6QGH

Structure of human Bcl-2 in complex with ABT-263

Summary for 6QGH

• Entry DOI: 10.2210/pdb6qgh/pdb
• Related: 6QG8 6QGG
• Descriptor: Apoptosis regulator Bcl-2,Bcl-2-like protein 1,Apoptosis regulator Bcl-2,Bcl-2-like protein 1, 4-(4-{[2-(4-chlorophenyl)-5,5-dimethylcyclohex-1-en-1-yl]methyl}piperazin-1-yl)-N-[(4-{[(2R)-4-(morpholin-4-yl)-1-(phenylsulfanyl)butan-2-yl]amino}-3-[(trifluoromethyl)sulfonyl]phenyl)sulfonyl]benzamide (3 entities in total)
• Functional Keywords: apoptosis, bcl2, abt-263, drug design
• Biological source: Homo sapiens (Human); More
• Total number of polymer chains: 1
• Total formula weight: 21417.07

Authors

Dokurno, P.,Murray, J.,Davidson, J.,Chen, I.,Davis, B.,Graham, C.J.,Harris, R.,Jordan, A.M.,Matassova, N.,Pedder, C.,Ray, S.,Roughley, S.,Smith, J.,Walmsley, C.,Wang, Y.,Whitehead, N.,Williamson, D.S.,Casara, P.,Le Diguarher, T.,Hickman, J.,Stark, J.,Kotschy, A.,Geneste, O.,Hubbard, R.E. (deposition date: 2019-01-11, release date: 2019-06-12, Last modification date: 2024-01-24)

Primary citation

Murray, J.B.,Davidson, J.,Chen, I.,Davis, B.,Dokurno, P.,Graham, C.J.,Harris, R.,Jordan, A.,Matassova, N.,Pedder, C.,Ray, S.,Roughley, S.D.,Smith, J.,Walmsley, C.,Wang, Y.,Whitehead, N.,Williamson, D.S.,Casara, P.,Le Diguarher, T.,Hickman, J.,Stark, J.,Kotschy, A.,Geneste, O.,Hubbard, R.E.
Establishing Drug Discovery and Identification of Hit Series for the Anti-apoptotic Proteins, Bcl-2 and Mcl-1.
Acs Omega, 4:8892-8906, 2019

PubMed Abstract: We describe our work to establish structure- and fragment-based drug discovery to identify small molecules that inhibit the anti-apoptotic activity of the proteins Mcl-1 and Bcl-2. This identified hit series of compounds, some of which were subsequently optimized to clinical candidates in trials for treating various cancers. Many protein constructs were designed to identify protein with suitable properties for different biophysical assays and structural methods. Fragment screening using ligand-observed NMR experiments identified several series of compounds for each protein. The series were assessed for their potential for subsequent optimization using H and N heteronuclear single-quantum correlation NMR, surface plasmon resonance, and isothermal titration calorimetry measurements to characterize and validate binding. Crystal structures could not be determined for the early hits, so NMR methods were developed to provide models of compound binding to guide compound optimization. For Mcl-1, a benzodioxane/benzoxazine series was optimized to a of 40 μM before a thienopyrimidine hit series was identified which subsequently led to the lead series from which the clinical candidate S 64315 (MIK 665) was identified. For Bcl-2, the fragment-derived series were difficult to progress, and a compound derived from a published tetrahydroquinone compound was taken forward as the hit from which the clinical candidate (S 55746) was obtained. For both the proteins, the work to establish a portfolio of assays gave confidence for identification of compounds suitable for optimization.

PubMed: 31459977
DOI: 10.1021/acsomega.9b00611

Experimental method

X-RAY DIFFRACTION (2 Å)