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Structure paper

TitleStructural basis for substrate binding and catalysis by a self-alkylating ribozyme.
Journal, issue, pagesNat. Chem. Biol., Vol. 18, Page 376-384, Year 2022
Publish dateJun 24, 2020 (structure data deposition date)
AuthorsKrochmal, D. / Shao, Y. / Li, N.S. / DasGupta, S. / Shelke, S.A. / Koirala, D. / Piccirilli, J.A.
External linksNat. Chem. Biol. / PubMed:35058645
MethodsX-ray diffraction
Resolution1.708 - 2.488 Å
Structure data

PDB-6xjq:
Crystal structure of a self-alkylating ribozyme - alkylated form with biotinylated epoxide substrate
Method: X-RAY DIFFRACTION / Resolution: 1.708 Å

PDB-6xjw:
Crystal structure of a self-alkylating ribozyme - alkylated form without biotin moiety
Method: X-RAY DIFFRACTION / Resolution: 1.918 Å

PDB-6xjy:
Crystal structure of a self-alkylating ribozyme - short time incubation with the epoxide substrate
Method: X-RAY DIFFRACTION / Resolution: 2.156 Å

PDB-6xjz:
Crystal structure of a self-alkylating ribozyme - apo form
Method: X-RAY DIFFRACTION / Resolution: 2.488 Å

Chemicals

ChemComp-V4J:
2-{[(4R)-4-hydroxyhexyl]oxy}ethyl 5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanoate

ChemComp-HOH:
WATER

ChemComp-97C:
2-{[(4R)-4-hydroxyhexyl]oxy}ethyl pentanoate

Source
  • homo sapiens (human)
  • aeropyrum pernix (archaea)
KeywordsRNA/IMMUNE SYSTEM / Self-alkylating ribozyme / Antibody-assisted RNA crystallography / RNA catalysis / RNA-Immune System complex

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