Abstract
Solution NMR spectroscopy plays important roles in understanding protein structures, dynamics and protein-protein/ligand interactions. In a target-based drug discovery project, NMR can serve an important function in hit identification and lead optimization. Fluorine is a valuable probe for evaluating protein conformational changes and protein-ligand interactions. Accumulated studies demonstrate that 19F-NMR can play important roles in fragment- based drug discovery (FBDD) and probing protein-ligand interactions. This review summarizes the application of 19F-NMR in understanding protein-ligand interactions and drug discovery. Several examples are included to show the roles of 19F-NMR in confirming identified hits/leads in the drug discovery process. In addition to identifying hits from fluorinecontaining compound libraries, 19F-NMR will play an important role in drug discovery by providing a fast and robust way in novel hit identification. This technique can be used for ranking compounds with different binding affinities and is particularly useful for screening competitive compounds when a reference ligand is available.
Keywords: 19F NMR, drug discovery, protein structure, hit to lead, hit identification, protein-ligand interactions.
[http://dx.doi.org/10.1016/j.pnmrs.2013.02.001] [PMID: 23962882]
[http://dx.doi.org/10.1016/j.jmr.2004.11.021] [PMID: 15780912]
[http://dx.doi.org/10.1126/science.1161302] [PMID: 18755977]
[http://dx.doi.org/10.1126/science.1248725] [PMID: 24653034]
[http://dx.doi.org/10.1073/pnas.0407792102] [PMID: 15637152]
[http://dx.doi.org/10.2174/138920312803582979] [PMID: 23004360]
[http://dx.doi.org/10.1016/j.cbpa.2011.05.025] [PMID: 21684799]
[http://dx.doi.org/10.1016/S0092-8674(00)81672-4] [PMID: 10619428]
[http://dx.doi.org/10.1016/j.cell.2006.08.044] [PMID: 17055436]
[http://dx.doi.org/10.1146/annurev.biophys.27.1.357] [PMID: 9646872]
[http://dx.doi.org/10.1021/ja030345s] [PMID: 14599227]
[http://dx.doi.org/10.1007/s10858-017-0116-7] [PMID: 28620800]
[http://dx.doi.org/10.3390/molecules22091399] [PMID: 28832542]
[http://dx.doi.org/10.1111/cbdd.12355] [PMID: 24813479]
[http://dx.doi.org/10.1038/nrd748] [PMID: 12120505]
[http://dx.doi.org/10.2174/1386207023329978] [PMID: 12470259]
[http://dx.doi.org/10.1023/A:1020445506369] [PMID: 12836668]
[http://dx.doi.org/10.2174/1386207023329941] [PMID: 12470260]
[http://dx.doi.org/10.2174/1386207023329996] [PMID: 12470258]
[http://dx.doi.org/10.2174/1386207023329923] [PMID: 12470257]
[http://dx.doi.org/10.1021/ja993921m]
[http://dx.doi.org/10.1016/j.bbapap.2010.10.012] [PMID: 21059410]
[http://dx.doi.org/10.1016/j.drudis.2011.12.016] [PMID: 22210119]
