- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 8 x PO4: PHOSPHATE ION(Non-functional Binders)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
NAD.2: 34 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, H.71, 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.332, A.336
- Ligands: PO4.4, GOL.6
21 PLIP interactions:21 interactions with chain A- Hydrophobic interactions: 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:T.150, A:Y.185, A:T.228, A:D.261
- Water bridges: A:S.13, A:T.228, A:D.261, A:D.261, A:D.304, A:D.304
NAD.10: 34 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, H.71, 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.332, A.336
- Ligands: PO4.12, GOL.14
21 PLIP interactions:21 interactions with chain B- Hydrophobic interactions: 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:T.150, B:Y.185, B:T.228, B:D.261
- Water bridges: B:S.13, B:T.228, B:D.261, B:D.261, B:D.304, B:D.304
NAD.18: 34 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, H.71, 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.332, A.336
- Ligands: PO4.20, GOL.22
21 PLIP interactions:21 interactions with chain C- Hydrophobic interactions: 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.150, C:T.228, C:T.228, C:D.261, C:D.261
- Water bridges: C:S.13, C:E.151, C:D.261, C:D.261
NAD.26: 34 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, H.71, 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.332, A.336
- Ligands: PO4.28, GOL.30
21 PLIP interactions:21 interactions with chain D- Hydrophobic interactions: 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.150, D:T.228, D:T.228, D:D.261, D:D.261
- Water bridges: D:S.13, D:E.151, D:D.261, D:D.261
- 4 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
PG4.3: 3 residues within 4Å:- Chain A: E.131, E.132, K.135
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.132, A:K.135
PG4.11: 3 residues within 4Å:- Chain B: E.131, E.132, K.135
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:E.132, B:K.135
PG4.19: 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
PG4.27: 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
- 12 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 9 residues within 4Å:- Chain A: N.75, S.301, L.302, V.303, N.305, I.331
- Chain B: H.313, L.321, K.323
5 PLIP interactions:3 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: B:H.313, B:K.323, A:N.75, A:D.304
- Water bridges: B:H.313
GOL.6: 8 residues within 4Å:- Chain A: L.257, D.261, K.274, K.306, D.332, K.367
- Ligands: NAD.2, PO4.4
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:K.306, A:K.306, A:D.332
- Water bridges: A:N.255
GOL.7: 3 residues within 4Å:- Chain A: K.263, Y.298, P.300
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.263
GOL.13: 9 residues within 4Å:- Chain A: H.313, L.321, K.323
- Chain B: N.75, S.301, L.302, V.303, N.305, I.331
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:H.313, A:K.323, B:N.75, B:D.304
- Water bridges: A:H.313
GOL.14: 8 residues within 4Å:- Chain B: L.257, D.261, K.274, K.306, D.332, K.367
- Ligands: NAD.10, PO4.12
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:K.306, B:K.306, B:D.332
- Water bridges: B:N.255
GOL.15: 3 residues within 4Å:- Chain B: K.263, Y.298, P.300
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.263
GOL.21: 9 residues within 4Å:- Chain C: N.75, S.301, L.302, V.303, N.305, I.331
- Chain D: H.313, L.321, K.323
5 PLIP interactions:3 interactions with chain D, 2 interactions with chain C- Hydrogen bonds: D:H.313, D:K.323, C:N.75, C:D.304
- Water bridges: D:H.313
GOL.22: 8 residues within 4Å:- Chain C: L.257, D.261, K.274, K.306, D.332, K.367
- Ligands: NAD.18, PO4.20
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:K.306, C:K.306, C:D.332
- Water bridges: C:N.255
GOL.23: 3 residues within 4Å:- Chain C: K.263, Y.298, P.300
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:K.263, C:Y.298
GOL.29: 9 residues within 4Å:- Chain C: H.313, L.321, K.323
- Chain D: N.75, S.301, L.302, V.303, N.305, I.331
5 PLIP interactions:2 interactions with chain D, 3 interactions with chain C- Hydrogen bonds: D:N.75, D:D.304, C:H.313, C:K.323
- Water bridges: C:H.313
GOL.30: 8 residues within 4Å:- Chain D: L.257, D.261, K.274, K.306, D.332, K.367
- Ligands: NAD.26, PO4.28
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:K.306, D:K.306, D:D.332
- Water bridges: D:N.255
GOL.31: 3 residues within 4Å:- Chain D: K.263, Y.298, P.300
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:K.263, D:Y.298
- 4 x NA: SODIUM ION(Non-functional Binders)
NA.8: 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.24
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.16: 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.32
3 PLIP interactions:1 interactions with chain D, 1 interactions with chain C, 1 interactions with chain A- Hydrogen bonds: D:D.329, C:Y.325, A:Y.325
NA.24: 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.8
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.32: 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.16
3 PLIP interactions:1 interactions with chain D, 1 interactions with chain C, 1 interactions with chain A- Hydrogen bonds: D:D.329, C:Y.325, A:Y.325
- 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 2.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 8 x PO4: PHOSPHATE ION(Non-functional Binders)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 4 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 12 x GOL: GLYCEROL(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