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Structure paper

TitleThe Swiss Army Knife of Alginate Metabolism: Mechanistic Analysis of a Mixed-Function Polysaccharide Lyase/Epimerase of the Human Gut Microbiota.
Journal, issue, pagesJ. Am. Chem. Soc., Vol. 147, Page 23594-23607, Year 2025
Publish dateMay 28, 2024 (structure data deposition date)
AuthorsTandrup, T. / Rivas-Fernandez, J.P. / Madsen, M. / Ronne, M.E. / B Petersen, A. / Klau, L.J. / Tondervik, A. / Wilkens, C. / Aachmann, F.L. / Rovira, C. / Svensson, B.
External linksJ. Am. Chem. Soc. / PubMed:40570315
MethodsX-ray diffraction
Resolution1.76 - 2.57 Å
Structure data

PDB-9fht:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) wild type in complex hexaguluronic acid at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 2.05 Å

PDB-9fhu:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) wild type in complex hexamannuluronic acid at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 2.09 Å

PDB-9fhv:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) wild type in complex pentasaccharide (ManGul)3 at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 2.34 Å

PDB-9fhw:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) wild type in complex tetraguluronic acid at pH 8
Method: X-RAY DIFFRACTION / Resolution: 2.54 Å

PDB-9fhx:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) wild type in complex tetramannuronic acid at pH 8
Method: X-RAY DIFFRACTION / Resolution: 2.12 Å

PDB-9fhy:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) wild type in complex with an unsaturated mannuronic acid tetramer at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 1.76 Å

PDB-9fhz:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) wild type in complex unsaturated guluronic acid tetramer at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 1.88 Å

PDB-9fi0:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) mutant D108N
Method: X-RAY DIFFRACTION / Resolution: 1.86 Å

PDB-9fi1:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) mutant H297N at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 2.36 Å

PDB-9fi2:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) mutant N242A at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 2.57 Å

PDB-9fi3:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) mutant Q173N in complex with tetraguluronic acid at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 1.99 Å

PDB-9fi4:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) mutant Q173N at pH 8
Method: X-RAY DIFFRACTION / Resolution: 2.47 Å

PDB-9fi5:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) mutant Y298F in complex tetramannuronic acid at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 2.37 Å

PDB-9fi6:
Bacteroides ovatus polysaccharide lyase family 38 (BoPL38) mutant Y91F+Y298F in complex with tetramannuronic acid at pH 3.5
Method: X-RAY DIFFRACTION / Resolution: 2.18 Å

Chemicals

ChemComp-SO4:
SULFATE ION

ChemComp-HOH:
WATER

ChemComp-GOL:
GLYCEROL

Source
  • bacteroides ovatus (bacteria)
KeywordsLYASE / polysaccharide lyase / complex / alginate / mutant

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