
AGATase_2_2nde6s6xA4 A: a+b two layersX: Alpha-beta plaitsH: Alpha subunit of glutamate synthase, insertion domain (From Topology)T: Alpha subunit of glutamate synthase, insertion domainF: GATase_2_2ndECOD (1.6)
AGATase_2_1ste6s6xA3 A: a+b four layersX: Ntn/PP2CH: NtnT: Class II glutamine amidotransferasesF: GATase_2_1stECOD (1.6)
AGlu_synthasee6s6xA5 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_synthaseECOD (1.6)
AGlu_syn_centrale6s6xA2 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_syn_centralECOD (1.6)
BGXGXGe6s6xB5 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Alpha subunit of glutamate synthase-C (From Topology)T: Alpha subunit of glutamate synthase-CF: GXGXGECOD (1.6)
BGATase_2_2nde6s6xB2 A: a+b two layersX: Alpha-beta plaitsH: Alpha subunit of glutamate synthase, insertion domain (From Topology)T: Alpha subunit of glutamate synthase, insertion domainF: GATase_2_2ndECOD (1.6)
BGATase_2_1ste6s6xB1 A: a+b four layersX: Ntn/PP2CH: NtnT: Class II glutamine amidotransferasesF: GATase_2_1stECOD (1.6)
BGlu_synthasee6s6xB3 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_synthaseECOD (1.6)
BGlu_syn_centrale6s6xB4 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_syn_centralECOD (1.6)
CGXGXGe6s6xC3 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Alpha subunit of glutamate synthase-C (From Topology)T: Alpha subunit of glutamate synthase-CF: GXGXGECOD (1.6)
CGATase_2_2nde6s6xC1 A: a+b two layersX: Alpha-beta plaitsH: Alpha subunit of glutamate synthase, insertion domain (From Topology)T: Alpha subunit of glutamate synthase, insertion domainF: GATase_2_2ndECOD (1.6)
CGATase_2_1ste6s6xC4 A: a+b four layersX: Ntn/PP2CH: NtnT: Class II glutamine amidotransferasesF: GATase_2_1stECOD (1.6)
CGlu_synthasee6s6xC2 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_synthaseECOD (1.6)
CGlu_syn_centrale6s6xC5 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_syn_centralECOD (1.6)
DGXGXGe6s6xD4 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Alpha subunit of glutamate synthase-C (From Topology)T: Alpha subunit of glutamate synthase-CF: GXGXGECOD (1.6)
DGATase_2_2nde6s6xD5 A: a+b two layersX: Alpha-beta plaitsH: Alpha subunit of glutamate synthase, insertion domain (From Topology)T: Alpha subunit of glutamate synthase, insertion domainF: GATase_2_2ndECOD (1.6)
DGATase_2_1ste6s6xD2 A: a+b four layersX: Ntn/PP2CH: NtnT: Class II glutamine amidotransferasesF: GATase_2_1stECOD (1.6)
DGlu_synthasee6s6xD1 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_synthaseECOD (1.6)
DGlu_syn_centrale6s6xD3 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_syn_centralECOD (1.6)
EGXGXGe6s6xE4 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Alpha subunit of glutamate synthase-C (From Topology)T: Alpha subunit of glutamate synthase-CF: GXGXGECOD (1.6)
EGATase_2_2nde6s6xE1 A: a+b two layersX: Alpha-beta plaitsH: Alpha subunit of glutamate synthase, insertion domain (From Topology)T: Alpha subunit of glutamate synthase, insertion domainF: GATase_2_2ndECOD (1.6)
EGATase_2_1ste6s6xE5 A: a+b four layersX: Ntn/PP2CH: NtnT: Class II glutamine amidotransferasesF: GATase_2_1stECOD (1.6)
EGlu_synthasee6s6xE3 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_synthaseECOD (1.6)
EGlu_syn_centrale6s6xE2 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_syn_centralECOD (1.6)
FGXGXGe6s6xF5 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Alpha subunit of glutamate synthase-C (From Topology)T: Alpha subunit of glutamate synthase-CF: GXGXGECOD (1.6)
FGATase_2_2nde6s6xF3 A: a+b two layersX: Alpha-beta plaitsH: Alpha subunit of glutamate synthase, insertion domain (From Topology)T: Alpha subunit of glutamate synthase, insertion domainF: GATase_2_2ndECOD (1.6)
FGATase_2_1ste6s6xF1 A: a+b four layersX: Ntn/PP2CH: NtnT: Class II glutamine amidotransferasesF: GATase_2_1stECOD (1.6)
FGlu_synthasee6s6xF2 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_synthaseECOD (1.6)
FGlu_syn_centrale6s6xF4 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: Glu_syn_centralECOD (1.6)
GFer4_20e6s6xG3 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: Fer4_20ECOD (1.6)
GPyr_redox_2_3e6s6xG1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: Pyr_redox_2_3ECOD (1.6)
GNAD_binding_8e6s6xG2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: NAD_binding_8ECOD (1.6)
HFer4_20e6s6xH2 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: Fer4_20ECOD (1.6)