[http://dx.doi.org/10.1039/C2MB25395J] [PMID: 23232937]
[http://dx.doi.org/10.1016/j.cbpa.2007.07.010] [PMID: 17851109]
[http://dx.doi.org/10.1021/jm010927p] [PMID: 12036348]
[http://dx.doi.org/10.1021/jm040031v] [PMID: 15214773]
[http://dx.doi.org/10.1016/j.pnmrs.2016.09.001] [PMID: 27888841]
[http://dx.doi.org/10.1002/anie.200905102] [PMID: 20084646]
[http://dx.doi.org/10.1111/j.1747-0285.2010.01010.x] [PMID: 20626411]
[http://dx.doi.org/10.1016/j.pbiomolbio.2014.08.012] [PMID: 25175337]
[http://dx.doi.org/10.1248/yakushi.130.325] [PMID: 20190517]
[http://dx.doi.org/10.1111/j.1747-0285.2009.00940.x] [PMID: 20331645]
[http://dx.doi.org/10.1038/nature06531] [PMID: 18235503]
[http://dx.doi.org/10.1038/nsmb.1707] [PMID: 19898475]
[http://dx.doi.org/10.1038/ni.1943] [PMID: 20890284]
[http://dx.doi.org/10.1038/nature10257] [PMID: 21785437]
[http://dx.doi.org/10.1038/nature12283] [PMID: 23739335]
[http://dx.doi.org/10.1038/nature17656] [PMID: 27135929]
[http://dx.doi.org/10.1126/science.1171716] [PMID: 19556511]
[http://dx.doi.org/10.1021/bi800875q] [PMID: 18611041]
[http://dx.doi.org/10.1074/jbc.M804916200] [PMID: 18782776]
[http://dx.doi.org/10.1038/nsb1101-990] [PMID: 11685248]
[http://dx.doi.org/10.1016/S0092-8674(00)80572-3] [PMID: 10089877]
[http://dx.doi.org/10.1016/j.molcel.2016.01.009] [PMID: 26853147]
[http://dx.doi.org/10.1073/pnas.0902548106] [PMID: 19383794]
[http://dx.doi.org/10.1126/science.aaf7066] [PMID: 27338706]
[http://dx.doi.org/10.1016/S0092-8674(00)81417-8] [PMID: 9695946]
[http://dx.doi.org/10.1016/j.cell.2008.09.044] [PMID: 19013279]
[http://dx.doi.org/10.1016/j.cell.2010.08.019] [PMID: 20813252]
[http://dx.doi.org/10.1007/s13238-010-0025-y] [PMID: 21203971]
[http://dx.doi.org/10.1016/j.cmet.2014.07.004] [PMID: 25127353]
[http://dx.doi.org/10.1007/s10858-015-9971-2] [PMID: 26219516]
[http://dx.doi.org/10.1007/978-1-4939-2239-0_2] [PMID: 25502373]
[http://dx.doi.org/10.1007/s10858-009-9333-z] [PMID: 19548092]
[http://dx.doi.org/10.1038/nmeth.3437] [PMID: 26053889]
[http://dx.doi.org/10.1007/s10858-010-9433-9] [PMID: 20628786]
[http://dx.doi.org/10.1016/j.bpj.2017.03.011] [PMID: 28445744]
[http://dx.doi.org/10.1093/bioinformatics/btx785] [PMID: 29281006]
[http://dx.doi.org/10.2174/0929867043364667] [PMID: 15279552]
[http://dx.doi.org/10.1016/S0014-5793(97)01246-5] [PMID: 9426218]
[http://dx.doi.org/10.1016/S0014-5793(00)01333-8] [PMID: 10745077]
[http://dx.doi.org/10.1021/pr049931q] [PMID: 15359741]
[http://dx.doi.org/10.1021/pr049905s] [PMID: 15473697]
[http://dx.doi.org/10.1016/j.bbrc.2004.05.016] [PMID: 15178425]
[http://dx.doi.org/10.1021/pr050135+] [PMID: 16212418]
[http://dx.doi.org/10.1016/j.bbrc.2006.12.235] [PMID: 17266937]
