- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x ACT: ACETATE ION(Non-functional Binders)
- 6 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
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:S.55, B:L.56
- Water bridges: B:D.211
NA.21: 4 residues within 4Å:- Chain C: S.55, L.56, E.123, D.211
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:S.55, C:L.56
NA.31: 4 residues within 4Å:- Chain D: S.55, L.56, E.123, D.211
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:L.56, D:D.211
- Water bridges: D:D.211
NA.40: 4 residues within 4Å:- Chain E: S.55, L.56, E.123, D.211
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:S.55, E:L.56
NA.50: 4 residues within 4Å:- Chain F: S.55, L.56, E.123, D.211
3 PLIP interactions:3 interactions with chain F- Hydrogen bonds: F:S.55, F:L.56
- Water bridges: F:D.211
- 6 x ALA: ALANINE(Non-covalent)
ALA.3: 7 residues within 4Å:- Chain A: F.185, C.322, S.323, T.476, G.477, A.478, F.485
12 PLIP interactions:11 interactions with chain A, 1 Ligand-Ligand interactions- Hydrophobic interactions: A:F.185, A:F.485
- Hydrogen bonds: 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, A:A.478, A.3
ALA.13: 7 residues within 4Å:- Chain B: F.185, C.322, S.323, T.476, G.477, A.478, F.485
12 PLIP interactions:11 interactions with chain B, 1 Ligand-Ligand interactions- Hydrophobic interactions: B:F.185, B:F.485
- Hydrogen bonds: 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, B:A.478, A.13
ALA.22: 7 residues within 4Å:- Chain C: F.185, C.322, S.323, T.476, G.477, A.478, F.485
12 PLIP interactions:11 interactions with chain C, 1 Ligand-Ligand interactions- Hydrophobic interactions: C:F.185, C:F.485
- Hydrogen bonds: C:S.323, C:G.477, C:A.478
- Water bridges: C:E.137, C:E.137, C:E.137, C:E.137, C:E.137, C:A.478, A.22
ALA.32: 7 residues within 4Å:- Chain D: F.185, C.322, S.323, T.476, G.477, A.478, F.485
12 PLIP interactions:11 interactions with chain D, 1 Ligand-Ligand interactions- Hydrophobic interactions: D:F.185, D:F.485
- Hydrogen bonds: D:S.323, D:G.477, D:A.478
- Water bridges: D:E.137, D:E.137, D:E.137, D:E.137, D:A.478, D:A.478, A.32
ALA.41: 7 residues within 4Å:- Chain E: F.185, C.322, S.323, T.476, G.477, A.478, F.485
12 PLIP interactions:11 interactions with chain E, 1 Ligand-Ligand interactions- Hydrophobic interactions: E:F.185, E:F.485
- Hydrogen bonds: E:S.323, E:G.477, E:A.478
- Water bridges: E:E.137, E:E.137, E:E.137, E:E.137, E:E.137, E:A.478, A.41
ALA.51: 7 residues within 4Å:- Chain F: F.185, C.322, S.323, T.476, G.477, A.478, F.485
12 PLIP interactions:11 interactions with chain F, 1 Ligand-Ligand interactions- Hydrophobic interactions: F:F.185, F:F.485
- Hydrogen bonds: F:S.323, F:G.477, F:A.478
- Water bridges: F:E.137, F:E.137, F:E.137, F:E.137, F:A.478, F:A.478, A.51
- 39 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
Ligand excluded by PLIPMPD.5: 4 residues within 4Å:- Chain A: V.312, Y.315, G.316, D.359
Ligand excluded by PLIPMPD.6: 4 residues within 4Å:- Chain A: I.180, E.241, G.244, A.245
Ligand excluded by PLIPMPD.7: 5 residues within 4Å:- Chain A: K.371, S.374, Y.375, I.378, R.412
Ligand excluded by PLIPMPD.8: 5 residues within 4Å:- Chain A: L.275, G.278, Q.279
- Chain B: P.442, L.490
Ligand excluded by PLIPMPD.9: 5 residues within 4Å:- Chain A: E.158, V.160
- Chain B: Y.144, R.147, A.148
Ligand excluded by PLIPMPD.10: 5 residues within 4Å:- Chain A: R.151, Y.152, Y.171, L.500
- Ligands: MPD.15
Ligand excluded by PLIPMPD.14: 6 residues within 4Å:- Chain A: P.442, L.490
