SMTL ID : 1yz0.1

R-State AMP Complex Reveals Initial Steps of the Quaternary Transition of Fructose-1,6-bisphosphatase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

homo-tetramer

Ligands

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

F6P.1: 14 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, E.280 Chain B: R.243 Ligands: MG.2 18 PLIP interactions: 4 interactions with chain B, 14 interactions with chain A Water bridges: B:R.243, B:R.243, B:R.243, A:Y.215, A:V.249, A:K.274, A:K.274, A:E.280 Salt bridges: B:R.243, A:K.274 Hydrogen bonds: A:D.121, A:D.121, A:G.122, A:N.212, A:Y.215, A:Y.244, A:M.248, A:K.274 F6P.4: 14 residues within 4Å: Chain A: R.243 Chain B: D.121, S.123, N.212, Y.215, Y.244, G.246, S.247, M.248, Y.264, K.274, L.275, E.280 Ligands: MG.5 16 PLIP interactions: 12 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:D.121, B:S.123, B:N.212, B:Y.244, B:M.248, B:Y.264, B:Y.264, B:K.274 Water bridges: B:Y.215, B:Y.215, B:V.249, A:R.243, A:R.243, A:R.243 Salt bridges: B:K.274, A:R.243 F6P.7: 14 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, E.280 Chain D: R.243 Ligands: MG.8 18 PLIP interactions: 14 interactions with chain C, 4 interactions with chain D Hydrogen bonds: C:D.121, C:D.121, C:G.122, C:N.212, C:Y.215, C:Y.244, C:M.248, C:K.274 Water bridges: C:Y.215, C:V.249, C:K.274, C:K.274, C:E.280, D:R.243, D:R.243, D:R.243 Salt bridges: C:K.274, D:R.243 F6P.10: 14 residues within 4Å: Chain C: R.243 Chain D: D.121, S.123, N.212, Y.215, Y.244, G.246, S.247, M.248, Y.264, K.274, L.275, E.280 Ligands: MG.11 16 PLIP interactions: 12 interactions with chain D, 4 interactions with chain C Hydrogen bonds: D:D.121, D:S.123, D:N.212, D:Y.244, D:M.248, D:Y.264, D:Y.264, D:K.274 Water bridges: D:Y.215, D:Y.215, D:V.249, C:R.243, C:R.243, C:R.243 Salt bridges: D:K.274, C:R.243

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: E.97, D.118, D.121, E.280 Ligands: F6P.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.97, A:D.118, A:D.121, A:E.280 MG.5: 5 residues within 4Å: Chain B: E.97, D.118, D.121, E.280 Ligands: F6P.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.97, B:D.118, B:D.121, B:E.280 MG.8: 5 residues within 4Å: Chain C: E.97, D.118, D.121, E.280 Ligands: F6P.7 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.97, C:D.118, C:D.121, C:E.280 MG.11: 5 residues within 4Å: Chain D: E.97, D.118, D.121, E.280 Ligands: F6P.10 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.97, D:D.118, D:D.121, D:E.280

4 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.3: 15 residues within 4Å: Chain A: V.17, E.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:G.28, A:E.29, A:E.29, A:M.30, A:T.31, A:Y.113, A:Y.113, A:R.140 Water bridges: A:T.27, A:T.31, A:T.31, A:K.112 Salt bridges: A:K.112 AMP.6: 14 residues within 4Å: Chain B: V.17, E.20, G.21, A.24, G.26, T.27, G.28, E.29, M.30, T.31, K.112, Y.113, R.140, M.177 15 PLIP interactions: 15 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:Y.113, B:Y.113, B:R.140 Water bridges: B:T.31, B:T.31, B:N.179 Salt bridges: B:K.112 AMP.9: 15 residues within 4Å: Chain C: V.17, E.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:G.28, C:E.29, C:E.29, C:M.30, C:T.31, C:Y.113, C:Y.113, C:R.140 Water bridges: C:T.27, C:T.31, C:T.31, C:K.112 Salt bridges: C:K.112 AMP.12: 14 residues within 4Å: Chain D: V.17, E.20, G.21, A.24, G.26, T.27, G.28, E.29, M.30, T.31, K.112, Y.113, R.140, M.177 15 PLIP interactions: 15 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:Y.113, D:Y.113, D:R.140 Water bridges: D:T.31, D:T.31, D:N.179 Salt bridges: D:K.112

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iancu, C.V. et al., R-state AMP complex reveals initial steps of the quaternary transition of fructose-1,6-bisphosphatase. J.Biol.Chem. (2005)

Release Date

2005-03-22

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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