[http://dx.doi.org/10.2174/1568026617666170414150730] [PMID: 28413949]
[http://dx.doi.org/10.1042/bj1870829] [PMID: 7188428]
[http://dx.doi.org/10.1042/bj2220169] [PMID: 6477507]
[PMID: 7681060]
[PMID: 7686907]
[http://dx.doi.org/10.1021/bi00077a008] [PMID: 7687145]
[http://dx.doi.org/10.1093/nar/gks1450] [PMID: 23303794]
[http://dx.doi.org/10.1016/j.ab.2013.05.024] [PMID: 23756733]
[http://dx.doi.org/10.1155/2014/286419] [PMID: 24991545]
[http://dx.doi.org/10.1155/2014/623149] [PMID: 24967386]
[http://dx.doi.org/10.1093/nar/gku1019] [PMID: 25361964]
[http://dx.doi.org/10.1016/j.ab.2015.08.021] [PMID: 26314792]
[http://dx.doi.org/10.1016/j.ygeno.2015.12.005] [PMID: 26724497]
[http://dx.doi.org/10.1038/mtna.2016.37] [PMID: 28427142]
[http://dx.doi.org/10.18632/oncotarget.11975] [PMID: 27626500]
[http://dx.doi.org/10.18632/oncotarget.13758] [PMID: 27926534]
[http://dx.doi.org/10.1016/j.omtn.2018.03.012] [PMID: 29858081]
[http://dx.doi.org/10.1093/bioinformatics/bty508] [PMID: 29931187]
[http://dx.doi.org/10.7150/ijbs.24616] [PMID: 29989083]
[http://dx.doi.org/10.1016/j.jtbi.2010.12.024] [PMID: 21168420]
[http://dx.doi.org/10.4236/ns.2011.310111]
[http://dx.doi.org/10.2174/0929866511107010966] [PMID: 21592084]
[http://dx.doi.org/10.2174/15680266113139990003] [PMID: 23647538]
[http://dx.doi.org/10.1021/bi101435c] [PMID: 21189021]
[http://dx.doi.org/10.1016/j.jtbi.2011.06.006] [PMID: 21718705]
[http://dx.doi.org/10.1016/j.dib.2015.04.021] [PMID: 26217768]
[http://dx.doi.org/10.1016/j.ab.2018.04.021] [PMID: 29704476]
[PMID: 29028927]
[http://dx.doi.org/10.2174/0929866521666141019192221] [PMID: 25329332]
[http://dx.doi.org/10.1002/prot.1035] [PMID: 11288174]
[http://dx.doi.org/10.2174/157016409789973707]
[http://dx.doi.org/10.1016/j.ab.2014.04.001] [PMID: 24732113]
[http://dx.doi.org/10.1039/C5MB00155B] [PMID: 26099739]
[http://dx.doi.org/10.1016/j.gene.2017.07.036] [PMID: 28728979]
[http://dx.doi.org/10.1016/j.jtbi.2018.09.005] [PMID: 30201434]
[http://dx.doi.org/10.2174/1381612824666181119145030] [PMID: 30451108]
[http://dx.doi.org/10.1016/j.ygeno.2018.08.007] [PMID: 30179658]
[http://dx.doi.org/10.2174/1573406415666181217114710] [PMID: 30556503]
[http://dx.doi.org/10.2174/1573406415666181218102517] [PMID: 30569871]
[http://dx.doi.org/10.1016/j.jtbi.2019.02.007] [PMID: 30768975]
[http://dx.doi.org/10.1371/journal.pone.0105018] [PMID: 25121969]
[http://dx.doi.org/10.7717/peerj.171] [PMID: 24109555]
[http://dx.doi.org/10.1371/journal.pone.0055844] [PMID: 23409062]
[http://dx.doi.org/10.1016/j.ab.2015.12.017] [PMID: 26748145]
[http://dx.doi.org/10.18632/oncotarget.9148] [PMID: 27153555]
[http://dx.doi.org/10.1016/j.jtbi.2016.01.020] [PMID: 26807806]
