-
Ali H, Mano M, Braga L, Naseem A, Marini B, Vu DM, Collesi C, Meroni G, Lusic M, Giacca M (2019) Cellular TRIM33 restrains HIV-1 infection by targeting viral integrase for proteasomal degradation. Nat Commun 10:926
doi: 10.1038/s41467-019-08810-0
-
Bartholomeeusen K, Christ F, Hendrix J, Rain JC, Emiliani S, Benarous R, Debyser Z, Gijsbers R, De Rijck J (2009) Lens epithelium-derived growth factor/p75 interacts with the transposase-derived DDE domain of PogZ. J Biol Chem 284:11467–11477
doi: 10.1074/jbc.M807781200
-
Bego MG, Cote E, Aschman N, Mercier J, Weissenhorn W, Cohen EA (2015) Vpu exploits the cross-talk between BST2 and the ILT7 receptor to suppress anti-HIV-1 responses by plasmacytoid dendritic cells. PLoS Pathog 11:e1005024
doi: 10.1371/journal.ppat.1005024
-
Bushman FD, Craigie R (1991) Activities of human immunodeficiency virus (HIV) integration protein in vitro: specific cleavage and integration of HIV DNA. Proc Natl Acad Sci U S A 88:1339–1343
doi: 10.1073/pnas.88.4.1339
-
Callow MG, Tran H, Phu L, Lau T, Lee J, Sandoval WN, Liu PS, Bheddah S, Tao J, Lill JR, Hongo JA, Davis D, Kirkpatrick DS, Polakis P, Costa M (2011) Ubiquitin ligase RNF146 regulates tankyrase and Axin to promote Wnt signaling. PLoS ONE 6:e22595
doi: 10.1371/journal.pone.0022595
-
Cherepanov P, Pluymers W, Claeys A, Proost P, De Clercq E, Debyser Z (2000) High-level expression of active HIV-1 integrase from a synthetic gene in human cells. FASEB J 14:1389–1399
-
Christ F, Voet A, Marchand A, Nicolet S, Desimmie BA, Marchand D, Bardiot D, Van der Veken NJ, Van Remoortel B, Strelkov SV, De Maeyer M, Chaltin P, Debyser Z (2010) Rational design of small-molecule inhibitors of the LEDGF/p75-integrase interaction and HIV replication. Nat Chem Biol 6:442–448
doi: 10.1038/nchembio.370
-
Ciechanover A (1994) The ubiquitin-proteasome proteolytic pathway. Cell 79:13–21
doi: 10.1016/0092-8674(94)90396-4
-
Clift D, McEwan WA, Labzin LI, Konieczny V, Mogessie B, James LC, Schuh M (2017) A method for the acute and rapid degradation of endogenous proteins. Cell 171(1692–1706):e1618
-
Cong L, Ran FA, Cox D, Lin S, Barretto R, Habib N, Hsu PD, Wu X, Jiang W, Marraffini LA, Zhang F (2013) Multiplex genome engineering using CRISPR/Cas systems. Science 339:819–823
doi: 10.1126/science.1231143
-
Cooper DA, Steigbigel RT, Gatell JM, Rockstroh JK, Katlama C, Yeni P, Lazzarin A, Clotet B, Kumar PN, Eron JE, Schechter M, Markowitz M, Loutfy MR, Lennox JL, Zhao J, Chen J, Ryan DM, Rhodes RR, Killar JA, Gilde LR, Strohmaier KM, Meibohm AR, Miller MD, Hazuda DJ, Nessly ML, DiNubile MJ, Isaacs RD, Teppler H, Nguyen BY, Teams BS (2008) Subgroup and resistance analyses of raltegravir for resistant HIV-1 infection. N Engl J Med 359:355–365
doi: 10.1056/NEJMoa0708978
-
Engelman A, Oztop I, Vandegraaff N, Raghavendra NK (2009) Quantitative analysis of HIV-1 preintegration complexes. Methods 47:283–290
doi: 10.1016/j.ymeth.2009.02.005
-
Feng L, Sharma A, Slaughter A, Jena N, Koh Y, Shkriabai N, Larue RC, Patel PA, Mitsuya H, Kessl JJ, Engelman A, Fuchs JR, Kvaratskhelia M (2013) The A128T resistance mutation reveals aberrant protein multimerization as the primary mechanism of action of allosteric HIV-1 integrase inhibitors. J Biol Chem 288:15813–15820
doi: 10.1074/jbc.M112.443390
-
Fuchs SY, Lee CG, Pan ZQ, Ronai Z (2002) SUMO-1 modification of Mdm2 prevents its self-ubiquitination and increases Mdm2 ability to ubiquitinate p53. Cell 110:531
