SMTL ID : 6sz6.1

Chaetomium thermophilum beta-glucosidase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.99 Å

Oligo State

monomer

Ligands

3 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 12 residues within 4Å: Chain A: L.37, E.38, N.41, G.58, A.59, P.61, H.345, F.677, H.678, Y.683, Y.685, Y.687 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.683 NAG-NAG-BMA.2: 14 residues within 4Å: Chain A: T.3, S.4, E.5, I.196, D.197, D.198, V.227, N.228, N.235, K.237, V.806, T.807, Q.809 Ligands: BMA.11 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:D.197 Hydrogen bonds: A:D.197, A:D.198, A:K.237 NAG-NAG-BMA.7: 3 residues within 4Å: Chain A: Y.673, R.679, N.689 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.3: 10 residues within 4Å: Chain A: L.285, S.286, F.287, A.290, N.291, S.697, G.698, D.699, P.700 Ligands: NAG-NAG-BMA-MAN.4 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.285 NAG-NAG.6: 7 residues within 4Å: Chain A: A.515, S.516, W.517, C.518, S.519, H.539, N.541 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.4: 19 residues within 4Å: Chain A: T.262, G.263, V.264, F.287, N.291, V.294, A.295, N.298, T.300, S.697, D.699, Y.701, Y.702, G.703, Q.704, T.705, F.709 Ligands: NAG-NAG.3, MAN-MAN-MAN.5 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:T.262, A:T.262, A:G.263, A:V.264, A:D.699, A:D.699, A:G.703, A:Q.704, A:Q.704 Hydrophobic interactions: A:N.291

1 x MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose

MAN-MAN-MAN.5: 13 residues within 4Å: Chain A: S.4, E.5, P.6, Y.8, S.230, H.234, T.262, A.265, F.709, L.710, P.711 Ligands: NAG-NAG-BMA-MAN.4, MAN.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.5, A:N.229

1 x MAN: alpha-D-mannopyranose(Non-covalent)

MAN.8: 3 residues within 4Å: Chain A: E.190, H.261 Ligands: MAN-MAN-MAN.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.190

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Post Translational Modification)

NAG.9: 6 residues within 4Å: Chain A: D.492, N.494, N.500, W.504, N.505 Ligands: BMA.10 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.494, A:N.494, A:N.500, A:N.505 NAG.12: 3 residues within 4Å: Chain A: N.667, S.669, D.670 No protein-ligand interaction detected (PLIP) NAG.13: 2 residues within 4Å: Chain A: D.472, N.473 No protein-ligand interaction detected (PLIP) NAG.14: 2 residues within 4Å: Chain A: P.712, N.713 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.712 Hydrogen bonds: A:N.713

2 x BMA: beta-D-mannopyranose(Non-covalent)

BMA.10: 3 residues within 4Å: Chain A: D.492, N.505 Ligands: NAG.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.492, A:N.505 BMA.11: 4 residues within 4Å: Chain A: T.807, L.808, Q.809 Ligands: NAG-NAG-BMA.2 No protein-ligand interaction detected (PLIP)

1 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.15: 12 residues within 4Å: Chain A: V.54, D.72, R.78, L.121, R.136, K.169, H.170, Y.224, D.256, W.257, S.427, E.486 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:R.78, A:R.136, A:R.136, A:K.169, A:K.169, A:H.170, A:Y.224, A:S.427, A:E.486

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mohsin, I. et al., Crystal Structure of a GH3 beta-Glucosidase from the Thermophilic Fungus Chaetomium thermophilum . Int J Mol Sci (2019)

Release Date

2019-12-11

Peptides

Beta-glucosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-glucosidase