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Structure paper

TitleDesign of a Cereblon construct for crystallographic and biophysical studies of protein degraders.
Journal, issue, pagesNat Commun, Vol. 15, Page 8885-8885, Year 2024
Publish dateJan 17, 2024 (structure data deposition date)
AuthorsKroupova, A. / Spiteri, V.A. / Rutter, Z.J. / Furihata, H. / Darren, D. / Ramachandran, S. / Chakraborti, S. / Haubrich, K. / Pethe, J. / Gonzales, D. ...Kroupova, A. / Spiteri, V.A. / Rutter, Z.J. / Furihata, H. / Darren, D. / Ramachandran, S. / Chakraborti, S. / Haubrich, K. / Pethe, J. / Gonzales, D. / Wijaya, A.J. / Rodriguez-Rios, M. / Sturbaut, M. / Lynch, D.M. / Farnaby, W. / Nakasone, M.A. / Zollman, D. / Ciulli, A.
External linksNat Commun / PubMed:39406745
MethodsX-ray diffraction
Resolution1.95 - 3.11 Å
Structure data

PDB-8rq1:
Crystal structure of CRBN-midi
Method: X-RAY DIFFRACTION / Resolution: 3.11 Å

PDB-8rq8:
Crystal structure of CRBN-midi in complex with mezigdomide
Method: X-RAY DIFFRACTION / Resolution: 2.19 Å

PDB-8rq9:
Crystal structure of PROTAC CFT-1297 in complex with CRBN-midi and BRD4(BD2)
Method: X-RAY DIFFRACTION / Resolution: 2.91 Å

PDB-8rqa:
Crystal structure of CRBN-midi in complex with Lenalidomide
Method: X-RAY DIFFRACTION / Resolution: 2.5 Å

PDB-8rqc:
Crystal structure of CRBN-midi in complex with mezigdomide and IKZF1 ZF2
Method: X-RAY DIFFRACTION / Resolution: 2.15 Å

PDB-9gao:
Crystal structure of CRBNmidi in complex with 2-(4-(2,6-dioxopiperidin-3-yl)phenoxy)-N-methylacetamide
Method: X-RAY DIFFRACTION / Resolution: 1.95 Å

Chemicals

ChemComp-ZN:
Unknown entry

ChemComp-QFC:
Mezigdomide

ChemComp-HOH:
WATER

PDB-1h2f:
BACILLUS STEAROTHERMOPHILUS PHOE (previously known as yhfr) in complex with trivanadate

ChemComp-LVY:
S-Lenalidomide


PDB Unreleased entry

PDB-1ijm: CRYSTAL STRUCTURE OF THE TRANSTHYRETIN MUTANT TTR C10S/Y114C

Source
  • homo sapiens (human)
KeywordsLIGASE / E3 ligase / PROTAC / TPD / molecular glue / targeted protein degradation

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