- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ACT: ACETATE ION(Non-functional Binders)
- 2 x NA: SODIUM ION(Non-functional Binders)
NA.2: 4 residues within 4Å:- Chain A: S.55, L.56, E.123, D.211
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:L.56, A:E.123
NA.12: 4 residues within 4Å:- Chain B: S.55, L.56, E.123, D.211
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:L.56, B:E.123
- Water bridges: B:D.211, B:D.211
- 2 x SER: SERINE(Non-covalent)
SER.3: 7 residues within 4Å:- Chain A: F.185, C.322, S.323, T.476, G.477, A.478, F.485
11 PLIP interactions:9 interactions with chain A, 2 Ligand-Ligand interactions- Hydrogen bonds: A:S.323, A:S.323, A:G.477, A:A.478
- Water bridges: A:E.137, A:E.137, A:E.137, A:E.137, A:E.137, S.3, S.3
SER.13: 7 residues within 4Å:- Chain B: F.185, C.322, S.323, T.476, G.477, A.478, F.485
11 PLIP interactions:9 interactions with chain B, 2 Ligand-Ligand interactions- Hydrogen bonds: B:S.323, B:S.323, B:G.477, B:A.478
- Water bridges: B:E.137, B:E.137, B:E.137, B:E.137, B:A.478, S.13, S.13
- 13 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
MPD.4: 6 residues within 4Å:- Chain A: F.6, Y.144, R.147, A.148, L.500
- Chain B: E.158
6 PLIP interactions:5 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: A:F.6, A:Y.144, A:R.147, A:A.148, A:L.500
- Water bridges: B:E.158
MPD.5: 5 residues within 4Å:- Chain A: V.312, Y.315, G.316, L.349, D.359
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:V.312, A:Y.315, A:L.349
- Water bridges: A:V.312
MPD.6: 7 residues within 4Å:- Chain A: I.180, E.241, G.244, A.245, V.264, K.267, I.268
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:I.180, A:K.267, A:I.268
- Hydrogen bonds: A:A.245
- Water bridges: A:G.244
MPD.7: 5 residues within 4Å:- Chain A: K.371, S.374, Y.375, I.378, R.412
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:K.371, A:I.378
- Hydrogen bonds: A:Y.375
- Water bridges: A:S.374, A:S.374
MPD.8: 6 residues within 4Å:- Chain A: L.275, G.278, Q.279, T.280
- Chain B: P.442, L.490
5 PLIP interactions:2 interactions with chain B, 3 interactions with chain A- Hydrophobic interactions: B:P.442, B:L.490, A:L.275, A:T.280
- Hydrogen bonds: A:G.278
MPD.9: 5 residues within 4Å:- Chain A: E.158
- Chain B: F.6, Y.144, R.147, A.148
8 PLIP interactions:3 interactions with chain A, 5 interactions with chain B- Hydrogen bonds: A:E.158
- Water bridges: A:E.158, A:V.160
- Hydrophobic interactions: B:F.6, B:Y.144, B:Y.144, B:R.147, B:A.148
MPD.10: 5 residues within 4Å:- Chain A: R.151, Y.152, Y.171, L.500
- Ligands: MPD.15
6 PLIP interactions:6 interactions with chain A- Hydrophobic interactions: A:R.151, A:Y.152, A:L.500
- Hydrogen bonds: A:R.151, A:Y.171, A:Y.171
MPD.14: 5 residues within 4Å:- Chain A: P.442
- Chain B: L.275, G.278, Q.279, T.280
4 PLIP interactions:1 interactions with chain A, 3 interactions with chain B- Hydrophobic interactions: A:P.442, B:L.275, B:T.280
- Hydrogen bonds: B:G.278
MPD.15: 6 residues within 4Å:- Chain B: R.151, Y.152, A.156, Y.171, L.500
- Ligands: MPD.10
7 PLIP interactions:5 interactions with chain B, 2 interactions with chain A- Hydrophobic interactions: B:R.151, B:A.156, B:Y.171, B:L.500
- Water bridges: B:Y.152, A:D.501, A:D.501
MPD.16: 6 residues within 4Å:- Chain B: I.180, E.241, G.244, A.245, V.264, I.268
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:I.180, B:I.268
- Hydrogen bonds: B:E.241, B:A.245
- Water bridges: B:G.244
MPD.17: 3 residues within 4Å:- Chain B: P.353, E.355, E.356
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:E.356
MPD.18: 7 residues within 4Å:- Chain B: E.308, V.311, V.312, Y.315, G.316, L.349, D.359
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:Y.315
MPD.19: 5 residues within 4Å:- Chain B: R.36, Y.38, P.39, W.46, E.221
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:Y.38, B:W.46, B:W.46, B:W.46
- Hydrogen bonds: B:R.36, B:E.221
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Inagaki, E. et al., Crystal structure analysis of delta1-pyrroline-5-carboxylate dehydrogenase in ternary complex with inhibitor and NAD. To be Published
- Release Date
- 2007-09-18
- Peptides
- 1-pyrroline-5-carboxylate dehydrogenase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ACT: ACETATE ION(Non-functional Binders)
- 2 x NA: SODIUM ION(Non-functional Binders)
- 2 x SER: SERINE(Non-covalent)
- 13 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Inagaki, E. et al., Crystal structure analysis of delta1-pyrroline-5-carboxylate dehydrogenase in ternary complex with inhibitor and NAD. To be Published
- Release Date
- 2007-09-18
- Peptides
- 1-pyrroline-5-carboxylate dehydrogenase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B