doi: 10.1016/S0092-8674(02)00902-9
-
Gadd MS, Testa A, Lucas X, Chan KH, Chen W, Lamont DJ, Zengerle M, Ciulli A (2017) Structural basis of PROTAC cooperative recognition for selective protein degradation. Nat Chem Biol 13:514–521
doi: 10.1038/nchembio.2329
-
Guo Y, Dong L, Qiu X, Wang Y, Zhang B, Liu H, Yu Y, Zang Y, Yang M, Huang Z (2014) Structural basis for hijacking CBF-beta and CUL5 E3 ligase complex by HIV-1 Vif. Nature 505:229–233
doi: 10.1038/nature12884
-
Hare S, Gupta SS, Valkov E, Engelman A, Cherepanov P (2010a) Retroviral intasome assembly and inhibition of DNA strand transfer. Nature 464:232–236
doi: 10.1038/nature08784
-
Hare S, Vos AM, Clayton RF, Thuring JW, Cummings MD, Cherepanov P (2010b) Molecular mechanisms of retroviral integrase inhibition and the evolution of viral resistance. Proc Natl Acad Sci USA 107:20057–20062
doi: 10.1073/pnas.1010246107
-
Hare S, Maertens GN, Cherepanov P (2012) 3'-processing and strand transfer catalysed by retroviral integrase in crystallo. EMBO J 31:3020–3028
doi: 10.1038/emboj.2012.118
-
Hobbs S, Jitrapakdee S, Wallace JC (1998) Development of a bicistronic vector driven by the human polypeptide chain elongation factor 1alpha promoter for creation of stable mammalian cell lines that express very high levels of recombinant proteins. Biochem Biophys Res Commun 252:368–372
doi: 10.1006/bbrc.1998.9646
-
Hou P, Chen S, Wang S, Yu X, Chen Y, Jiang M, Zhuang K, Ho W, Hou W, Huang J, Guo D (2015) Genome editing of CXCR4 by CRISPR/cas9 confers cells resistant to HIV-1 infection. Sci Rep 5:15577
doi: 10.1038/srep15577
-
Kang HC, Lee YI, Shin JH, Andrabi SA, Chi Z, Gagne JP, Lee Y, Ko HS, Lee BD, Poirier GG, Dawson VL, Dawson TM (2011) Iduna is a poly(ADP-ribose) (PAR)-dependent E3 ubiquitin ligase that regulates DNA damage. Proc Natl Acad Sci USA 108:14103–14108
doi: 10.1073/pnas.1108799108
-
Komander D, Rape M (2012) The ubiquitin code. Annu Rev Biochem 81:203–229
doi: 10.1146/annurev-biochem-060310-170328
-
Kutner RH, Zhang XY, Reiser J (2009) Production, concentration and titration of pseudotyped HIV-1-based lentiviral vectors. Nat Protoc 4:495–505
doi: 10.1038/nprot.2009.22
-
Liang P, Xu Y, Zhang X, Ding C, Huang R, Zhang Z, Lv J, Xie X, Chen Y, Li Y, Sun Y, Bai Y, Songyang Z, Ma W, Zhou C, Huang J (2015) CRISPR/Cas9-mediated gene editing in human tripronuclear zygotes. Protein Cell 6:363–372
doi: 10.1007/s13238-015-0153-5
-
Linding R, Russell RB, Neduva V, Gibson TJ (2003) GlobPlot: exploring protein sequences for globularity and disorder. Nucleic Acids Res 31:3701–3708
doi: 10.1093/nar/gkg519
-
Maertens G, Cherepanov P, Pluymers W, Busschots K, De Clercq E, Debyser Z, Engelborghs Y (2003) LEDGF/p75 is essential for nuclear and chromosomal targeting of HIV-1 integrase in human cells. J Biol Chem 278:33528–33539
doi: 10.1074/jbc.M303594200
-
Maertens GN, Cherepanov P, Engelman A (2006) Transcriptional co-activator p75 binds and tethers the Myc-interacting protein JPO2 to chromatin. J Cell Sci 119:2563–2571
doi: 10.1242/jcs.02995
-
Mali P, Yang L, Esvelt KM, Aach J, Guell M, DiCarlo JE, Norville JE, Church GM (2013) RNA-guided human genome engineering via Cas9. Science 339:823–826
doi: 10.1126/science.1232033
-
