- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.99 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 4 x G3H: GLYCERALDEHYDE-3-PHOSPHATE(Non-covalent)
G3H.2: 8 residues within 4Å:- Chain A: S.152, C.153, T.154, H.180, T.183, T.211, R.234
- Ligands: NAD.1
9 PLIP interactions:9 interactions with chain A- Hydrogen bonds: A:S.152, A:C.153, A:T.154, A:T.154, A:T.154, A:T.211, A:R.234
- Water bridges: A:S.210
- Salt bridges: A:H.180
G3H.6: 9 residues within 4Å:- Chain B: S.152, C.153, T.154, H.180, T.183, T.211, R.234, N.315
- Ligands: NAD.5
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:C.153, B:T.154, B:T.154, B:T.211, B:R.234
- Water bridges: B:H.180, B:S.210
- Salt bridges: B:H.180
G3H.11: 11 residues within 4Å:- Chain C: S.152, C.153, T.154, H.180, T.183, T.211, G.212, R.234, N.315
- Ligands: NAD.10, GOL.13
11 PLIP interactions:11 interactions with chain C- Hydrogen bonds: C:C.153, C:T.154, C:T.154, C:T.211, C:G.212, C:R.234
- Water bridges: C:S.152, C:S.152, C:R.198, C:S.210
- Salt bridges: C:H.180
G3H.18: 8 residues within 4Å:- Chain D: S.152, C.153, T.154, H.180, T.183, T.211, R.234
- Ligands: NAD.17
10 PLIP interactions:10 interactions with chain D- Hydrogen bonds: D:S.152, D:T.154, D:T.154, D:T.154, D:T.211, D:R.234
- Water bridges: D:T.183, D:R.198, D:R.198
- Salt bridges: D:H.180
- 11 x GOL: GLYCEROL(Non-functional Binders)
GOL.3: 5 residues within 4Å:- Chain A: D.49, S.50, I.51, G.53
- Chain B: T.284
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:I.51
GOL.4: 5 residues within 4Å:- Chain A: A.129, T.130, N.136, S.139, L.219
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:T.130, A:T.130, A:N.136, A:S.139
GOL.7: 4 residues within 4Å:- Chain B: R.24, L.324, R.325, E.328
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:R.24, B:E.328
- Water bridges: B:D.26, B:D.26, B:D.27, B:E.272
GOL.8: 8 residues within 4Å:- Chain B: R.197, P.208, T.209, S.210, Y.231
- Chain D: G.298, L.299, K.301
8 PLIP interactions:1 interactions with chain D, 7 interactions with chain B- Hydrogen bonds: D:K.301, B:P.208
- Water bridges: B:R.197, B:R.197, B:R.197, B:R.197, B:T.209, B:G.230
GOL.9: 7 residues within 4Å:- Chain A: R.54
- Chain B: S.277, E.279, D.285, D.289, H.291, I.294
5 PLIP interactions:4 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:S.277, B:E.279, B:D.285, B:H.291, A:R.54
GOL.12: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)GOL.13: 7 residues within 4Å:- Chain C: T.183, G.184, D.185, R.198, R.234
- Ligands: NAD.10, G3H.11
6 PLIP interactions:6 interactions with chain C- Hydrogen bonds: C:G.184, C:D.185, C:R.198, C:R.198, C:R.234, C:R.234
GOL.14: 4 residues within 4Å:- Chain C: R.24, L.324, R.325, E.328
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.24
- Water bridges: C:R.24, C:E.272
GOL.15: 3 residues within 4Å:- Chain C: G.134, K.163, F.270
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:K.163, C:K.163
GOL.19: 5 residues within 4Å:- Chain C: T.284, V.287
- Chain D: S.50, I.51, G.53
1 PLIP interactions:1 interactions with chain C- Water bridges: C:I.51
GOL.20: 7 residues within 4Å:- Chain D: D.38, N.39, K.40, Y.61, D.62, D.63
- Ligands: EDO.21
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:D.38, D:N.39, D:K.40
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.16: 5 residues within 4Å:- Chain C: S.277, E.279, D.289, I.294
- Chain D: R.54
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:E.279, C:D.289
- Water bridges: C:D.289
EDO.21: 6 residues within 4Å:- Chain D: T.37, D.38, N.39, V.75, A.77
- Ligands: GOL.20
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:N.39, D:N.39
- Water bridges: D:T.37
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Son, H.F. et al., Structure-Guided Protein Engineering of Glyceraldehyde-3-phosphate Dehydrogenase from Corynebacterium glutamicum for Dual NAD/NADP Cofactor Specificity. J.Agric.Food Chem. (2023)
- Release Date
- 2023-12-06
- Peptides
- Glyceraldehyde-3-phosphate dehydrogenase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.99 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 4 x G3H: GLYCERALDEHYDE-3-PHOSPHATE(Non-covalent)
- 11 x GOL: GLYCEROL(Non-functional Binders)
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Son, H.F. et al., Structure-Guided Protein Engineering of Glyceraldehyde-3-phosphate Dehydrogenase from Corynebacterium glutamicum for Dual NAD/NADP Cofactor Specificity. J.Agric.Food Chem. (2023)
- Release Date
- 2023-12-06
- Peptides
- Glyceraldehyde-3-phosphate dehydrogenase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D