- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.88 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x ACT: ACETATE ION(Non-functional Binders)
- 2 x NA: SODIUM ION(Non-functional Binders)
NA.3: 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.13: 4 residues within 4Å:- Chain B: S.55, L.56, E.123, D.211
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:L.56, B:L.56
- Water bridges: B:D.211
- 2 x VAL: VALINE(Non-covalent)
VAL.4: 9 residues within 4Å:- Chain A: E.137, F.185, I.189, C.322, S.323, T.476, G.477, A.478, F.485
8 PLIP interactions:8 interactions with chain A- Hydrophobic interactions: A:F.185, A:F.185, A:I.189, A:F.485
- Hydrogen bonds: A:E.137, A:S.323, A:G.477, A:A.478
VAL.14: 9 residues within 4Å:- Chain B: E.137, F.185, I.189, C.322, S.323, T.476, G.477, A.478, F.485
9 PLIP interactions:9 interactions with chain B,- Hydrophobic interactions: B:F.185, B:F.185, B:I.189, B:F.485
- Hydrogen bonds: B:E.137, B:S.323, B:G.477, B:A.478
- Water bridges: B:E.137
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
NAD.5: 28 residues within 4Å:- Chain A: I.180, A.181, P.182, W.183, N.184, I.189, K.207, P.208, A.209, E.210, G.240, E.241, G.244, A.245, F.258, T.259, G.260, S.261, V.264, E.288, T.289, G.290, C.322, E.417, F.419, L.445, F.485
- Ligands: ACT.1
17 PLIP interactions:17 interactions with chain A- Hydrophobic interactions: A:I.189, A:T.259
- Hydrogen bonds: A:A.181, A:A.181, A:W.183, A:K.207, A:E.210, A:G.240, A:S.261, A:T.289, A:E.417
- Water bridges: A:E.241, A:E.241, A:S.261, A:G.290, A:E.417, A:E.417
NAD.15: 29 residues within 4Å:- Chain B: I.180, A.181, P.182, W.183, N.184, I.189, K.207, P.208, A.209, E.210, G.240, E.241, G.244, A.245, F.258, T.259, G.260, S.261, V.264, I.268, E.288, T.289, G.290, C.322, E.417, F.419, L.445, F.485
- Ligands: ACT.11
19 PLIP interactions:19 interactions with chain B- Hydrophobic interactions: B:I.189, B:T.259
- Hydrogen bonds: B:A.181, B:A.181, B:W.183, B:K.207, B:E.210, B:G.240, B:S.261, B:T.289, B:E.417
- Water bridges: B:E.241, B:S.261, B:S.261, B:K.267, B:K.267, B:E.288, B:E.288, B:G.290
- 14 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
MPD.6: 4 residues within 4Å:- Chain A: V.312, Y.315, G.316, D.359
1 PLIP interactions:1 interactions with chain A- Water bridges: A:N.127
MPD.7: 7 residues within 4Å:- Chain A: L.275, G.278, Q.279, T.280
- Chain B: P.442, L.490
- Ligands: MPD.23
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: A:L.275, A:T.280, B:P.442
- Hydrogen bonds: A:G.278
MPD.8: 6 residues within 4Å:- Chain A: R.151, Y.152, A.156, Y.171, L.500
- Ligands: MPD.22
9 PLIP interactions:8 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: A:R.151, A:Y.152, A:Y.152, A:A.156, A:Y.171, A:L.500
- Water bridges: A:Y.171, A:D.501, B:D.501
MPD.9: 4 residues within 4Å:- Chain A: R.36, P.39, W.46, E.221
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:W.46, A:W.46
- Hydrogen bonds: A:R.36
MPD.10: 6 residues within 4Å:- Chain A: F.6, Y.144, R.147, A.148, L.500
- Chain B: E.158
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:F.6, A:Y.144, A:R.147, A:A.148, A:L.500
MPD.16: 6 residues within 4Å:- Chain A: E.158
- Chain B: F.6, Y.144, R.147, A.148, L.500
6 PLIP interactions:4 interactions with chain B, 2 interactions with chain A- Hydrophobic interactions: B:F.6, B:R.147, B:A.148, B:L.500
- Hydrogen bonds: A:E.158
- Water bridges: A:E.158
MPD.17: 6 residues within 4Å:- Chain A: P.442, L.490
- Chain B: L.275, G.278, Q.279, T.280
5 PLIP interactions:3 interactions with chain B, 2 interactions with chain A- Hydrophobic interactions: B:L.275, B:T.280, A:P.442, A:L.490
- Hydrogen bonds: B:G.278
MPD.18: 3 residues within 4Å:- Chain A: Y.154, F.170
- Chain B: R.462
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: A:Y.154, A:F.170, A:F.170
- Water bridges: B:R.462
MPD.19: 5 residues within 4Å:- Chain B: R.36, Y.38, P.39, W.46, E.221
7 PLIP interactions:7 interactions with chain B- Hydrophobic interactions: B:Y.38, B:P.39, B:W.46, B:W.46
- Hydrogen bonds: B:R.36, B:E.221
- Water bridges: B:W.46
MPD.20: 3 residues within 4Å:- Chain B: P.353, E.355, E.356
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:E.356
MPD.21: 3 residues within 4Å:- Chain A: R.462
- Chain B: Y.154, F.170
4 PLIP interactions:1 interactions with chain A, 3 interactions with chain B- Hydrophobic interactions: A:R.462, B:Y.154, B:Y.154
- Water bridges: B:D.92
MPD.22: 5 residues within 4Å:- Chain B: R.151, Y.152, Y.171, L.500
- Ligands: MPD.8
4 PLIP interactions:1 interactions with chain A, 3 interactions with chain B- Water bridges: A:D.501, B:Y.171
- Hydrophobic interactions: B:Y.171
- Hydrogen bonds: B:Y.152
MPD.23: 3 residues within 4Å:- Chain B: L.262, E.416
- Ligands: MPD.7
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:L.262, B:E.416
- Water bridges: B:E.263
MPD.24: 4 residues within 4Å:- Chain B: V.312, Y.315, G.316, D.359
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:Y.315, B:D.359
- Water bridges: B:E.308
- 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 1.88 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x ACT: ACETATE ION(Non-functional Binders)
- 2 x NA: SODIUM ION(Non-functional Binders)
- 2 x VAL: VALINE(Non-covalent)
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 14 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