- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.94 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x 3VN: (2R,5R)-2,5-diamino-2,5-bis(4-aminobutyl)hexanedioic acid(Non-covalent)
- 4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
PGE.2: 5 residues within 4Å:- Chain A: Q.129, Y.132, D.162, T.163, K.166
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.162, A:D.162, A:K.166
PGE.8: 4 residues within 4Å:- Chain B: Q.129, Y.132, T.163, K.166
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.166
PGE.16: 5 residues within 4Å:- Chain C: Q.129, Y.132, D.162, T.163, K.166
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:D.162, C:K.166
PGE.22: 4 residues within 4Å:- Chain D: Q.129, Y.132, T.163, K.166
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:K.166
- 6 x ACT: ACETATE ION(Non-functional Binders)
ACT.3: 7 residues within 4Å:- Chain A: T.59, Y.149, V.151, R.154, K.178, G.202, N.264
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:V.151
- Hydrogen bonds: A:Y.149, A:N.264
- Salt bridges: A:R.154
ACT.9: 4 residues within 4Å:- Chain A: K.33, T.67, R.284
- Chain B: H.99
3 PLIP interactions:1 interactions with chain B, 2 interactions with chain A- Salt bridges: B:H.99, A:K.33, A:R.284
ACT.10: 4 residues within 4Å:- Chain B: I.17, I.19, M.198, K.216
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:I.19, B:K.216
- Salt bridges: B:K.216
ACT.17: 7 residues within 4Å:- Chain C: T.59, Y.149, V.151, R.154, K.178, G.202, N.264
3 PLIP interactions:3 interactions with chain C- Hydrophobic interactions: C:V.151
- Hydrogen bonds: C:N.264
- Salt bridges: C:R.154
ACT.23: 4 residues within 4Å:- Chain C: K.33, T.67, R.284
- Chain D: H.99
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain D- Salt bridges: C:K.33, C:R.284, D:H.99
ACT.24: 4 residues within 4Å:- Chain D: I.17, I.19, M.198, K.216
3 PLIP interactions:3 interactions with chain D- Hydrophobic interactions: D:I.19, D:K.216
- Salt bridges: D:K.216
- 8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 4 residues within 4Å:- Chain A: S.212, E.240, Y.242
- Chain D: K.246
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.240, A:Y.242
EDO.11: 5 residues within 4Å:- Chain B: T.59, Y.149, R.154, K.178, N.264
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Y.149, B:N.264
EDO.12: 7 residues within 4Å:- Chain B: L.211, G.214, G.215, K.216, A.237, L.238, Y.242
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:G.215, B:K.216
EDO.13: 5 residues within 4Å:- Chain B: K.15, F.168, R.169, C.171, E.172
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:K.15, B:K.15
EDO.18: 4 residues within 4Å:- Chain B: K.246
- Chain C: S.212, E.240, Y.242
No protein-ligand interaction detected (PLIP)EDO.25: 5 residues within 4Å:- Chain D: T.59, Y.149, R.154, K.178, N.264
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:N.264
EDO.26: 7 residues within 4Å:- Chain D: L.211, G.214, G.215, K.216, A.237, L.238, Y.242
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:G.215, D:K.216
EDO.27: 5 residues within 4Å:- Chain D: K.15, F.168, R.169, C.171, E.172
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:K.15, D:K.15
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.5: 3 residues within 4Å:- Chain A: I.17, I.19, K.216
No protein-ligand interaction detected (PLIP)PEG.14: 3 residues within 4Å:- Chain B: K.44, E.48, T.81
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:E.48, B:E.48
PEG.19: 3 residues within 4Å:- Chain C: I.17, I.19, K.216
No protein-ligand interaction detected (PLIP)PEG.28: 3 residues within 4Å:- Chain D: K.44, E.48, T.81
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:E.48
- 4 x MG: MAGNESIUM ION(Non-covalent)
MG.6: 5 residues within 4Å:- Chain B: A.93, G.94, L.117, S.118, V.119
No protein-ligand interaction detected (PLIP)MG.7: 1 residues within 4Å:- Chain B: Y.273
No protein-ligand interaction detected (PLIP)MG.20: 5 residues within 4Å:- Chain D: A.93, G.94, L.117, S.118, V.119
No protein-ligand interaction detected (PLIP)MG.21: 1 residues within 4Å:- Chain D: Y.273
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Saran, S. et al., B-FACTOR ANALYSIS SUGGEST THAT L-LYSINE AND R, R-BISLYSINE ALLOSTERICALLY INHIBIT Cj.DHDPS ENZYME BY DECREASING PROTEIN DYNAMICS. To Be Published
- Release Date
- 2021-12-08
- Peptides
- 4-hydroxy-tetrahydrodipicolinate synthase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
EB
FC
ED
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.94 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x 3VN: (2R,5R)-2,5-diamino-2,5-bis(4-aminobutyl)hexanedioic acid(Non-covalent)
- 4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 6 x ACT: ACETATE ION(Non-functional Binders)
- 8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 4 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Saran, S. et al., B-FACTOR ANALYSIS SUGGEST THAT L-LYSINE AND R, R-BISLYSINE ALLOSTERICALLY INHIBIT Cj.DHDPS ENZYME BY DECREASING PROTEIN DYNAMICS. To Be Published
- Release Date
- 2021-12-08
- Peptides
- 4-hydroxy-tetrahydrodipicolinate synthase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
EB
FC
ED
F