- Chain B: L.275, G.278, Q.279, T.280
Ligand excluded by PLIPMPD.15: 5 residues within 4Å:- Chain B: R.151, A.156, Y.171, L.500
- Ligands: MPD.10
Ligand excluded by PLIPMPD.16: 6 residues within 4Å:- Chain B: I.180, E.241, G.244, A.245, V.264, I.268
Ligand excluded by PLIPMPD.17: 3 residues within 4Å:- Chain B: P.353, E.355, E.356
Ligand excluded by PLIPMPD.18: 5 residues within 4Å:- Chain B: V.312, Y.315, G.316, L.349, D.359
Ligand excluded by PLIPMPD.19: 5 residues within 4Å:- Chain B: R.36, Y.38, P.39, W.46, E.221
Ligand excluded by PLIPMPD.23: 6 residues within 4Å:- Chain C: F.6, Y.144, R.147, A.148, L.500
- Chain D: E.158
Ligand excluded by PLIPMPD.24: 4 residues within 4Å:- Chain C: V.312, Y.315, G.316, D.359
Ligand excluded by PLIPMPD.25: 4 residues within 4Å:- Chain C: I.180, E.241, G.244, A.245
Ligand excluded by PLIPMPD.26: 5 residues within 4Å:- Chain C: K.371, S.374, Y.375, I.378, R.412
Ligand excluded by PLIPMPD.27: 5 residues within 4Å:- Chain C: L.275, G.278, Q.279
- Chain D: P.442, L.490
Ligand excluded by PLIPMPD.28: 5 residues within 4Å:- Chain C: E.158, V.160
- Chain D: Y.144, R.147, A.148
Ligand excluded by PLIPMPD.29: 5 residues within 4Å:- Chain C: R.151, Y.152, Y.171, L.500
- Ligands: MPD.34
Ligand excluded by PLIPMPD.33: 6 residues within 4Å:- Chain C: P.442, L.490
- Chain D: L.275, G.278, Q.279, T.280
Ligand excluded by PLIPMPD.34: 5 residues within 4Å:- Chain D: R.151, A.156, Y.171, L.500
- Ligands: MPD.29
Ligand excluded by PLIPMPD.35: 6 residues within 4Å:- Chain D: I.180, E.241, G.244, A.245, V.264, I.268
Ligand excluded by PLIPMPD.36: 3 residues within 4Å:- Chain D: P.353, E.355, E.356
Ligand excluded by PLIPMPD.37: 5 residues within 4Å:- Chain D: V.312, Y.315, G.316, L.349, D.359
Ligand excluded by PLIPMPD.38: 5 residues within 4Å:- Chain D: R.36, Y.38, P.39, W.46, E.221
Ligand excluded by PLIPMPD.42: 6 residues within 4Å:- Chain E: F.6, Y.144, R.147, A.148, L.500
- Chain F: E.158
Ligand excluded by PLIPMPD.43: 4 residues within 4Å:- Chain E: V.312, Y.315, G.316, D.359
Ligand excluded by PLIPMPD.44: 4 residues within 4Å:- Chain E: I.180, E.241, G.244, A.245
Ligand excluded by PLIPMPD.45: 5 residues within 4Å:- Chain E: K.371, S.374, Y.375, I.378, R.412
Ligand excluded by PLIPMPD.46: 5 residues within 4Å:- Chain E: L.275, G.278, Q.279
- Chain F: P.442, L.490
Ligand excluded by PLIPMPD.47: 5 residues within 4Å:- Chain E: E.158, V.160
- Chain F: Y.144, R.147, A.148
Ligand excluded by PLIPMPD.48: 5 residues within 4Å:- Chain E: R.151, Y.152, Y.171, L.500
- Ligands: MPD.53
Ligand excluded by PLIPMPD.52: 6 residues within 4Å:- Chain E: P.442, L.490
- Chain F: L.275, G.278, Q.279, T.280
Ligand excluded by PLIPMPD.53: 5 residues within 4Å:- Chain F: R.151, A.156, Y.171, L.500
- Ligands: MPD.48
Ligand excluded by PLIPMPD.54: 6 residues within 4Å:- Chain F: I.180, E.241, G.244, A.245, V.264, I.268
Ligand excluded by PLIPMPD.55: 3 residues within 4Å:- Chain F: P.353, E.355, E.356
Ligand excluded by PLIPMPD.56: 5 residues within 4Å:- Chain F: V.312, Y.315, G.316, L.349, D.359
Ligand excluded by PLIPMPD.57: 5 residues within 4Å:- Chain F: R.36, Y.38, P.39, W.46, E.221
Ligand excluded by PLIP- 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: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x ACT: ACETATE ION(Non-functional Binders)
- 6 x NA: SODIUM ION(Non-functional Binders)
- 6 x ALA: ALANINE(Non-covalent)
- 39 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: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B