[http://dx.doi.org/10.1016/j.ab.2015.12.009] [PMID: 26723495]
[http://dx.doi.org/10.1016/j.ab.2014.12.009] [PMID: 25596338]
[http://dx.doi.org/10.18632/oncotarget.10027] [PMID: 27322424]
[http://dx.doi.org/10.18632/oncotarget.17104] [PMID: 28476023]
[http://dx.doi.org/10.1016/j.ygeno.2018.01.005] [PMID: 29360500]
[http://dx.doi.org/10.1016/j.ab.2018.12.019] [PMID: 30593778]
[http://dx.doi.org/10.1016/j.jtbi.2018.10.021] [PMID: 30312687]
[http://dx.doi.org/10.1016/j.jtbi.2018.12.015] [PMID: 30550863]
[http://dx.doi.org/10.1093/bioinformatics/btz016]
[http://dx.doi.org/10.2174/1570178615666180724103325]
[http://dx.doi.org/10.1093/nar/gkv458] [PMID: 25958395]
[http://dx.doi.org/10.1093/bioinformatics/btx476] [PMID: 29036535]
[http://dx.doi.org/10.2174/1568026617666170414145508] [PMID: 28413951]
[http://dx.doi.org/10.1021/pr025527k] [PMID: 12645914]
[http://dx.doi.org/10.1093/bioinformatics/btx711] [PMID: 29106451]
[PMID: 28989035]
[http://dx.doi.org/10.1039/C7MB00267J] [PMID: 28702580]
[PMID: 29842950]
[http://dx.doi.org/10.1016/j.ygeno.2017.08.005] [PMID: 28818512]
[http://dx.doi.org/10.1039/c3mb25555g] [PMID: 23536215]
[http://dx.doi.org/10.1002/bip.360340114] [PMID: 8110966]
[http://dx.doi.org/10.1371/journal.pone.0072234] [PMID: 24015221]
[http://dx.doi.org/10.2174/15680266113139990121] [PMID: 23889048]
[http://dx.doi.org/10.1002/jcc.21163] [PMID: 19037861]
[http://dx.doi.org/10.1039/C0MB00170H] [PMID: 21180772]
[http://dx.doi.org/10.1016/j.jtbi.2015.04.011] [PMID: 25908206]
[http://dx.doi.org/10.1080/07391102.2014.998710] [PMID: 25513722]
[http://dx.doi.org/10.1093/bioinformatics/btw539] [PMID: 27531102]
[http://dx.doi.org/10.2174/1573406411666141229162834] [PMID: 25548930]
[http://dx.doi.org/10.1017/S0033583500003528] [PMID: 11194565]
[http://dx.doi.org/10.1126/science.274.5292.1531] [PMID: 8929414]
[http://dx.doi.org/10.1038/nprot.2010.32] [PMID: 20431534]
[http://dx.doi.org/10.1021/acsmedchemlett.7b00464] [PMID: 29456797]
[http://dx.doi.org/10.1021/jacs.7b07171] [PMID: 29190085]
[http://dx.doi.org/10.1038/nprot.2006.101] [PMID: 17406304]
[http://dx.doi.org/10.1002/cbic.200500110] [PMID: 16075427]
[http://dx.doi.org/10.1007/978-1-4939-6451-2_9]
[http://dx.doi.org/10.1007/s10858-015-9981-0] [PMID: 26319988]
[http://dx.doi.org/10.1016/j.bbamem.2015.06.010] [PMID: 26072288]
[http://dx.doi.org/10.1002/anie.201606609] [PMID: 27554985]
[http://dx.doi.org/10.1371/journal.pntd.0000561] [PMID: 19997625]
[PMID: 1646815]
[http://dx.doi.org/10.1021/ja00211a011]
[http://dx.doi.org/10.1016/j.jmb.2016.08.014] [PMID: 27545410]
[http://dx.doi.org/10.1038/srep11630] [PMID: 26108885]
[http://dx.doi.org/10.3390/molecules21070860] [PMID: 27438818]
[http://dx.doi.org/10.1007/s10858-013-9740-z] [PMID: 23686385]
