SMTL ID : 6qwi.1

Structure of beta-glucosidase A from Paenibacillus polymyxa complexed with multivalent inhibitors.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

homo-octamer

Ligands

8 x JJW: (2~{S},3~{S},4~{R})-2-[[4-[4-(2-ethoxyethoxy)phenyl]-1,2,3-triazol-1-yl]methyl]pyrrolidine-3,4-diol(Non-covalent)

JJW.1: 12 residues within 4Å: Chain A: Q.20, H.121, W.122, N.165, E.166, L.173, Y.296, W.326, E.352, W.398, E.405, W.406 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.173 Hydrogen bonds: A:Q.20, A:H.121, A:E.166, A:E.405 pi-Stacking: A:W.326 JJW.2: 12 residues within 4Å: Chain B: Q.20, H.121, W.122, N.165, E.166, L.173, Y.296, W.326, E.352, W.398, E.405, W.406 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Q.20, B:H.121, B:E.166, B:Y.296, B:E.405 Water bridges: B:N.222 pi-Stacking: B:W.326 JJW.3: 12 residues within 4Å: Chain C: Q.20, H.121, W.122, N.165, E.166, L.173, Y.296, W.326, E.352, W.398, E.405, W.406 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:L.173 Hydrogen bonds: C:Q.20, C:H.121, C:E.166, C:E.405 pi-Stacking: C:W.326 JJW.4: 12 residues within 4Å: Chain D: Q.20, H.121, W.122, N.165, E.166, L.173, Y.296, W.326, E.352, W.398, E.405, W.406 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:Q.20, D:H.121, D:E.166, D:Y.296, D:E.405 Water bridges: D:N.222 pi-Stacking: D:W.326 JJW.5: 12 residues within 4Å: Chain E: Q.20, H.121, W.122, N.165, E.166, L.173, Y.296, W.326, E.352, W.398, E.405, W.406 6 PLIP interactions: 6 interactions with chain E Hydrophobic interactions: E:L.173 Hydrogen bonds: E:Q.20, E:H.121, E:E.166, E:E.405 pi-Stacking: E:W.326 JJW.6: 12 residues within 4Å: Chain F: Q.20, H.121, W.122, N.165, E.166, L.173, Y.296, W.326, E.352, W.398, E.405, W.406 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:Q.20, F:H.121, F:E.166, F:Y.296, F:E.405 Water bridges: F:N.222 pi-Stacking: F:W.326 JJW.7: 12 residues within 4Å: Chain G: Q.20, H.121, W.122, N.165, E.166, L.173, Y.296, W.326, E.352, W.398, E.405, W.406 6 PLIP interactions: 6 interactions with chain G Hydrophobic interactions: G:L.173 Hydrogen bonds: G:Q.20, G:H.121, G:E.166, G:E.405 pi-Stacking: G:W.326 JJW.8: 12 residues within 4Å: Chain H: Q.20, H.121, W.122, N.165, E.166, L.173, Y.296, W.326, E.352, W.398, E.405, W.406 7 PLIP interactions: 7 interactions with chain H Hydrogen bonds: H:Q.20, H:H.121, H:E.166, H:Y.296, H:E.405 Water bridges: H:N.222 pi-Stacking: H:W.326

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Martinez-Bailen, M. et al., Structural basis of the inhibition of GH1 beta-glucosidases by multivalent pyrrolidine iminosugars. Bioorg.Chem. (2019)

Release Date

2019-07-03

Peptides

Beta-glucosidase A: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

Beta-glucosidase A

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