- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.90 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x PO4: PHOSPHATE ION(Non-functional Binders)
- 8 x SO4: SULFATE ION(Non-functional Binders)
SO4.2: 4 residues within 4Å:- Chain A: D.174, R.175, K.176, E.177
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:D.174, A:K.176, A:E.177, A:E.177, A:E.177
- Salt bridges: A:R.175
SO4.3: 4 residues within 4Å:- Chain A: K.360, T.372, N.373, V.374
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:T.372, A:N.373, A:V.374
- Water bridges: A:T.372
- Salt bridges: A:K.360
SO4.12: 4 residues within 4Å:- Chain B: D.174, R.175, K.176, E.177
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:D.174, B:K.176, B:E.177, B:E.177, B:E.177
- Salt bridges: B:R.175
SO4.13: 4 residues within 4Å:- Chain B: K.360, T.372, N.373, V.374
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:T.372, B:N.373, B:V.374
- Water bridges: B:T.372
- Salt bridges: B:K.360
SO4.22: 4 residues within 4Å:- Chain C: D.174, R.175, K.176, E.177
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:D.174, C:K.176, C:E.177, C:E.177
- Salt bridges: C:R.175
SO4.23: 4 residues within 4Å:- Chain C: K.360, T.372, N.373, V.374
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:T.372, C:T.372, C:N.373, C:V.374
- Salt bridges: C:K.360
SO4.32: 4 residues within 4Å:- Chain D: D.174, R.175, K.176, E.177
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:D.174, D:K.176, D:E.177, D:E.177
- Salt bridges: D:R.175
SO4.33: 4 residues within 4Å:- Chain D: K.360, T.372, N.373, V.374
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:T.372, D:T.372, D:N.373, D:V.374
- Salt bridges: D:K.360
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
NAD.4: 33 residues within 4Å:- Chain A: V.6, G.7, Y.9, G.10, I.11, V.12, H.56, E.57, I.58, R.59, T.99, A.100, C.103, I.107, L.110, V.147, A.148, S.149, T.150, A.181, Y.185, F.199, T.200, D.225, G.226, T.228, Y.260, D.261, K.274, D.304, D.332, A.336
- Ligands: GOL.5
23 PLIP interactions:23 interactions with chain A- Hydrophobic interactions: A:F.199, A:T.228
- Hydrogen bonds: A:G.7, A:Y.9, A:I.11, A:V.12, A:I.58, A:R.59, A:R.59, A:T.99, A:A.148, A:S.149, A:Y.185, A:T.228, A:D.261, A:K.274
- Water bridges: A:S.13, A:T.228, A:D.261, A:D.261, A:D.261, A:D.261, A:D.332
NAD.14: 33 residues within 4Å:- Chain B: V.6, G.7, Y.9, G.10, I.11, V.12, H.56, E.57, I.58, R.59, T.99, A.100, C.103, I.107, L.110, V.147, A.148, S.149, T.150, A.181, Y.185, F.199, T.200, D.225, G.226, T.228, Y.260, D.261, K.274, D.304, D.332, A.336
- Ligands: GOL.15
23 PLIP interactions:23 interactions with chain B- Hydrophobic interactions: B:F.199, B:T.228
- Hydrogen bonds: B:G.7, B:Y.9, B:I.11, B:V.12, B:I.58, B:R.59, B:R.59, B:T.99, B:A.148, B:S.149, B:Y.185, B:T.228, B:D.261, B:K.274
- Water bridges: B:S.13, B:T.228, B:D.261, B:D.261, B:D.261, B:D.261, B:D.332
NAD.24: 33 residues within 4Å:- Chain C: V.6, G.7, Y.9, G.10, I.11, V.12, H.56, E.57, I.58, R.59, T.99, A.100, C.103, I.107, L.110, V.147, A.148, S.149, T.150, A.181, Y.185, F.199, T.200, D.225, G.226, T.228, Y.260, D.261, K.274, D.304, D.332, A.336
- Ligands: GOL.25
25 PLIP interactions:25 interactions with chain C- Hydrophobic interactions: C:F.199, C:T.228
- Hydrogen bonds: C:G.7, C:Y.9, C:I.11, C:V.12, C:I.58, C:R.59, C:R.59, C:T.99, C:A.148, C:S.149, C:T.150, C:T.228, C:T.228, C:D.261, C:K.274
- Water bridges: C:S.13, C:T.150, C:T.150, C:E.151, C:D.261, C:D.261, C:D.261, C:D.261
NAD.34: 33 residues within 4Å:- Chain D: V.6, G.7, Y.9, G.10, I.11, V.12, H.56, E.57, I.58, R.59, T.99, A.100, C.103, I.107, L.110, V.147, A.148, S.149, T.150, A.181, Y.185, F.199, T.200, D.225, G.226, T.228, Y.260, D.261, K.274, D.304, D.332, A.336
- Ligands: GOL.35
25 PLIP interactions:25 interactions with chain D- Hydrophobic interactions: D:F.199, D:T.228
- Hydrogen bonds: D:G.7, D:Y.9, D:I.11, D:V.12, D:I.58, D:R.59, D:R.59, D:T.99, D:A.148, D:S.149, D:T.150, D:T.228, D:T.228, D:D.261, D:K.274
- Water bridges: D:S.13, D:T.150, D:T.150, D:E.151, D:D.261, D:D.261, D:D.261, D:D.261
- 16 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 8 residues within 4Å:- Chain A: L.257, D.261, K.274, K.278, K.306, D.332
- Ligands: PO4.1, NAD.4
Ligand excluded by PLIPGOL.6: 3 residues within 4Å:- Chain A: K.263, Y.298, P.300
