› 6fwo

X-ray diffraction
1.34Å resolution

Structure of an E336Q variant of the GH99 endo-alpha-mannanase from Bacteroides xylanisolvens in complex with alpha-Glc-1,3-1,2-anhydro-mannose hydrolyzed by enzyme

Released:
DOI: 10.2210/pdb6fwo/pdb
PDB entry 6fwo coloured by chain, front view.
PDB entry 6fwo coloured by chain, side view.
PDB entry 6fwo coloured by chain, top view.
Source organism: Bacteroides xylanisolvens XB1A
Primary publication:
An Epoxide Intermediate in Glycosidase Catalysis.
Sobala LF, Speciale G, Zhu S, Raich L, Sannikova N, Thompson AJ, Hakki Z, Lu D, Shamsi Kazem Abadi S, Lewis AR, Rojas-Cervellera V, Bernardo-Seisdedos G, Zhang Y, Millet O, Jiménez-Barbero J, Bennet AJ, Sollogoub M, Rovira C, Davies GJ, Williams SJ
OpenAccess logo ACS Cent Sci 6 760-770 (2020)
PMID: 32490192

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-112767 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glycosyl hydrolase family 71 Chain: A
Molecule details ›
Chain: A
Length: 385 amino acids
Theoretical weight: 43.93 KDa
Source organism: Bacteroides xylanisolvens XB1A
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: D6D1V7 (Residues: 17-380; Coverage: 96%)
Gene name: BXY_34140
Sequence domains: Glycosyl hydrolase family 99

Ligands and Environments

3 bound ligands:
Ligand ACT 2 x ACT
Ligand M96 1 x M96
Ligand GLC 1 x GLC
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: I4
Unit cell:
a: 107.619Å b: 107.619Å c: 67.485Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.128 0.126 0.161
Expression system: Escherichia coli BL21(DE3)

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Citations

3 review citations

Carbohydrate-active enzymes (CAZymes) in the gut microbiome.
Wardman et al. (2022)
2 more