› 6lem

X-ray diffraction
3.19Å resolution

Structure of E. coli beta-glucuronidase complex with C6-nonyl uronic isofagomine

Released:
DOI: 10.2210/pdb6lem/pdb
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PDB entry 6lem coloured by chain, front view.
PDB entry 6lem coloured by chain, side view.
PDB entry 6lem coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Entropy-driven binding of gut bacterial β-glucuronidase inhibitors ameliorates irinotecan-induced toxicity.
Lin HY, Chen CY, Lin TC, Yeh LF, Hsieh WC, Gao S, Burnouf PA, Chen BM, Hsieh TJ, Dashnyam P, Kuo YH, Tu Z, Roffler SR, Lin CH
OpenAccess logo Commun Biol 4 280 (2021)
PMID: 33664385

Function and Biology Details

Reaction catalysed: 
A beta-D-glucuronoside + H(2)O = D-glucuronate + an alcohol
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-138785 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Beta-glucuronidase Chain: A
Molecule details ›
Chain: A
Length: 605 amino acids
Theoretical weight: 68.75 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P05804 (Residues: 1-603; Coverage: 100%)
Gene names: JW1609, b1617, gurA, gusA, uidA
Sequence domains:
Beta-glucuronidase Chain: B
Molecule details ›
Chain: B
Length: 601 amino acids
Theoretical weight: 68.28 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P05804 (Residues: 3-603; Coverage: 100%)
Gene names: JW1609, b1617, gurA, gusA, uidA
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand E9O 2 x E9O
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL13B1
Spacegroup: C2
Unit cell:
a: 168.361Å b: 76.404Å c: 126.4Å
α: 90° β: 124.97° γ: 90°
R-values:
R R work R free
0.217 0.211 0.27
Expression system: Escherichia coli

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Citations

5 review citations

Cancer pharmacomicrobiomics: targeting microbiota to optimise cancer therapy outcomes.
Ting et al. (2022)
4 more

2 mentions without citation

A New Paradigm in the Relationship between Gut Microbiota and Breast Cancer: β-glucuronidase Enzyme Identified as Potential Therapeutic Target.
Fernández-Murga et al. (2023)
1 more

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