SMTL ID : 1fpd.1

STRUCTURAL ASPECTS OF THE ALLOSTERIC INHIBITION OF FRUCTOSE-1,6-BISPHOSPHATASE BY AMP: THE BINDING OF BOTH THE SUBSTRATE ANALOGUE 2,5-ANHYDRO-D-GLUCITOL-1,6-BISPHOSPHATE AND CATALYTIC METAL IONS MONITORED BY X-RAY CRYSTALLOGRAPHY

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-tetramer

Ligands

8 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 7 residues within 4Å: Chain A: E.97, D.118, D.121, G.122, R.276, E.280 Ligands: AHG.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:E.97, A:D.118, A:D.121, A:E.280, AHG.3 MN.2: 5 residues within 4Å: Chain A: E.97, E.98, D.118, L.120, S.123 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.97, A:D.118, A:L.120 MN.5: 7 residues within 4Å: Chain B: E.97, D.118, D.121, G.122, R.276, E.280 Ligands: AHG.7 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:E.97, B:D.118, B:D.121, B:E.280, AHG.7 MN.6: 5 residues within 4Å: Chain B: E.97, E.98, D.118, L.120, S.123 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.97, B:E.98, B:D.118, B:L.120, H2O.5 MN.9: 7 residues within 4Å: Chain C: E.97, D.118, D.121, G.122, R.276, E.280 Ligands: AHG.11 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Ligand interactions Metal complexes: C:E.97, C:D.118, C:D.121, C:E.280, AHG.11 MN.10: 5 residues within 4Å: Chain C: E.97, E.98, D.118, L.120, S.123 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.97, C:D.118, C:L.120 MN.13: 7 residues within 4Å: Chain D: E.97, D.118, D.121, G.122, R.276, E.280 Ligands: AHG.15 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Ligand interactions Metal complexes: D:E.97, D:D.118, D:D.121, D:E.280, AHG.15 MN.14: 5 residues within 4Å: Chain D: E.97, E.98, D.118, L.120, S.123 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.97, D:E.98, D:D.118, D:L.120, H2O.11

4 x AHG: 2,5-anhydro-1,6-di-O-phosphono-D-glucitol(Non-covalent)

AHG.3: 19 residues within 4Å: Chain A: E.97, D.121, G.122, S.123, S.124, N.212, Y.215, Y.244, G.246, S.247, M.248, V.249, F.262, Y.264, K.274, L.275, R.276 Chain B: R.243 Ligands: MN.1 14 PLIP interactions: 11 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:D.121, A:G.122, A:N.212, A:Y.215, A:M.248, A:K.274 Water bridges: A:Y.244, A:G.246, B:R.243, B:R.243 Salt bridges: A:K.274, A:K.274, A:R.276, B:R.243 AHG.7: 18 residues within 4Å: Chain A: R.243 Chain B: E.97, D.121, G.122, S.123, S.124, N.212, Y.215, Y.244, G.246, S.247, M.248, F.262, Y.264, K.274, L.275, R.276 Ligands: MN.5 14 PLIP interactions: 11 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:D.121, B:G.122, B:S.123, B:S.124, B:N.212, B:Y.215, B:M.248, B:K.274, B:R.276 Salt bridges: B:K.274, B:K.274, A:R.243 Water bridges: A:R.243, A:R.243 AHG.11: 19 residues within 4Å: Chain C: E.97, D.121, G.122, S.123, S.124, N.212, Y.215, Y.244, G.246, S.247, M.248, V.249, F.262, Y.264, K.274, L.275, R.276 Chain D: R.243 Ligands: MN.9 14 PLIP interactions: 11 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:D.121, C:G.122, C:N.212, C:Y.215, C:M.248, C:K.274 Water bridges: C:Y.244, C:G.246, D:R.243, D:R.243 Salt bridges: C:K.274, C:K.274, C:R.276, D:R.243 AHG.15: 18 residues within 4Å: Chain C: R.243 Chain D: E.97, D.121, G.122, S.123, S.124, N.212, Y.215, Y.244, G.246, S.247, M.248, F.262, Y.264, K.274, L.275, R.276 Ligands: MN.13 14 PLIP interactions: 11 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:D.121, D:G.122, D:S.123, D:S.124, D:N.212, D:Y.215, D:M.248, D:K.274, D:R.276 Salt bridges: D:K.274, D:K.274, C:R.243 Water bridges: C:R.243, C:R.243

4 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.4: 15 residues within 4Å: Chain A: V.17, Q.20, G.21, A.24, G.26, T.27, G.28, E.29, M.30, T.31, K.112, Y.113, R.140, V.160, M.177 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:T.27, A:T.27, A:T.27, A:G.28, A:E.29, A:M.30, A:T.31, A:T.31, A:Y.113, A:Y.113 Water bridges: A:T.27, A:T.27, A:T.31, A:T.31 Salt bridges: A:K.112 AMP.8: 15 residues within 4Å: Chain B: V.17, Q.20, G.21, A.24, G.26, T.27, G.28, E.29, M.30, T.31, K.112, Y.113, R.140, V.160, M.177 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:T.27, B:T.27, B:G.28, B:E.29, B:E.29, B:E.29, B:M.30, B:T.31, B:T.31, B:Y.113, B:Y.113, B:R.140, B:R.140 Water bridges: B:T.31, B:T.31 Salt bridges: B:K.112 AMP.12: 15 residues within 4Å: Chain C: V.17, Q.20, G.21, A.24, G.26, T.27, G.28, E.29, M.30, T.31, K.112, Y.113, R.140, V.160, M.177 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:T.27, C:T.27, C:T.27, C:G.28, C:E.29, C:M.30, C:T.31, C:T.31, C:Y.113, C:Y.113 Water bridges: C:T.27, C:T.27, C:T.31, C:T.31 Salt bridges: C:K.112 AMP.16: 15 residues within 4Å: Chain D: V.17, Q.20, G.21, A.24, G.26, T.27, G.28, E.29, M.30, T.31, K.112, Y.113, R.140, V.160, M.177 16 PLIP interactions: 16 interactions with chain D Hydrogen bonds: D:T.27, D:T.27, D:G.28, D:E.29, D:E.29, D:E.29, D:M.30, D:T.31, D:T.31, D:Y.113, D:Y.113, D:R.140, D:R.140 Water bridges: D:T.31, D:T.31 Salt bridges: D:K.112

Links

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Citation

Villeret, V. et al., Structural aspects of the allosteric inhibition of fructose-1,6-bisphosphatase by AMP: the binding of both the substrate analogue 2,5-anhydro-D-glucitol 1,6-bisphosphate and catalytic metal ions monitored by X-ray crystallography. Biochemistry (1995)

Release Date

1995-02-27

Peptides

FRUCTOSE 1,6-BISPHOSPHATASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

FRUCTOSE 1,6-BISPHOSPHATASE

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