7TH7

Structure of Cyclophilin D Peptidyl-Prolyl Isomerase Domain bound to Macrocyclic Inhibitor B23

7TH7 の概要

• エントリーDOI: 10.2210/pdb7th7/pdb
• 関連するPDBエントリー: 7TGS 7TGT 7TGU 7TGV 7TH1 7TH6
• 分子名称: Peptidyl-prolyl cis-trans isomerase F, mitochondrial, 3-(4'-{[(4S,7S,11R,19S)-19-{[2-(2-aminoethoxy)ethyl]carbamoyl}-7-benzyl-3,6,12,15,21-pentaoxo-1,3,4,5,6,7,8,9,10,12,13,14,15,16,17,18,19,20,21,22-icosahydro-2H-7,11-methano-2,5,11,16,20-benzopentaazacyclotetracosin-4-yl]methyl}[1,1'-biphenyl]-4-yl)propanoic acid (3 entities in total)
• 機能のキーワード: oxidative stress, necrosis, mitochondrial permeability, isomerase
• 由来する生物種: Homo sapiens (human)
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 18525.17

構造登録者

Rangwala, A.M.,Thakur, M.K.,Seeliger, M.A.,Peterson, A.A.,Liu, D.R. (登録日: 2022-01-10, 公開日: 2022-08-24, 最終更新日: 2023-10-18)

主引用文献

Peterson, A.A.,Rangwala, A.M.,Thakur, M.K.,Ward, P.S.,Hung, C.,Outhwaite, I.R.,Chan, A.I.,Usanov, D.L.,Mootha, V.K.,Seeliger, M.A.,Liu, D.R.
Discovery and molecular basis of subtype-selective cyclophilin inhibitors.
Nat.Chem.Biol., 18:1184-1195, 2022

PubMed Abstract: Although cyclophilins are attractive targets for probing biology and therapeutic intervention, no subtype-selective cyclophilin inhibitors have been described. We discovered novel cyclophilin inhibitors from the in vitro selection of a DNA-templated library of 256,000 drug-like macrocycles for cyclophilin D (CypD) affinity. Iterated macrocycle engineering guided by ten X-ray co-crystal structures yielded potent and selective inhibitors (half maximal inhibitory concentration (IC) = 10 nM) that bind the active site of CypD and also make novel interactions with non-conserved residues in the S2 pocket, an adjacent exo-site. The resulting macrocycles inhibit CypD activity with 21- to >10,000-fold selectivity over other cyclophilins and inhibit mitochondrial permeability transition pore opening in isolated mitochondria. We further exploited S2 pocket interactions to develop the first cyclophilin E (CypE)-selective inhibitor, which forms a reversible covalent bond with a CypE S2 pocket lysine, and exhibits 30- to >4,000-fold selectivity over other cyclophilins. These findings reveal a strategy to generate isoform-selective small-molecule cyclophilin modulators, advancing their suitability as targets for biological investigation and therapeutic development.

PubMed: 36163383
DOI: 10.1038/s41589-022-01116-1

実験手法

X-RAY DIFFRACTION (1.3 Å)