[http://dx.doi.org/10.3390/molecules21070854] [PMID: 27438813]
[http://dx.doi.org/10.3390/ijms20010139] [PMID: 30609728]
[http://dx.doi.org/10.1021/ja01012a009]
[http://dx.doi.org/10.1016/0079-6565(94)80009-X]
[http://dx.doi.org/10.1016/j.sbi.2013.07.011] [PMID: 23932201]
[http://dx.doi.org/10.1016/j.pnmrs.2011.06.003] [PMID: 22364614]
[http://dx.doi.org/10.1021/acs.jmedchem.5b01447] [PMID: 26599421]
[http://dx.doi.org/10.1016/j.bbagen.2006.10.017] [PMID: 17182189]
[http://dx.doi.org/10.1016/j.bmcl.2006.02.031] [PMID: 16517158]
[http://dx.doi.org/10.1016/j.jpba.2004.06.027] [PMID: 15496337]
[http://dx.doi.org/10.1007/s10858-006-0005-y] [PMID: 16645812]
[http://dx.doi.org/10.1021/bi9620619] [PMID: 8987983]
[http://dx.doi.org/10.1021/ja064661t] [PMID: 17263397]
[http://dx.doi.org/10.1038/nprot.2007.379] [PMID: 17948003]
[http://dx.doi.org/10.1002/cbic.200300597] [PMID: 12851935]
[http://dx.doi.org/10.1016/j.bbamem.2012.07.018] [PMID: 22846509]
[http://dx.doi.org/10.1016/0014-5793(90)80442-L] [PMID: 2146161]
[http://dx.doi.org/10.1021/ja060618u] [PMID: 16910667]
[http://dx.doi.org/10.1007/s10858-009-9359-2] [PMID: 19655092]
[http://dx.doi.org/10.1021/bi00376a029] [PMID: 3548821]
[http://dx.doi.org/10.1039/c2cc35347d] [PMID: 23000821]
[http://dx.doi.org/10.1038/nprot.2007.379] [PMID: 17948003]
[http://dx.doi.org/10.1021/ja064661t] [PMID: 17263397]
[http://dx.doi.org/10.1007/s10858-009-9365-4] [PMID: 19669620]
[http://dx.doi.org/10.1021/ja801602q] [PMID: 18576636]
[http://dx.doi.org/10.1002/cbic.200300568] [PMID: 14613106]
[http://dx.doi.org/10.1007/s10858-017-0125-6] [PMID: 28756478]
[http://dx.doi.org/10.1016/S0005-2736(02)00714-9]
[http://dx.doi.org/10.1038/nsmb.3226] [PMID: 27273629]
[http://dx.doi.org/10.1002/anie.201305286] [PMID: 23956158]
[http://dx.doi.org/10.1021/ja8085752] [PMID: 19173647]
[http://dx.doi.org/10.1016/j.jmb.2004.12.058] [PMID: 15733915]
[http://dx.doi.org/10.1038/nprot.2016.079] [PMID: 27414758]
[http://dx.doi.org/10.1002/ange.201607161]
[http://dx.doi.org/10.1021/acs.bioconjchem.5b00457] [PMID: 26587689]
[http://dx.doi.org/10.1126/science.1215802] [PMID: 22267580]
[http://dx.doi.org/10.1146/annurev.bb.25.060196.001115] [PMID: 8800468]
[http://dx.doi.org/10.1021/cb500111u] [PMID: 24762032]
[http://dx.doi.org/10.1016/j.jfluchem.2008.11.003]
[http://dx.doi.org/10.1016/j.bbrc.2015.04.090] [PMID: 25918021]
[http://dx.doi.org/10.1038/nature17668] [PMID: 27144352]
[http://dx.doi.org/10.1006/abio.2001.5485] [PMID: 11811976]
[http://dx.doi.org/10.1038/416279a] [PMID: 11907567]
[http://dx.doi.org/10.1021/acschembio.6b00315] [PMID: 27267810]
[http://dx.doi.org/10.1002/cbic.200301023] [PMID: 15122635]
