SMTL ID : 1nuy.2 (1 other biounit)

Fructose-1,6-Bisphosphatase Complex with Magnesium, Fructose-6-Phosphate, and Phosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-tetramer

Ligands

4 x F6P: 6-O-phosphono-beta-D-fructofuranose(Non-covalent)

F6P.1: 16 residues within 4Å: Chain A: D.121, G.122, N.212, Y.215, Y.244, G.246, S.247, M.248, Y.264, K.274, L.275, R.276, E.280 Chain B: R.243 Ligands: MG.3, PO4.6 19 PLIP interactions: 17 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.121, A:G.122, A:N.212, A:Y.215, A:Y.244, A:Y.244, A:M.248, A:Y.264, A:K.274, A:R.276, A:E.280 Water bridges: A:S.124, A:S.124, A:S.124, A:Y.215, A:K.274, B:R.243 Salt bridges: A:K.274, B:R.243 F6P.7: 16 residues within 4Å: Chain A: R.243 Chain B: D.121, G.122, N.212, Y.215, Y.244, G.246, S.247, M.248, Y.264, K.274, L.275, R.276, E.280 Ligands: MG.9, PO4.12 19 PLIP interactions: 17 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:D.121, B:G.122, B:N.212, B:Y.215, B:Y.244, B:Y.244, B:M.248, B:Y.264, B:K.274, B:R.276, B:E.280 Water bridges: B:S.124, B:S.124, B:S.124, B:Y.215, B:K.274, A:R.243 Salt bridges: B:K.274, A:R.243 F6P.13: 16 residues within 4Å: Chain C: D.121, G.122, N.212, Y.215, Y.244, G.246, S.247, M.248, Y.264, K.274, L.275, R.276, E.280 Chain D: R.243 Ligands: MG.15, PO4.18 15 PLIP interactions: 13 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:D.121, C:G.122, C:N.212, C:Y.244, C:M.248, C:K.274, C:R.276 Water bridges: C:S.124, C:S.124, C:S.124, C:Y.215, C:K.274, D:R.243 Salt bridges: C:K.274, D:R.243 F6P.19: 16 residues within 4Å: Chain C: R.243 Chain D: D.121, G.122, N.212, Y.215, Y.244, G.246, S.247, M.248, Y.264, K.274, L.275, R.276, E.280 Ligands: MG.21, PO4.24 16 PLIP interactions: 14 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:D.121, D:G.122, D:N.212, D:Y.244, D:M.248, D:K.274, D:R.276, D:E.280 Water bridges: D:S.124, D:S.124, D:S.124, D:Y.215, D:K.274, C:R.243 Salt bridges: D:K.274, C:R.243

12 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 8 residues within 4Å: Chain A: E.97, E.98, D.118, L.120, D.121 Ligands: MG.3, MG.4, PO4.6 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.97, A:D.118, A:L.120, H2O.3 MG.3: 7 residues within 4Å: Chain A: D.118, D.121, R.276, E.280 Ligands: F6P.1, MG.2, PO4.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.118, A:D.121, A:E.280 MG.4: 4 residues within 4Å: Chain A: D.68, E.97 Ligands: MG.2, PO4.6 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.68, A:E.97, H2O.4, H2O.7 MG.8: 8 residues within 4Å: Chain B: E.97, E.98, D.118, L.120, D.121 Ligands: MG.9, MG.10, PO4.12 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.97, B:D.118, B:L.120, H2O.10 MG.9: 7 residues within 4Å: Chain B: D.118, D.121, R.276, E.280 Ligands: F6P.7, MG.8, PO4.12 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.118, B:D.121, B:E.280 MG.10: 4 residues within 4Å: Chain B: D.68, E.97 Ligands: MG.8, PO4.12 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.68, B:E.97, H2O.11, H2O.14 MG.14: 8 residues within 4Å: Chain C: E.97, E.98, D.118, L.120, D.121 Ligands: MG.15, MG.16, PO4.18 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.97, C:D.118, C:L.120, H2O.17 MG.15: 7 residues within 4Å: Chain C: D.118, D.121, R.276, E.280 Ligands: F6P.13, MG.14, PO4.18 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.118, C:D.121, C:E.280 MG.16: 4 residues within 4Å: Chain C: D.68, E.97 Ligands: MG.14, PO4.18 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.68, C:E.97, H2O.18, H2O.21 MG.20: 8 residues within 4Å: Chain D: E.97, E.98, D.118, L.120, D.121 Ligands: MG.21, MG.22, PO4.24 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.97, D:D.118, D:L.120, H2O.24 MG.21: 7 residues within 4Å: Chain D: D.118, D.121, R.276, E.280 Ligands: F6P.19, MG.20, PO4.24 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:D.118, D:D.121, D:E.280 MG.22: 4 residues within 4Å: Chain D: D.68, E.97 Ligands: MG.20, PO4.24 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.68, D:E.97, H2O.24, H2O.28