HPyr_redox_2_3e6s6xH3 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: Pyr_redox_2_3ECOD (1.6)
HNAD_binding_8e6s6xH1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: NAD_binding_8ECOD (1.6)
IFer4_20e6s6xI3 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: Fer4_20ECOD (1.6)
IPyr_redox_2_3e6s6xI1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: Pyr_redox_2_3ECOD (1.6)
INAD_binding_8e6s6xI2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: NAD_binding_8ECOD (1.6)
JFer4_20e6s6xJ2 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: Fer4_20ECOD (1.6)
JPyr_redox_2_3e6s6xJ3 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: Pyr_redox_2_3ECOD (1.6)
JNAD_binding_8e6s6xJ1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: NAD_binding_8ECOD (1.6)
KFer4_20e6s6xK2 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: Fer4_20ECOD (1.6)
KPyr_redox_2_3e6s6xK3 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: Pyr_redox_2_3ECOD (1.6)
KNAD_binding_8e6s6xK1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: NAD_binding_8ECOD (1.6)
LFer4_20e6s6xL2 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: Fer4_20ECOD (1.6)
LPyr_redox_2_3e6s6xL1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: Pyr_redox_2_3ECOD (1.6)
LNAD_binding_8e6s6xL3 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: NAD_binding_8ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A3.60.20.10 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Aminohydrolase, N-terminal nucleophile (Ntn) domainCATH (utative)
A3.20.20.70 Alpha Beta Alpha-Beta Barrel TIM Barrel Aldolase class ICATH (utative)
A2.160.20.60 Mainly Beta 3 Solenoid Pectate Lyase C-like Glutamate synthase, alpha subunit, C-terminal domainCATH (utative)
B3.60.20.10 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Aminohydrolase, N-terminal nucleophile (Ntn) domainCATH (utative)
B3.20.20.70 Alpha Beta Alpha-Beta Barrel TIM Barrel Aldolase class ICATH (utative)
B2.160.20.60 Mainly Beta 3 Solenoid Pectate Lyase C-like Glutamate synthase, alpha subunit, C-terminal domainCATH (utative)
C3.60.20.10 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Aminohydrolase, N-terminal nucleophile (Ntn) domainCATH (utative)
C3.20.20.70 Alpha Beta Alpha-Beta Barrel TIM Barrel Aldolase class ICATH (utative)
C2.160.20.60 Mainly Beta 3 Solenoid Pectate Lyase C-like Glutamate synthase, alpha subunit, C-terminal domainCATH (utative)
D3.60.20.10 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Aminohydrolase, N-terminal nucleophile (Ntn) domainCATH (utative)
D3.20.20.70 Alpha Beta Alpha-Beta Barrel TIM Barrel Aldolase class ICATH (utative)
D2.160.20.60 Mainly Beta 3 Solenoid Pectate Lyase C-like Glutamate synthase, alpha subunit, C-terminal domainCATH (utative)
E3.60.20.10 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Aminohydrolase, N-terminal nucleophile (Ntn) domainCATH (utative)
E3.20.20.70 Alpha Beta Alpha-Beta Barrel TIM Barrel Aldolase class ICATH (utative)
E2.160.20.60 Mainly Beta 3 Solenoid Pectate Lyase C-like Glutamate synthase, alpha subunit, C-terminal domainCATH (utative)
F3.60.20.10 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Aminohydrolase, N-terminal nucleophile (Ntn) domainCATH (utative)
F3.20.20.70 Alpha Beta Alpha-Beta Barrel TIM Barrel Aldolase class ICATH (utative)
F2.160.20.60 Mainly Beta 3 Solenoid Pectate Lyase C-like Glutamate synthase, alpha subunit, C-terminal domainCATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D, E
PF01645Conserved region in glutamate synthase (Glu_synthase)Conserved region in glutamate synthaseThis 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
PF01493GXGXG motif (GXGXG)GXGXG motif- Family
A, B, C, D, E
PF00310Glutamine amidotransferases class-II (GATase_2)Glutamine amidotransferases class-IIDomain
A, B, C, D, E
PF04898Glutamate synthase central domain (Glu_syn_central)Glutamate synthase central domainThe 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, K
PF07992Pyridine nucleotide-disulphide oxidoreductase (Pyr_redox_2)Pyridine nucleotide-disulphide oxidoreductaseThis 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, K
PF14691Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster (Fer4_20)Dihydroprymidine dehydrogenase domain II, 4Fe-4S clusterDomain 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

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D, E
Glutamate synthase [NADPH] large chain -
G, H, I, J, K
Glutamate synthase [NADPH] small chain -

InterPro: Protein Family Classification InterPro Database Homepage