› 5fks

X-ray diffraction
1.99Å resolution

Unraveling the first step of xyloglucan degradation by the soil saprophyte Cellvibrio japonicus through the functional and structural characterization of a potent GH74 endo-xyloglucanase

Released:
DOI: 10.2210/pdb5fks/pdb
PDB entry 5fks coloured by chain, front view.
PDB entry 5fks coloured by chain, side view.
PDB entry 5fks coloured by chain, top view.
Source organism: Cellvibrio japonicus Ueda107
Primary publication:
Functional and structural characterization of a potent GH74 endo-xyloglucanase from the soil saprophyte Cellvibrio japonicus unravels the first step of xyloglucan degradation.
Attia M, Stepper J, Davies GJ, Brumer H
FEBS J 283 1701-19 (2016)
PMID: 26929175

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-109896 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Endo-1,4-beta-glucanase/xyloglucanase, putative, gly74A Chain: A
Molecule details ›
Chain: A
Length: 731 amino acids
Theoretical weight: 78.28 KDa
Source organism: Cellvibrio japonicus Ueda107
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: B3PKK9 (Residues: 35-765; Coverage: 74%)
Gene names: CJA_2477, gly74A
Structure domains: YVTN repeat-like/Quinoprotein amine dehydrogenase

Ligands and Environments

Carbohydrate polymer : NEW Components: BGC, XYS, GAL
Carbohydrate polymer
Carbohydrate polymer : NEW Components: BGC, XYS, GAL
Carbohydrate polymer
3 bound ligands:
Ligand BR 1 x BR
Ligand EDO 1 x EDO
Ligand K 2 x K
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P21212
Unit cell:
a: 89.36Å b: 127.69Å c: 73.28Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.17 0.168 0.213
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

Polysaccharide Utilization Loci: Fueling Microbial Communities.
Grondin et al. (2017)
4 more

1 mention without citation

Functional and structural characterization of a potent GH74 endo-xyloglucanase from the soil saprophyte Cellvibrio japonicus unravels the first step of xyloglucan degradation.
Attia et al. (2016)