8 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 7 residues within 4Å: Chain A: G.26, T.27, G.28, E.29, M.30, K.112, Y.113 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.27, A:G.28, A:E.29, A:M.30, A:Y.113 Water bridges: A:T.31 Salt bridges: A:K.112 PO4.6: 14 residues within 4Å: Chain A: D.68, D.74, E.97, D.118, L.120, D.121, G.122, S.123, R.276, E.280 Ligands: F6P.1, MG.2, MG.3, MG.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:L.120, A:G.122, A:S.123 Water bridges: A:E.98, A:S.123, A:S.123 Salt bridges: A:R.276 PO4.11: 7 residues within 4Å: Chain B: G.26, T.27, G.28, E.29, M.30, K.112, Y.113 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.27, B:G.28, B:E.29, B:M.30, B:Y.113 Water bridges: B:T.31 Salt bridges: B:K.112 PO4.12: 14 residues within 4Å: Chain B: D.68, D.74, E.97, D.118, L.120, D.121, G.122, S.123, R.276, E.280 Ligands: F6P.7, MG.8, MG.9, MG.10 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:L.120, B:G.122, B:S.123 Water bridges: B:E.98, B:S.123, B:S.123 Salt bridges: B:R.276 PO4.17: 7 residues within 4Å: Chain C: G.26, T.27, G.28, E.29, M.30, K.112, Y.113 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:T.27, C:G.28, C:E.29, C:M.30 Water bridges: C:T.31 Salt bridges: C:K.112 PO4.18: 14 residues within 4Å: Chain C: D.68, D.74, E.97, D.118, L.120, D.121, G.122, S.123, R.276, E.280 Ligands: F6P.13, MG.14, MG.15, MG.16 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:L.120, C:G.122, C:S.123, C:E.280, C:E.280 Water bridges: C:D.68, C:D.68, C:D.118, C:S.123, C:S.123 Salt bridges: C:R.276 PO4.23: 7 residues within 4Å: Chain D: G.26, T.27, G.28, E.29, M.30, K.112, Y.113 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:T.27, D:G.28, D:E.29, D:M.30 Water bridges: D:T.31 Salt bridges: D:K.112 PO4.24: 14 residues within 4Å: Chain D: D.68, D.74, E.97, D.118, L.120, D.121, G.122, S.123, R.276, E.280 Ligands: F6P.19, MG.20, MG.21, MG.22 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:L.120, D:G.122, D:S.123, D:E.280 Water bridges: D:D.68, D:D.68, D:D.74, D:S.123, D:S.123 Salt bridges: D:R.276

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Choe, J.Y. et al., Metaphosphate in the active site of fructose-1,6-bisphosphatase. J.BIOL.CHEM. (2003)

Release Date

2003-07-08

Peptides

Fructose-1,6-bisphosphatase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Fructose-1,6-bisphosphatase

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