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Ligand · B9D

B9D · 5-fluoro-alpha-L-idopyranose

B9D, 5-fluoro-alpha-L-idopyranose (C6 H11 F O6, 198.2 g/mol), in the MolNFT structures on GenesisL1: bound in 11 records (6 PDB entries). Every binding site with its residues within 4.5 Å, the residues it binds most and the ligands found…

Component
B9D
Formula
C6 H11 F O6
Class
sugar
Structures
11
PDB entries
6

Binding sites

B9D in 11 structures; the first of them:

  • 3IJ7 · Directed 'in situ' Elongation as a Strategy to Characterize the Covalent Glycosyl-Enzyme… · B9D B1 · binds TRP58, TYR62, HIS101, LEU162, LEU165, ARG195, ASP197, ALA198 and 3 more
  • 3IJ8 · Directed 'in situ' Elongation as a Strategy to Characterize the Covalent Glycosyl-Enzyme… · B9D A504 · binds TRP58, TYR62, HIS101, LEU162, LEU165, ARG195, ASP197, ALA198 and 3 more
  • 3IJ9 · Directed 'in situ' Elongation as a Strategy to Characterize the Covalent Glycosyl-Enzyme… · B9D B1 · binds TRP58, TYR62, HIS101, LEU162, LEU165, ARG195, ASP197, ALA198 and 3 more
  • 4AMW · CRYSTAL STRUCTURE OF THE GRACILARIOPSIS LEMANEIFORMIS ALPHA-1,4- GLUCAN LYASE Covalent… · B9D A1039 · binds PHE373, ASP412, VAL413, ASN459, TYR513, TRP551, ASP553, MET554 and 5 more
  • 5AEG · A bacterial protein structure in glycoside hydrolase family 31. · B9D B1681 · binds GLN288, ARG301, TYR333, MET403, ASP405, PHE406, ARG455, TRP469 and 3 more
  • 3IJ7 · Directed 'in situ' elongation as a strategy to characterize the covalent glycosyl-enzyme… · B9D B1 · binds TRP58, TYR62, HIS101, LEU162, LEU165, ARG195, ASP197, ALA198 and 3 more
  • 3IJ8 · Directed 'in situ' elongation as a strategy to characterize the covalent glycosyl-enzyme… · B9D A504 · binds TRP58, TYR62, HIS101, LEU162, LEU165, ARG195, ASP197, ALA198 and 3 more
  • 3IJ9 · Directed 'in situ' elongation as a strategy to characterize the covalent glycosyl-enzyme… · B9D B1 · binds TRP58, TYR62, HIS101, LEU162, LEU165, ARG195, ASP197, ALA198 and 3 more
  • 4AMW · Crystal structure of the gracilariopsis lemaneiformis alpha-1,4- glucan lyase covalent… · B9D A1039 · binds PHE373, ASP412, VAL413, ASN459, TYR513, TRP551, ASP553, MET554 and 5 more
  • 5AEG · A bacterial protein structure in glycoside hydrolase family 31. · B9D B1681 · binds GLN288, ARG301, TYR333, MET403, ASP405, PHE406, ARG455, TRP469 and 3 more
  • 5JOV · Bacteroides ovatus xyloglucan pul GH31 with bound 5FIDOF · B9D A1008 · binds GLU413, ASP441, TRP442, TRP482, TRP551, ASP553, ARG613, TRP627 and 3 more

Residues it binds most

ASP 15, TRP 15, HIS 15, ARG 15, TYR 14, PHE 9, LEU 6, MET 8, GLU 7, ALA 6 (residue and the binding sites it lines).

Found with

  • CA · Calcium ion
  • CL · Chloride ion
  • B0D · (2R,3S,4R,5R,6R)-2,6-difluoro-2-(hydroxymethyl)tetrahydro-2H-pyran-3,4,5-triol
  • BGC · beta-D-glucopyranose
  • GLF · alpha-D-glucopyranosyl fluoride
  • 5DI · alpha-D-threo-hexo-2,5-diulo-2,6-pyranosyl fluoride
  • B8D · 4-O-methyl-alpha-D-glucopyranose
  • GOL · Glycerol
  • MPD · (4S)-2-methyl-2,4-pentanediol
  • NI · Nickel (II) ion
  • EDO · 1,2-ethanediol
  • EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid

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