SMTL ID : 5ofu.1

Crystal structure of Leishmania major fructose-1,6-bisphosphatase in T-state.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

homo-tetramer

Ligands

4 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.1: 14 residues within 4Å: Chain A: I.16, S.19, Q.20, P.21, S.24, R.25, G.26, D.27, F.28, T.29, Y.113, R.140, V.166, S.183 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:R.25, A:G.26, A:D.27, A:F.28, A:T.29, A:T.29, A:Y.113, A:Y.113 Water bridges: A:S.19, A:S.19, A:T.29, A:T.29 Salt bridges: A:R.25, A:R.140 AMP.4: 14 residues within 4Å: Chain B: I.16, S.19, Q.20, P.21, S.24, R.25, G.26, D.27, F.28, T.29, Y.113, R.140, V.166, S.183 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:R.25, B:G.26, B:D.27, B:F.28, B:T.29, B:T.29, B:Y.113, B:Y.113 Water bridges: B:T.29, B:T.29 Salt bridges: B:R.25, B:R.140 AMP.6: 13 residues within 4Å: Chain C: I.16, S.19, Q.20, P.21, S.24, R.25, G.26, D.27, F.28, T.29, Y.113, R.140, S.183 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:R.25, C:G.26, C:D.27, C:F.28, C:T.29, C:Y.113, C:Y.113, C:S.183 Water bridges: C:T.29, C:T.29 Salt bridges: C:R.25, C:R.140 AMP.9: 14 residues within 4Å: Chain D: I.16, S.19, Q.20, P.21, S.24, R.25, G.26, D.27, F.28, T.29, Y.113, R.140, V.166, S.183 12 PLIP interactions: 12 interactions with chain D Hydrogen bonds: D:R.25, D:G.26, D:D.27, D:F.28, D:T.29, D:Y.113, D:Y.113, D:S.183 Water bridges: D:S.19, D:S.19 Salt bridges: D:R.25, D:R.140

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

F6P.2: 12 residues within 4Å: Chain A: D.121, G.122, N.218, Y.248, G.250, S.251, M.252, F.266, Y.268, K.278, E.284 Chain B: R.247 11 PLIP interactions: 1 interactions with chain B, 10 interactions with chain A Salt bridges: B:R.247, A:K.278 Hydrogen bonds: A:D.121, A:D.121, A:G.122, A:N.218, A:Y.248, A:M.252, A:Y.268, A:K.278 Water bridges: A:S.123 F6P.5: 12 residues within 4Å: Chain A: R.247 Chain B: D.121, G.122, N.218, Y.248, G.250, S.251, M.252, F.266, Y.268, K.278, E.284 13 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:D.121, B:D.121, B:G.122, B:N.218, B:Y.248, B:M.252, B:K.278 Water bridges: B:K.278, B:E.284, A:S.245, A:R.247 Salt bridges: B:K.278, A:R.247 F6P.7: 12 residues within 4Å: Chain C: D.121, G.122, N.218, Y.248, G.250, S.251, M.252, F.266, Y.268, K.278, E.284 Chain D: R.247 9 PLIP interactions: 1 interactions with chain D, 8 interactions with chain C Salt bridges: D:R.247, C:K.278 Hydrogen bonds: C:D.121, C:G.122, C:N.218, C:Y.248, C:Y.248, C:M.252, C:K.278 F6P.10: 12 residues within 4Å: Chain C: R.247 Chain D: D.121, G.122, N.218, Y.248, G.250, S.251, M.252, F.266, Y.268, K.278, E.284 9 PLIP interactions: 8 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:D.121, D:G.122, D:N.218, D:Y.248, D:M.252, D:Y.268, D:K.278 Salt bridges: D:K.278, C:R.247

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 6 residues within 4Å: Chain A: V.130, S.131, I.249 Chain B: V.130, S.131, I.249 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain C: V.130, S.131, I.249 Chain D: V.130, S.131, I.249 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yuan, M. et al., Structures of Leishmania Fructose-1,6-Bisphosphatase Reveal Species-Specific Differences in the Mechanism of Allosteric Inhibition. J. Mol. Biol. (2017)

Release Date

2017-09-20

Peptides

FBP protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

FBP protein

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