SMTL ID : 5hut.2 (1 other biounit)

Structure of Candida albicans trehalose-6-phosphate synthase in complex with UDP-glucose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

4 x UPG: URIDINE-5'-DIPHOSPHATE-GLUCOSE(Non-covalent)

UPG.1: 24 residues within 4Å: Chain A: W.98, F.169, H.171, T.172, H.202, I.242, V.278, R.280, I.284, K.285, V.313, V.315, S.356, I.357, L.362, Y.366, D.379, G.380, M.381, N.382, L.383, V.384, E.387 Ligands: 1PE.7 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:V.315 Hydrogen bonds: A:H.171, A:H.202, A:K.285, A:I.357, A:G.380, A:M.381, A:N.382, A:L.383, A:V.384, A:E.387, A:E.387 Water bridges: A:R.280, A:D.379 Salt bridges: A:R.280, A:K.285, A:K.285 UPG.9: 18 residues within 4Å: Chain B: G.33, W.98, V.278, R.280, K.285, V.313, V.315, R.318, S.356, I.357, L.362, Y.366, N.382, L.383, V.384, E.387 Ligands: SO4.10, 1PE.15 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:V.278, B:V.315 Hydrogen bonds: B:R.318, B:I.357, B:L.383, B:V.384, B:E.387, B:E.387 Water bridges: B:K.285, B:K.285, B:K.285, B:K.285, B:S.356, B:E.387 Salt bridges: B:R.280, B:R.280, B:K.285, B:K.285 UPG.17: 24 residues within 4Å: Chain C: W.98, F.169, H.171, T.172, H.202, I.242, V.278, R.280, I.284, K.285, V.313, V.315, S.356, I.357, L.362, Y.366, D.379, G.380, M.381, N.382, L.383, V.384, E.387 Ligands: 1PE.23 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:V.315 Hydrogen bonds: C:H.171, C:H.202, C:K.285, C:I.357, C:G.380, C:M.381, C:N.382, C:L.383, C:V.384, C:E.387, C:E.387 Water bridges: C:R.280, C:D.379 Salt bridges: C:R.280, C:K.285, C:K.285 UPG.25: 18 residues within 4Å: Chain D: G.33, W.98, V.278, R.280, K.285, V.313, V.315, R.318, S.356, I.357, L.362, Y.366, N.382, L.383, V.384, E.387 Ligands: SO4.26, 1PE.31 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:V.278, D:V.315 Hydrogen bonds: D:R.318, D:I.357, D:L.383, D:V.384, D:E.387, D:E.387 Water bridges: D:K.285, D:K.285, D:K.285, D:K.285, D:S.356, D:E.387 Salt bridges: D:R.280, D:R.280, D:K.285, D:K.285

16 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: Y.89, R.280, S.317, R.318 Ligand excluded by PLIP SO4.3: 11 residues within 4Å: Chain A: S.176, S.177, E.178, R.208, H.209, S.212, R.216 Chain B: S.176, R.208, H.209 Ligands: SO4.11 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: R.186, K.187, I.217 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: K.266, R.395 Ligand excluded by PLIP SO4.10: 5 residues within 4Å: Chain B: Y.89, R.280, S.317, R.318 Ligands: UPG.9 Ligand excluded by PLIP SO4.11: 11 residues within 4Å: Chain A: S.176, R.208, H.209 Chain B: S.176, S.177, E.178, R.208, H.209, S.212, R.216 Ligands: SO4.3 Ligand excluded by PLIP SO4.12: 2 residues within 4Å: Chain B: K.266, R.395 Ligand excluded by PLIP SO4.13: 3 residues within 4Å: Chain B: R.186, K.187, I.217 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain C: Y.89, R.280, S.317, R.318 Ligand excluded by PLIP SO4.19: 11 residues within 4Å: Chain C: S.176, S.177, E.178, R.208, H.209, S.212, R.216 Chain D: S.176, R.208, H.209 Ligands: SO4.27 Ligand excluded by PLIP SO4.20: 3 residues within 4Å: Chain C: R.186, K.187, I.217 Ligand excluded by PLIP SO4.21: 2 residues within 4Å: Chain C: K.266, R.395 Ligand excluded by PLIP SO4.26: 5 residues within 4Å: Chain D: Y.89, R.280, S.317, R.318 Ligands: UPG.25 Ligand excluded by PLIP SO4.27: 11 residues within 4Å: Chain C: S.176, R.208, H.209 Chain D: S.176, S.177, E.178, R.208, H.209, S.212, R.216 Ligands: SO4.19 Ligand excluded by PLIP SO4.28: 2 residues within 4Å: Chain D: K.266, R.395 Ligand excluded by PLIP SO4.29: 3 residues within 4Å: Chain D: R.186, K.187, I.217 Ligand excluded by PLIP

8 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.6: 8 residues within 4Å: Chain A: S.326, S.329, T.330, E.333 Chain D: S.326, S.329, T.330, E.333 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain A Hydrogen bonds: D:T.330, D:E.333, A:S.329, A:T.330 Water bridges: A:S.326 1PE.7: 11 residues within 4Å: Chain A: S.31, T.36, Q.39, N.248, F.249, I.357, P.358, F.359, L.362, E.387 Ligands: UPG.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.31, A:F.359 Water bridges: A:D.360 1PE.14: 7 residues within 4Å: Chain B: K.270, D.271, V.272, K.273, E.303, W.304, K.307 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.270, B:K.273 1PE.15: 10 residues within 4Å: Chain B: S.31, T.36, N.248, F.249, I.357, P.358, F.359, L.362, E.387 Ligands: UPG.9 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.31, B:N.248, B:F.359 Water bridges: B:D.360, B:E.387, B:E.387 1PE.22: 8 residues within 4Å: Chain B: S.326, S.329, T.330, E.333 Chain C: S.326, S.329, T.330, E.333 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:S.329, C:T.330, B:T.330, B:E.333 Water bridges: C:S.326 1PE.23: 11 residues within 4Å: Chain C: S.31, T.36, Q.39, N.248, F.249, I.357, P.358, F.359, L.362, E.387 Ligands: UPG.17 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.31, C:F.359 Water bridges: C:D.360 1PE.30: 7 residues within 4Å: Chain D: K.270, D.271, V.272, K.273, E.303, W.304, K.307 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.270, D:K.273 1PE.31: 10 residues within 4Å: Chain D: S.31, T.36, N.248, F.249, I.357, P.358, F.359, L.362, E.387 Ligands: UPG.25 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:S.31, D:N.248, D:F.359 Water bridges: D:D.360, D:E.387, D:E.387

4 x NA: SODIUM ION(Non-functional Binders)

NA.8: 5 residues within 4Å: Chain A: F.269, K.270, V.272, K.273, V.274 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.269 NA.16: 5 residues within 4Å: Chain B: F.269, K.270, V.272, K.273, V.274 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.269 NA.24: 5 residues within 4Å: Chain C: F.269, K.270, V.272, K.273, V.274 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:V.272 NA.32: 5 residues within 4Å: Chain D: F.269, K.270, V.272, K.273, V.274 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:V.272

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miao, Y. et al., Structural and In Vivo Studies on Trehalose-6-Phosphate Synthase from Pathogenic Fungi Provide Insights into Its Catalytic Mechanism, Biological Necessity, and Potential for Novel Antifungal Drug Design. MBio (2017)

Release Date

2017-05-03

Peptides

Alpha,alpha-trehalose-phosphate synthase [UDP-forming]: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Alpha,alpha-trehalose-phosphate synthase [UDP-forming]

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