SMTL ID : 3ais.1

Crystal structure of a mutant beta-glucosidase in wheat complexed with DIMBOA-Glc

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-hexamer

Ligands

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

BGC.1: 11 residues within 4Å: Chain A: Q.88, H.190, W.191, N.235, Y.379, E.452, W.500, E.507, W.508, F.516 Ligands: HBK.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.88, A:Q.88, A:H.190, A:N.235 Water bridges: A:N.377 BGC.3: 11 residues within 4Å: Chain B: Q.88, H.190, W.191, N.235, Y.379, E.452, W.500, E.507, W.508, F.516 Ligands: HBK.4 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.88, B:Q.88, B:H.190, B:N.235 Water bridges: B:N.377 BGC.5: 11 residues within 4Å: Chain C: Q.88, H.190, W.191, N.235, Y.379, E.452, W.500, E.507, W.508, F.516 Ligands: HBK.6 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Q.88, C:Q.88, C:H.190, C:N.235 Water bridges: C:N.377 BGC.7: 11 residues within 4Å: Chain D: Q.88, H.190, W.191, N.235, Y.379, E.452, W.500, E.507, W.508, F.516 Ligands: HBK.8 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:Q.88, D:Q.88, D:H.190, D:N.235 Water bridges: D:N.377 BGC.9: 11 residues within 4Å: Chain E: Q.88, H.190, W.191, N.235, Y.379, E.452, W.500, E.507, W.508, F.516 Ligands: HBK.10 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:Q.88, E:Q.88, E:H.190, E:N.235 Water bridges: E:N.377 BGC.11: 11 residues within 4Å: Chain F: Q.88, H.190, W.191, N.235, Y.379, E.452, W.500, E.507, W.508, F.516 Ligands: HBK.12 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:Q.88, F:Q.88, F:H.190, F:N.235 Water bridges: F:N.377

6 x HBK: (2S)-2,4-dihydroxy-7-methoxy-2H-1,4-benzoxazin-3(4H)-one(Non-covalent)

HBK.2: 7 residues within 4Å: Chain A: T.239, F.243, D.307, M.309, Y.423, W.424 Ligands: BGC.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.424 Water bridges: A:H.238, A:T.239 pi-Stacking: A:F.243, A:W.424 HBK.4: 7 residues within 4Å: Chain B: T.239, F.243, D.307, M.309, Y.423, W.424 Ligands: BGC.3 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:W.424 Water bridges: B:H.238, B:T.239 pi-Stacking: B:F.243, B:W.424 HBK.6: 7 residues within 4Å: Chain C: T.239, F.243, D.307, M.309, Y.423, W.424 Ligands: BGC.5 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:W.424 Hydrogen bonds: C:T.239 Water bridges: C:H.238, C:T.239 pi-Stacking: C:F.243, C:W.424 HBK.8: 7 residues within 4Å: Chain D: T.239, F.243, D.307, M.309, Y.423, W.424 Ligands: BGC.7 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:W.424 Hydrogen bonds: D:T.239 Water bridges: D:H.238, D:D.307 pi-Stacking: D:F.243, D:W.424 HBK.10: 7 residues within 4Å: Chain E: T.239, F.243, D.307, M.309, Y.423, W.424 Ligands: BGC.9 6 PLIP interactions: 6 interactions with chain E Hydrophobic interactions: E:W.424 Hydrogen bonds: E:T.239 Water bridges: E:H.238, E:D.307 pi-Stacking: E:F.243, E:W.424 HBK.12: 7 residues within 4Å: Chain F: T.239, F.243, D.307, M.309, Y.423, W.424 Ligands: BGC.11 5 PLIP interactions: 5 interactions with chain F Hydrophobic interactions: F:W.424 Water bridges: F:H.238, F:T.239 pi-Stacking: F:F.243, F:W.424

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sue, M. et al., Active-site architecture of benzoxazinone-glucoside beta-D-glucosidases in Triticeae. Plant Sci. (2011)

Release Date

2011-03-16

Peptides

Beta-glucosidase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Beta-glucosidase