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Structure paper

TitleWhy Sulfur is Important in Lincosamide Antibiotics.
Journal, issue, pagesChem, Vol. 11, Year 2025
Publish dateAug 7, 2024 (structure data deposition date)
AuthorsWu, K.J.Y. / Aleksandrova, E.V. / Robinson, P.J. / Benedetto, A.E. / Yu, M. / Tresco, B.I.C. / See, D.N.Y. / Jiang, T. / Ramkissoon, A. / Dunand, C.F. ...Wu, K.J.Y. / Aleksandrova, E.V. / Robinson, P.J. / Benedetto, A.E. / Yu, M. / Tresco, B.I.C. / See, D.N.Y. / Jiang, T. / Ramkissoon, A. / Dunand, C.F. / Svetlov, M.S. / Lee, J. / Polikanov, Y.S. / Myers, A.G.
External linksChem / PubMed:40787583
MethodsX-ray diffraction
Resolution2.45 - 2.5 Å
Structure data

PDB-9d0g:
Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with O-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution
Method: X-RAY DIFFRACTION / Resolution: 2.5 Å

PDB-9d0h:
Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with C-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution
Method: X-RAY DIFFRACTION / Resolution: 2.5 Å

PDB-9d0i:
Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Se-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution
Method: X-RAY DIFFRACTION / Resolution: 2.45 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-K:
Unknown entry

PDB-1a1f:
DSNR (ZIF268 VARIANT) ZINC FINGER-DNA COMPLEX (GACC SITE)

ChemComp-ZN:
Unknown entry

ChemComp-SF4:
IRON/SULFUR CLUSTER

ChemComp-HOH:
WATER

PDB-1a1j:
RADR (ZIF268 VARIANT) ZINC FINGER-DNA COMPLEX (GCGT SITE)

PDB-1a1k:
RADR (ZIF268 VARIANT) ZINC FINGER-DNA COMPLEX (GACC SITE)

Source
  • escherichia coli (E. coli)
  • thermus thermophilus hb8 (bacteria)
  • escherichia phage t4 (virus)
KeywordsRIBOSOME / Cresomycin glycosides; lincosamides; structure-based drug design; antibiotic; 70S ribosome; X-ray structure; inhibition of translation; peptidyl transferase center; nascent peptide exit tunnel

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