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TitleCyclization Reaction-Based Turn-on Probe for Covalent Labeling of Target Proteins.
Journal, issue, pagesCell Chem Biol, Vol. 27, Page 334-, Year 2020
Publish dateFeb 7, 2019 (structure data deposition date)
AuthorsKojima, H. / Fujita, Y. / Takeuchi, R. / Ikebe, Y. / Ohashi, N. / Yamamoto, K. / Itoh, T.
External linksCell Chem Biol / PubMed:31991094
MethodsX-ray diffraction
Resolution2.2 - 3.4 Å
Structure data

PDB-6jey:
Covalent bond formation between ynone moiety of synthetic fatty acid and hPPARg-LBD
Method: X-RAY DIFFRACTION / Resolution: 2.2 Å

PDB-6jez:
Covalent labeling of rVDR-LBD by turn-on fluorescent probe mediated by conjugate addition and cyclization
Method: X-RAY DIFFRACTION / Resolution: 2.3 Å

PDB-6jf0:
Covalent labeling of hPPARg-LBD by turn-on fluorescent probe mediated by conjugate addition and cyclization
Method: X-RAY DIFFRACTION / Resolution: 3.4 Å

Chemicals

ChemComp-EJL:
(9Z,12Z,15Z,18Z,21Z)-5-oxidanylidenetetracosa-9,12,15,18,21-pentaen-6-ynoic acid

ChemComp-HOH:
WATER

ChemComp-YSV:
(1R,3R)-5-(2-((1R,3aS,7aR,E)-1-((R)-6-hydroxy-6-methylheptan-2-yl)-7a-methyloctahydro-4H-inden-4-ylidene)ethylidene)-2-

ChemComp-EJO:
7-(diethylamino)chromen-2-one

ChemComp-EB6:
methyl (2~{S})-3-[4-[3-(4-methoxy-2-oxidanyl-phenyl)prop-2-ynoyloxy]phenyl]-2-[[2-(phenylcarbonyl)phenyl]amino]propanoate

ChemComp-EBF:
7-methoxychromen-2-one

Source
  • homo sapiens (human)
  • rattus norvegicus (Norway rat)
KeywordsNUCLEAR PROTEIN / RECEPTOR / Covalent ligand / Ynone / Oxo-fatty acid / HORMONE / turn-on fluorescent probe / TCC probe / covalent labeling / histidine / cysteine

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