SMTL ID : 3zoa.1

The structure of Trehalose Synthase (TreS) of Mycobacterium smegmatis in complex with acarbose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

1 x GLC- GLC- AC1: 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC-AC1.1: 13 residues within 4Å: Chain A: W.476, N.479, M.480, E.553, M.554, T.555, Y.557, F.577, Y.578, W.579 Chain B: R.534, F.535, P.536 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:T.555, A:F.577, A:F.577 Hydrogen bonds: A:N.479, A:E.553, A:M.554, A:W.579, B:R.534, B:R.534, B:R.534 Water bridges: A:E.389, A:E.389, A:F.577

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: N.132, D.200, Y.234, L.235, E.237 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.200, A:Y.234, A:L.235, A:E.237, H2O.5 CA.10: 5 residues within 4Å: Chain B: N.132, D.200, Y.234, L.235, E.237 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.200, B:L.235, B:E.237, H2O.24, H2O.27

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

CL.3: 4 residues within 4Å: Chain A: N.340, H.341, R.374, R.375 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain A: R.228, R.339, D.342, E.343 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain A: L.45, V.46, R.47, F.105 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: K.100, V.101, T.107, V.108 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain B: R.228, F.300, F.337, R.339, D.342, E.343 Ligand excluded by PLIP CL.9: 6 residues within 4Å: Chain B: R.339, N.340, H.341, I.373, R.374, R.375 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain B: L.45, V.46, R.47, F.105 Ligand excluded by PLIP

2 x MG: MAGNESIUM ION(Non-covalent)

MG.7: 5 residues within 4Å: Chain A: D.51, N.53, D.55, I.57, D.59 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.51, A:D.55, A:I.57, A:D.59, H2O.1 MG.12: 5 residues within 4Å: Chain B: D.51, N.53, D.55, I.57, D.59 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.51, B:D.55, B:I.57, B:D.59, H2O.20

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Caner, S. et al., The Structure of the Mycobacterium Smegmatis Trehalose Synthase Reveals an Unusual Active Site Configuration and Acarbose-Binding Mode. Glycobiology (2013)

Release Date

2013-07-17

Peptides

TREHALOSE SYNTHASE/AMYLASE TRES: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

TREHALOSE SYNTHASE/AMYLASE TRES

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