SMTL ID : 1e4i.1

2-deoxy-2-fluoro-beta-D-glucosyl/enzyme intermediate complex of the beta-glucosidase from Bacillus polymyxa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-octamer

Ligands

8 x G2F: 2-deoxy-2-fluoro-alpha-D-glucopyranose(Post Translational Modification)

G2F.1: 12 residues within 4Å: Chain A: Q.19, H.120, N.164, E.165, N.293, Y.295, W.325, E.351, W.397, E.404, W.405, F.413 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.19, A:H.120, A:W.405 Water bridges: A:N.402 Halogen bonds: A:N.164 G2F.3: 12 residues within 4Å: Chain B: Q.19, H.120, N.164, E.165, N.293, Y.295, W.325, E.351, W.397, E.404, W.405, F.413 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.19, B:H.120, B:W.405 Water bridges: B:N.402 Halogen bonds: B:N.164 G2F.5: 12 residues within 4Å: Chain C: Q.19, H.120, N.164, E.165, N.293, Y.295, W.325, E.351, W.397, E.404, W.405, F.413 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Q.19, C:H.120, C:W.405 Water bridges: C:N.402 Halogen bonds: C:N.164 G2F.7: 12 residues within 4Å: Chain D: Q.19, H.120, N.164, E.165, N.293, Y.295, W.325, E.351, W.397, E.404, W.405, F.413 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:Q.19, D:H.120, D:W.405 Water bridges: D:N.402 Halogen bonds: D:N.164 G2F.9: 12 residues within 4Å: Chain E: Q.19, H.120, N.164, E.165, N.293, Y.295, W.325, E.351, W.397, E.404, W.405, F.413 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:Q.19, E:H.120, E:Y.295, E:W.405 Water bridges: E:N.402 Halogen bonds: E:N.164 G2F.11: 12 residues within 4Å: Chain F: Q.19, H.120, N.164, E.165, N.293, Y.295, W.325, E.351, W.397, E.404, W.405, F.413 6 PLIP interactions: 6 interactions with chain F Hydrogen bonds: F:Q.19, F:H.120, F:Y.295, F:W.405 Water bridges: F:N.402 Halogen bonds: F:N.164 G2F.13: 12 residues within 4Å: Chain G: Q.19, H.120, N.164, E.165, N.293, Y.295, W.325, E.351, W.397, E.404, W.405, F.413 6 PLIP interactions: 6 interactions with chain G Hydrogen bonds: G:Q.19, G:H.120, G:Y.295, G:W.405 Water bridges: G:N.402 Halogen bonds: G:N.164 G2F.15: 12 residues within 4Å: Chain H: Q.19, H.120, N.164, E.165, N.293, Y.295, W.325, E.351, W.397, E.404, W.405, F.413 6 PLIP interactions: 6 interactions with chain H Hydrogen bonds: H:Q.19, H:H.120, H:Y.295, H:W.405 Water bridges: H:N.402 Halogen bonds: H:N.164

8 x NFG: 2,4-dinitrophenyl 2-deoxy-2-fluoro-beta-D-glucopyranoside(Non-covalent)

NFG.2: 5 residues within 4Å: Chain A: R.136, R.137, Q.140, V.143, L.202 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Q.140 Hydrogen bonds: A:R.136, A:R.136, A:Q.140 NFG.4: 5 residues within 4Å: Chain B: R.136, R.137, Q.140, V.143, L.202 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Q.140 Hydrogen bonds: B:R.136, B:R.136, B:Q.140 NFG.6: 5 residues within 4Å: Chain C: R.136, R.137, Q.140, V.143, L.202 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:Q.140 Hydrogen bonds: C:R.136, C:R.136, C:Q.140 NFG.8: 5 residues within 4Å: Chain D: R.136, R.137, Q.140, V.143, L.202 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:Q.140 Hydrogen bonds: D:R.136, D:R.136, D:Q.140 NFG.10: 5 residues within 4Å: Chain E: R.136, R.137, Q.140, V.143, L.202 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:Q.140 Hydrogen bonds: E:R.136, E:R.136, E:Q.140 NFG.12: 5 residues within 4Å: Chain F: R.136, R.137, Q.140, V.143, L.202 4 PLIP interactions: 4 interactions with chain F Hydrophobic interactions: F:Q.140 Hydrogen bonds: F:R.136, F:R.136, F:Q.140 NFG.14: 5 residues within 4Å: Chain G: R.136, R.137, Q.140, V.143, L.202 4 PLIP interactions: 4 interactions with chain G Hydrophobic interactions: G:Q.140 Hydrogen bonds: G:R.136, G:R.136, G:Q.140 NFG.16: 5 residues within 4Å: Chain H: R.136, R.137, Q.140, V.143, L.202 4 PLIP interactions: 4 interactions with chain H Hydrophobic interactions: H:Q.140 Hydrogen bonds: H:R.136, H:R.136, H:Q.140

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sanz-Aparicio, J. et al., Structural Basis of Increased Resistance to Thermal Denaturation Induced by Single Amino Acid Substitution in the Sequence of Beta-Glucosidase a from Bacillus Polymyxa. Proteins: Struct.,Funct., Genet. (1998)

Release Date

2001-07-05

Peptides

BETA-GLUCOSIDASE: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

BETA-GLUCOSIDASE