Nitriles: an attractive approach to the development of covalent inhibitors

被引:46
作者
Bonatto, Vinicius [1 ]
Lameiro, Rafael F. [1 ]
Rocho, Fernanda R. [1 ]
Lameira, Jeronimo [1 ,2 ]
Leitao, Andrei [1 ]
Montanari, Carlos A. [1 ]
机构
[1] Univ Sao Paulo, Sao Carlos Inst Chem, Med & Biol Chem Grp, Ave Trabalhador Sancarlense 400, BR-13566590 Sao Carlos, SP, Brazil
[2] Fed Univ Para, Inst Biol Sci, Rua Augusto Correa S-N, Belem, PA, Brazil
基金
瑞典研究理事会; 巴西圣保罗研究基金会;
关键词
BRUTONS TYROSINE KINASE; DIPEPTIDYL-PEPTIDASE-IV; CATHEPSIN-B; CYSTEINE PROTEASES; HIGHLY POTENT; INTRINSIC REACTIVITY; RESIDENCE TIME; BINDING MODE; DESIGN; DISCOVERY;
D O I
10.1039/d2md00204c
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Nitriles have broad applications in medicinal chemistry, with more than 60 small molecule drugs on the market containing the cyano functional group. In addition to the well-known noncovalent interactions that nitriles can perform with macromolecular targets, they are also known to improve drug candidates' pharmacokinetic profiles. Moreover, the cyano group can be used as an electrophilic warhead to covalently bind an inhibitor to a target of interest, forming a covalent adduct, a strategy that can present benefits over noncovalent inhibitors. This approach has gained much notoriety in recent years, mainly with diabetes and COVID-19-approved drugs. Nevertheless, the application of nitriles in covalent ligands is not restricted to it being the reactive center, as it can also be employed to convert irreversible inhibitors into reversible ones, a promising strategy for kinase inhibition and protein degradation. In this review, we introduce and discuss the roles of the cyano group in covalent inhibitors, how to tune its reactivity and the possibility of achieving selectivity only by replacing the warhead. Finally, we provide an overview of nitrile-based covalent compounds in approved drugs and inhibitors recently described in the literature.
引用
收藏
页码:201 / 217
页数:18
相关论文
共 126 条
[1]   Advances in covalent kinase inhibitors [J].
Abdeldayem, Ayah ;
Raouf, Yasir S. ;
Constantinescu, Stefan N. ;
Moriggl, Richard ;
Gunning, Patrick T. .
CHEMICAL SOCIETY REVIEWS, 2020, 49 (09) :2617-2687
[2]  
Abranyi-Balogh P., 2022, ADV CHEM PROTEOMICS, P47, DOI DOI 10.1016/B978-0-12-821433-6.00007-6
[3]   A road map for prioritizing warheads for cysteine targeting covalent inhibitors [J].
Abranyi-Balogh, Peter ;
Petri, Laszlo ;
Imre, Timea ;
Szijj, Peter ;
Scarpino, Andrea ;
Hrast, Martina ;
Mitrovic, Ana ;
Fonovic, Ursa Petar ;
Nemeth, Krisztina ;
Barreteau, Helene ;
Roper, David I. ;
Horvati, Kata ;
Ferenczy, Gyorgy G. ;
Kos, Janko ;
Ilas, Janez ;
Gobec, Stanislav ;
Keseru, Gyorgy M. .
EUROPEAN JOURNAL OF MEDICINAL CHEMISTRY, 2018, 160 :94-107
[4]   Nitrile-based peptoids as cysteine protease inhibitors [J].
Alves, Luana ;
Santos, Deborah A. ;
Cendron, Rodrigo ;
Rocho, Fernanda R. ;
Matos, Thiago K. B. ;
Leitao, Andrei ;
Montanari, Carlos A. .
BIOORGANIC & MEDICINAL CHEMISTRY, 2021, 41
[5]   Dipeptidyl nitrile inhibitors of Cathepsin L [J].
Asaad, Nabil ;
Bethel, Paul A. ;
Coulson, Michelle D. ;
Dawson, Jack E. ;
Ford, Susannah J. ;
Gerhardt, Stefan ;
Grist, Matthew ;
Hamlin, Gordon A. ;
James, Michael J. ;
Jones, Emma V. ;
Karoutchi, Galith I. ;
Kenny, Peter W. ;
Morley, Andrew D. ;
Oldham, Keith ;
Rankine, Neil ;
Ryan, David ;
Wells, Stuart L. ;
Wood, Linda ;
Augustin, Martin ;
Krapp, Stephan ;
Simader, Hannes ;
Steinbacher, Stefan .
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS, 2009, 19 (15) :4280-4283
[6]   Modeling covalent-modifier drugs [J].
Awoonor-Williams, Ernest ;
Walsh, Andrew G. ;
Rowley, Christopher N. .
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS, 2017, 1865 (11) :1664-1675
[7]   Peptidomimetic nitrile warheads as SARS-CoV-2 3CL protease inhibitors [J].
Bai, Bing ;
Arutyunova, Elena ;
Khan, Muhammad Bashir ;
Lu, Jimmy ;
Joyce, Michael A. ;
Saffran, Holly A. ;
Shields, Justin A. ;
Kandadai, Appan Srinivas ;
Belovodskiy, Alexandr ;
Hena, Mostofa ;
Vuong, Wayne ;
Lamer, Tess ;
Young, Howard S. ;
Vederas, John C. ;
Tyrrell, D. Lorne ;
Lemieux, M. Joanne ;
Nieman, James A. .
RSC MEDICINAL CHEMISTRY, 2021, 12 (10) :1722-1730
[8]   PROTAC targeted protein degraders: the past is prologue [J].
Bekes, Miklos ;
Langley, David R. ;
Crews, Craig M. .
NATURE REVIEWS DRUG DISCOVERY, 2022, 21 (03) :181-200
[9]   Highly potent inhibitors of cathepsin K with a differently positioned cyanohydrazide warhead: structural analysis of binding mode to mature and zymogen-like enzymes [J].
Benysek, Jakub ;
Busa, Michal ;
Rubesova, Petra ;
Fanfrlik, Jindrich ;
Lepsik, Martin ;
Brynda, Jiri ;
Matouskova, Zuzana ;
Bartz, Ulrike ;
Horn, Martin ;
Gutschow, Michael ;
Mares, Michael .
JOURNAL OF ENZYME INHIBITION AND MEDICINAL CHEMISTRY, 2022, 37 (01) :515-526
[10]  
Berger JP, 2018, ENDOCRIN DIAB METAB, V1, DOI 10.1002/edm2.2