Merling RK, Sweeney CL, Chu J, Bodansky A, Choi U, Priel DL, Kuhns DB, Wang H, Vasilevsky S, De Ravin SS, Winkler T, Dunbar CE, Zou J, Zarember KA, Gallin JI, Holland SM, Malech HL (2015) An AAVS1-targeted minigene platform for correction of iPSCs from all five types of chronic granulomatous disease. Mol Ther 23:147–157
doi: 10.1038/mt.2014.195
-
Miyakawa K, Matsunaga S, Yokoyama M, Nomaguchi M, Kimura Y, Nishi M, Kimura H, Sato H, Hirano H, Tamura T, Akari H, Miura T, Adachi A, Sawasaki T, Yamamoto N, Ryo A (2019) PIM kinases facilitate lentiviral evasion from SAMHD1 restriction via Vpx phosphorylation. Nat Commun 10:1844
doi: 10.1038/s41467-019-09867-7
-
Mousnier A, Kubat N, Massias-Simon A, Segeral E, Rain JC, Benarous R, Emiliani S, Dargemont C (2007) von Hippel Lindau binding protein 1-mediated degradation of integrase affects HIV-1 gene expression at a postintegration step. Proc Natl Acad Sci USA 104:13615–13620
doi: 10.1073/pnas.0705162104
-
Natsume T, Kiyomitsu T, Saga Y, Kanemaki MT (2016) Rapid protein depletion in human cells by auxin-inducible degron tagging with short homology donors. Cell Rep 15:210–218
doi: 10.1016/j.celrep.2016.03.001
-
Nishimura K, Fukagawa T, Takisawa H, Kakimoto T, Kanemaki M (2009) An auxin-based degron system for the rapid depletion of proteins in nonplant cells. Nat Methods 6:917–922
doi: 10.1038/nmeth.1401
-
Patil G, Xu L, Wu Y, Song K, Hao W, Hua F, Wang L, Li S (2020) TRIM41-mediated ubiquitination of nucleoprotein limits vesicular stomatitis virus infection. Viruses 12:131
doi: 10.3390/v12020131
-
Pommier Y, Johnson AA, Marchand C (2005) Integrase inhibitors to treat HIV/AIDS. Nat Rev Drug Discov 4:236–248
doi: 10.1038/nrd1660
-
Portnoff AD, Stephens EA, Varner JD, DeLisa MP (2014) Ubiquibodies, synthetic E3 ubiquitin ligases endowed with unnatural substrate specificity for targeted protein silencing. J Biol Chem 289:7844–7855
doi: 10.1074/jbc.M113.544825
-
Pyeon D, Timani KA, Gulraiz F, He JJ, Park IW (2016) Function of ubiquitin (Ub) specific protease 15 (USP15) in HIV-1 replication and viral protein degradation. Virus Res 223:161–169
doi: 10.1016/j.virusres.2016.07.009
-
Saeki Y (2017) Ubiquitin recognition by the proteasome. J Biochem 161:113–124
-
Schrijvers R, De Rijck J, Demeulemeester J, Adachi N, Vets S, Ronen K, Christ F, Bushman FD, Debyser Z, Gijsbers R (2012) LEDGF/p75-independent HIV-1 replication demonstrates a role for HRP-2 and remains sensitive to inhibition by LEDGINs. PLoS Pathog 8:e1002558
doi: 10.1371/journal.ppat.1002558
-
Sharma A, Slaughter A, Jena N, Feng L, Kessl JJ, Fadel HJ, Malani N, Male F, Wu L, Poeschla E, Bushman FD, Fuchs JR, Kvaratskhelia M (2014) A new class of multimerization selective inhibitors of HIV-1 integrase. PLoS Pathog 10:e1004171
doi: 10.1371/journal.ppat.1004171
-
Simon V, Bloch N, Landau NR (2015) Intrinsic host restrictions to HIV-1 and mechanisms of viral escape. Nat Immunol 16:546–553
doi: 10.1038/ni.3156
-
Smialowski P, Doose G, Torkler P, Kaufmann S, Frishman D (2012) PROSO Ⅱ–a new method for protein solubility prediction. FEBS J 279:2192–2200
doi: 10.1111/j.1742-4658.2012.08603.x
-
Sowd GA, Serrao E, Wang H, Wang W, Fadel HJ, Poeschla EM, Engelman AN (2016) A critical role for alternative polyadenylation factor CPSF6 in targeting HIV-1 integration to transcriptionally active chromatin. Proc Natl Acad Sci USA 113:E1054–1063
doi: 10.1073/pnas.1524213113
-
Yokoyama A, Cleary ML (2008) Menin critically links MLL proteins with LEDGF on cancer-associated target genes. Cancer Cell 14:36–46
doi: 10.1016/j.ccr.2008.05.003