2DW7
Crystal structure of D-tartrate dehydratase from Bradyrhizobium japonicum complexed with Mg++ and meso-tartrate
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
E | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
E | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
F | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
F | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
G | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
G | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
H | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
H | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
I | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
I | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
J | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
J | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
K | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
K | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
L | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
L | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
M | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
M | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
N | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
N | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
O | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | SCOP2B (2022-06-29) |
O | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
P | SCOP2B Superfamily | Enolase N-terminal domain-like | 8039950 | 3001064 | SCOP2B (2022-06-29) |
P | SCOP2B Superfamily | Enolase C-terminal domain-like | 8039949 | 3000476 | 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 | PF02746 | e2dw7A1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
A | PF13378 | e2dw7A2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
B | PF02746 | e2dw7B1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
B | PF13378 | e2dw7B2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
C | PF02746 | e2dw7C1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
C | PF13378 | e2dw7C2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
D | PF02746 | e2dw7D1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
D | PF13378 | e2dw7D2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
E | PF02746 | e2dw7E1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
E | PF13378 | e2dw7E2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
F | PF02746 | e2dw7F1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
F | PF13378 | e2dw7F2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
G | PF02746 | e2dw7G1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
G | PF13378 | e2dw7G2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
H | PF02746 | e2dw7H1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
H | PF13378 | e2dw7H2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
I | PF02746 | e2dw7I1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
I | PF13378 | e2dw7I2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
J | PF02746 | e2dw7J1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
J | PF13378 | e2dw7J2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
K | PF02746 | e2dw7K1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
K | PF13378 | e2dw7K2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
L | PF02746 | e2dw7L1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
L | PF13378 | e2dw7L2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
M | PF02746 | e2dw7M1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
M | PF13378 | e2dw7M2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
N | PF02746 | e2dw7N1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
N | PF13378 | e2dw7N2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
O | PF02746 | e2dw7O1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
O | PF13378 | e2dw7O2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
P | PF02746 | e2dw7P1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Enolase N-terminal domain-like (From Topology) | T: Enolase N-terminal domain-like | F: PF02746 | ECOD (1.6) |
P | PF13378 | e2dw7P2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF13378 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Protein Family Annotation Pfam Database Homepage
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
Chains | Polymer | Molecular Function | Biological Process | Cellular Component |
---|---|---|---|---|
Bll6730 protein | - |
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR034593 | D-galactonate dehydratase DgoD-like | Family | |
IPR029065 | Enolase C-terminal domain-like | Domain | |
IPR013342 | Mandelate racemase/muconate lactonizing enzyme, C-terminal | Domain | |
IPR029017 | Enolase-like, N-terminal | Homologous Superfamily | |
IPR034611 | D-tartrate dehydratase | Family | |
IPR036849 | Enolase-like, C-terminal domain superfamily | Homologous Superfamily |
Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage
Chains | Enzyme Name | Description | Catalytic Residues |
---|---|---|---|
D(-)-tartrate dehydratase M-CSA #463 | D-tartrate dehydratase (TarD), isolated from Bradyrhizobium japonicum, catalyses the dehydration of D-tartrate to oxaloacetate and water. TarD is a member of the mandelate racemase subgroup of the enolase superfamily. | Defined by 9 residues: ASN:A-55LYS:A-182LYS:A-184ASP:A-213GLU:A-239GLU:A-265ASP:A-292HIS:A-322GLU:A-341 | EC: 4.2.1.81 (PDB Primary Data) |