› 5lyr

X-ray diffraction
1.14Å resolution

Structure of the GH99 endo-alpha-mannanase from Bacteroides xylanisolvens in complex with mannose-alpha-1,3-noeuromycin

Released:
DOI: 10.2210/pdb5lyr/pdb
PDB entry 5lyr coloured by chain, front view.
PDB entry 5lyr coloured by chain, side view.
PDB entry 5lyr coloured by chain, top view.
Source organism: Bacteroides xylanisolvens XB1A
Primary publication:
Contribution of Shape and Charge to the Inhibition of a Family GH99 endo-α-1,2-Mannanase.
Petricevic M, Sobala LF, Fernandes PZ, Raich L, Thompson AJ, Bernardo-Seisdedos G, Millet O, Zhu S, Sollogoub M, Jiménez-Barbero J, Rovira C, Davies GJ, Williams SJ
J Am Chem Soc 139 1089-1097 (2017)
PMID: 27992199

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
Structure domains: Glycosidases

Ligands and Environments

3 bound ligands:
Ligand ACT 2 x ACT
Ligand MAN 1 x MAN
Ligand MNM 1 x MNM
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: I4
Unit cell:
a: 108.513Å b: 108.513Å c: 67.607Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.125 0.124 0.143
Expression system: Escherichia coli BL21(DE3)

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Citations

7 citation in other articles

Unraveling the structural and chemical features of biological short hydrogen bonds.
Zhou et al. (2019)
6 more

1 mention without citation

Contribution of Shape and Charge to the Inhibition of a Family GH99 endo-α-1,2-Mannanase.
Petricevic et al. (2017)