SMTL ID : 7dkw.1 (1 other biounit)

Crystal structure of TxGH116 E441G nucleophile mutant from Thermoanaerobacterium xylanolyticum with autocondensation products from alpha-fluoroglucoside.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

monomer

Ligands

1 x BGC- BGC- BGC- BGC: beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose

BGC-BGC-BGC-BGC.1: 10 residues within 4Å: Chain A: K.46, Y.47, Y.430, Y.508, W.510, D.578, T.579, Q.712, R.771 Ligands: GOL.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:D.578, A:Q.712, A:R.771 Water bridges: A:Y.432, A:W.510, A:T.579, A:R.771, A:R.771

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 11 residues within 4Å: Chain A: Y.430, T.435, D.437, H.492, W.516, T.576, D.578, W.717, Y.775, R.777 Ligands: BGC-BGC-BGC-BGC.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.492, A:T.576, A:Y.775, A:Y.775, A:R.777 Water bridges: A:E.762 GOL.3: 7 residues within 4Å: Chain A: Y.170, W.406, N.419, N.420, D.452, I.453, Q.456 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.406, A:N.419, A:N.420 GOL.4: 3 residues within 4Å: Chain A: K.550, T.551, D.554 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.554, A:D.554

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 5 residues within 4Å: Chain A: D.560, D.562, D.564, I.566, D.568 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.560, A:D.562, A:D.564, A:I.566, A:D.568

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pengthaisong, S. et al., Structural basis for transglycosylation in glycoside hydrolase family GH116 glycosynthases. Arch.Biochem.Biophys. (2021)

Release Date

2021-06-23

Peptides

beta-glucosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

beta-glucosidase

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