[http://dx.doi.org/10.1039/B610213C] [PMID: 18197348]
[http://dx.doi.org/10.1021/ja034646d] [PMID: 12812511]
[http://dx.doi.org/10.1039/B313166A] [PMID: 14985813]
[http://dx.doi.org/10.1002/1521-3773(20020916)41:18<3420:AID-ANIE3420>3.0.CO;2-E] [PMID: 12298051]
[http://dx.doi.org/10.1002/1521-3773(20020916)41:18<3454:AID-ANIE3454>3.0.CO;2-L] [PMID: 12298062]
[http://dx.doi.org/10.1073/pnas.0408490102] [PMID: 15677718]
[http://dx.doi.org/10.1016/j.pep.2006.12.019] [PMID: 17289400]
[http://dx.doi.org/10.1016/j.bbrc.2015.10.036] [PMID: 26471301]
[http://dx.doi.org/10.1021/ja020174b] [PMID: 12083923]
[http://dx.doi.org/10.1016/S1359-6446(04)03069-7] [PMID: 15109945]
[http://dx.doi.org/10.2174/1568026033392796] [PMID: 12570779]
[http://dx.doi.org/10.1002/(SICI)1521-3773(19990614)38:12<1784:AID-ANIE1784>3.0.CO;2-Q] [PMID: 29711196]
[http://dx.doi.org/10.1002/anie.200390233] [PMID: 12596167]
[http://dx.doi.org/10.1021/jm401208b] [PMID: 24098982]
[http://dx.doi.org/10.1016/j.febslet.2015.07.044] [PMID: 26272827]
[http://dx.doi.org/10.1016/j.bpj.2015.10.001] [PMID: 26536273]
[http://dx.doi.org/10.1093/nar/gkw941] [PMID: 27915293]
[http://dx.doi.org/10.1074/jbc.M116.737429] [PMID: 27365392]
[http://dx.doi.org/10.1002/cplu.201500197]
[http://dx.doi.org/10.1016/j.tim.2017.07.001] [PMID: 28789826]
[http://dx.doi.org/10.1016/j.str.2017.06.006]
[http://dx.doi.org/10.1126/science.aai9309] [PMID: 27940580]
[http://dx.doi.org/10.1038/nchembio.1212] [PMID: 23502424]
[http://dx.doi.org/10.1021/acs.jmedchem.6b00680] [PMID: 27347692]
[http://dx.doi.org/10.1038/nature18621] [PMID: 27362227]
[http://dx.doi.org/10.1517/14728222.2014.978860] [PMID: 25555392]
[http://dx.doi.org/10.1074/jbc.M114.566729] [PMID: 24755226]
[http://dx.doi.org/10.1021/acsmedchemlett.7b00084] [PMID: 28626524]
[http://dx.doi.org/10.1038/nrd.2016.109] [PMID: 27417849]
[http://dx.doi.org/10.1021/jm049131r] [PMID: 15801841]
[http://dx.doi.org/10.1021/jm8000373] [PMID: 18457385]
[http://dx.doi.org/10.1007/128_2011_265] [PMID: 22006238]
[http://dx.doi.org/10.1093/glycob/cwl051] [PMID: 16973731]
[PMID: 15137040]
[http://dx.doi.org/10.1002/chem.200903528] [PMID: 20496354]
[http://dx.doi.org/10.3390/molecules21070860] [PMID: 27438818]
[http://dx.doi.org/10.1038/nprot.2016.079] [PMID: 27414758]
[http://dx.doi.org/10.1111/cbdd.13030] [PMID: 28547936]
[http://dx.doi.org/10.2174/156802607782341055] [PMID: 17979770]
[http://dx.doi.org/10.1016/S0076-6879(05)94023-8] [PMID: 15808237]
[http://dx.doi.org/10.1073/pnas.091097498] [PMID: 11331743]
[http://dx.doi.org/10.1002/anie.201310866] [PMID: 24615874]
[http://dx.doi.org/10.2174/1573406415666181218101623] [PMID: 30569872]
[http://dx.doi.org/10.1021/ja060165t] [PMID: 16637654]