Ligand excluded by PLIPGOL.7: 8 residues within 4Å:- Chain A: N.305, D.329, A.330, I.331
- Chain B: K.323
- Chain D: L.321, M.322, K.323
Ligand excluded by PLIPGOL.8: 7 residues within 4Å:- Chain A: N.75, S.301, L.302, V.303, N.305, I.331
- Chain B: H.313
Ligand excluded by PLIPGOL.15: 8 residues within 4Å:- Chain B: L.257, D.261, K.274, K.278, K.306, D.332
- Ligands: PO4.11, NAD.14
Ligand excluded by PLIPGOL.16: 3 residues within 4Å:- Chain B: K.263, Y.298, P.300
Ligand excluded by PLIPGOL.17: 8 residues within 4Å:- Chain A: K.323
- Chain B: N.305, D.329, A.330, I.331
- Chain C: L.321, M.322, K.323
Ligand excluded by PLIPGOL.18: 7 residues within 4Å:- Chain A: H.313
- Chain B: N.75, S.301, L.302, V.303, N.305, I.331
Ligand excluded by PLIPGOL.25: 8 residues within 4Å:- Chain C: L.257, D.261, K.274, K.278, K.306, D.332
- Ligands: PO4.21, NAD.24
Ligand excluded by PLIPGOL.26: 3 residues within 4Å:- Chain C: K.263, Y.298, P.300
Ligand excluded by PLIPGOL.27: 8 residues within 4Å:- Chain B: L.321, M.322, K.323
- Chain C: N.305, D.329, A.330, I.331
- Chain D: K.323
Ligand excluded by PLIPGOL.28: 7 residues within 4Å:- Chain C: N.75, S.301, L.302, V.303, N.305, I.331
- Chain D: H.313
Ligand excluded by PLIPGOL.35: 8 residues within 4Å:- Chain D: L.257, D.261, K.274, K.278, K.306, D.332
- Ligands: PO4.31, NAD.34
Ligand excluded by PLIPGOL.36: 3 residues within 4Å:- Chain D: K.263, Y.298, P.300
Ligand excluded by PLIPGOL.37: 8 residues within 4Å:- Chain A: L.321, M.322, K.323
- Chain C: K.323
- Chain D: N.305, D.329, A.330, I.331
Ligand excluded by PLIPGOL.38: 7 residues within 4Å:- Chain C: H.313
- Chain D: N.75, S.301, L.302, V.303, N.305, I.331
Ligand excluded by PLIP- 4 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
PG4.9: 3 residues within 4Å:- Chain A: E.131, E.132, K.135
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.131, A:E.132, A:K.135
PG4.19: 3 residues within 4Å:- Chain B: E.131, E.132, K.135
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:E.131, B:E.132, B:K.135
PG4.29: 3 residues within 4Å:- Chain C: E.131, E.132, K.135
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:K.135
PG4.39: 3 residues within 4Å:- Chain D: E.131, E.132, K.135
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:K.135
- 4 x NA: SODIUM ION(Non-functional Binders)
NA.10: 7 residues within 4Å:- Chain A: D.329
- Chain B: K.323, Y.325
- Chain C: D.329
- Chain D: K.323, Y.325
- Ligands: NA.30
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain C- Hydrogen bonds: B:Y.325, B:Y.325, C:D.329
NA.20: 7 residues within 4Å:- Chain A: K.323, Y.325
- Chain B: D.329
- Chain C: K.323, Y.325
- Chain D: D.329
- Ligands: NA.40
3 PLIP interactions:1 interactions with chain D, 1 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: D:D.329, A:Y.325, C:Y.325
NA.30: 7 residues within 4Å:- Chain A: D.329
- Chain B: K.323, Y.325
- Chain C: D.329
- Chain D: K.323, Y.325
- Ligands: NA.10
3 PLIP interactions:1 interactions with chain C, 2 interactions with chain B- Hydrogen bonds: C:D.329, B:Y.325, B:Y.325
NA.40: 7 residues within 4Å:- Chain A: K.323, Y.325
- Chain B: D.329
- Chain C: K.323, Y.325
- Chain D: D.329
- Ligands: NA.20
3 PLIP interactions:1 interactions with chain A, 1 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: A:Y.325, C:Y.325, D:D.329
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Neelon, K. et al., Crystal structure of a trapped catalytic intermediate suggests that forced atomic proximity drives the catalysis of mIPS. Biophys.J. (2011)
- Release Date
- 2012-01-11
- Peptides
- Myo-inositol-1-phosphate synthase (Ino1): ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.90 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x PO4: PHOSPHATE ION(Non-functional Binders)
- 8 x SO4: SULFATE ION(Non-functional Binders)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 16 x GOL: GLYCEROL(Non-functional Binders)
- 4 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 4 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Neelon, K. et al., Crystal structure of a trapped catalytic intermediate suggests that forced atomic proximity drives the catalysis of mIPS. Biophys.J. (2011)
- Release Date
- 2012-01-11
- Peptides
- Myo-inositol-1-phosphate synthase (Ino1): ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A