SMTL ID : 6jbr.1 (1 other biounit)

Tps1/UDP/T6P complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

homo-tetramer

Ligands

4 x GLC- G6P: 6-O-phosphono-alpha-D-glucopyranose-(1-1)-alpha-D-glucopyranose(Post Translational Modification)

GLC-G6P.1: 20 residues within 4Å: Chain A: R.8, S.27, G.28, G.29, L.30, Y.85, W.94, D.139, Y.140, H.141, H.167, I.237, R.275, R.313, D.374, G.375, M.376, N.377, L.378 Ligands: UDP.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.29, A:L.30, A:Y.85, A:D.139, A:R.313, A:G.29, A:D.374, A:G.375, A:M.376, A:L.378 Water bridges: A:R.8, A:R.8, A:Y.85, A:H.141, A:K.280, A:S.312 Salt bridges: A:R.8, A:R.275, A:R.313 GLC-G6P.2: 21 residues within 4Å: Chain B: R.8, S.27, G.28, G.29, L.30, Y.85, W.94, D.139, Y.140, H.141, H.167, H.198, I.237, R.275, R.313, D.374, G.375, M.376, N.377, L.378 Ligands: UDP.6 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.29, B:L.30, B:Y.85, B:D.139, B:D.139, B:R.313, B:G.29, B:H.167, B:D.374, B:D.374, B:G.375, B:M.376, B:L.378 Water bridges: B:Y.85, B:H.141, B:H.141, B:K.280, B:S.312, B:R.313 Salt bridges: B:R.8, B:R.275, B:R.313 GLC-G6P.3: 22 residues within 4Å: Chain C: R.8, S.27, G.28, G.29, L.30, Y.85, W.94, D.139, Y.140, H.141, H.167, T.168, H.198, I.237, R.275, R.313, D.374, G.375, M.376, N.377, L.378 Ligands: UDP.7 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:G.29, C:D.139, C:D.139, C:R.313, C:H.167, C:R.275, C:D.374, C:G.375, C:M.376, C:L.378 Water bridges: C:R.8, C:L.30, C:Y.85, C:Y.85, C:H.141, C:S.312, C:R.313 Salt bridges: C:R.8, C:R.275, C:R.313 GLC-G6P.4: 21 residues within 4Å: Chain D: R.8, S.27, G.28, G.29, L.30, Y.85, W.94, H.98, D.139, Y.140, H.141, H.167, T.168, R.275, R.313, D.374, G.375, M.376, N.377, L.378 Ligands: UDP.8 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:D.139, D:D.139, D:R.313, D:L.30, D:H.98, D:D.374, D:G.375, D:M.376, D:L.378 Water bridges: D:R.8, D:R.8, D:L.30, D:Y.85, D:H.141 Salt bridges: D:R.8, D:R.275, D:R.313

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

UDP.5: 18 residues within 4Å: Chain A: S.27, G.28, G.29, T.32, V.273, R.275, K.280, V.310, S.351, V.352, L.357, M.376, N.377, L.378, V.379, E.382 Ligands: GLC-G6P.1, GLC-G6P.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.310 Hydrogen bonds: A:G.28, A:G.29, A:V.352, A:L.378, A:V.379, A:E.382 Water bridges: A:T.32, A:K.280, A:K.280, A:N.377 Salt bridges: A:R.275, A:K.280, A:K.280 UDP.6: 18 residues within 4Å: Chain B: S.27, G.28, G.29, T.32, V.273, R.275, K.280, V.310, S.351, V.352, L.357, M.376, N.377, L.378, V.379, E.382 Ligands: GLC-G6P.2, GLC-G6P.2 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:V.310 Hydrogen bonds: B:G.28, B:G.29, B:T.32, B:V.352, B:L.378, B:V.379, B:E.382 Water bridges: B:K.280, B:K.280, B:K.280, B:N.377 Salt bridges: B:R.275, B:K.280, B:K.280 UDP.7: 18 residues within 4Å: Chain C: S.27, G.28, G.29, T.32, V.273, R.275, K.280, V.310, S.351, V.352, L.357, M.376, N.377, L.378, V.379, E.382 Ligands: GLC-G6P.3, GLC-G6P.3 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:V.310 Hydrogen bonds: C:G.28, C:G.29, C:V.352, C:L.378, C:V.379, C:E.382 Water bridges: C:T.32 Salt bridges: C:R.275, C:K.280, C:K.280 UDP.8: 18 residues within 4Å: Chain D: S.27, G.28, G.29, T.32, V.273, R.275, K.280, V.310, S.351, V.352, L.357, M.376, N.377, L.378, V.379, E.382 Ligands: GLC-G6P.4, GLC-G6P.4 14 PLIP interactions: 14 interactions with chain D Hydrophobic interactions: D:V.310 Hydrogen bonds: D:G.28, D:G.29, D:T.32, D:V.352, D:L.378, D:V.379, D:E.382 Water bridges: D:S.27, D:K.280, D:N.377 Salt bridges: D:R.275, D:K.280, D:K.280

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, S. et al., Crystal structures of Magnaporthe oryzae trehalose-6-phosphate synthase (MoTps1) suggest a model for catalytic process of Tps1. Biochem.J. (2019)

Release Date

2019-12-04

Peptides

Trehalose-6-phosphate synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
O

Trehalose-6-phosphate synthase

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