Self-association of the Lentivirus protein, Nef

Retrovirology

Volumn 7, Issue , 2010, Pages

  Kwak, Youn Tae ^b   Raney, Alexa ^c   Kuo, Lillian S ^c   Denial, Sarah J ^a   Temple, Brenda R S ^a   Garcia, J Victor ^a   Foster, John L ^a  

^a UNIVERSITY OF NORTH CAROLINA SCHOOL OF MEDICINE   (United States)

^b BAYLOR INSTITUTE FOR IMMUNOLOGY RESEARCH   (United States)

^c UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; CYSTEINE; MYRISTIC ACID; NEF PROTEIN;

ARTICLE; CELL CULTURE; CELL LINE; CELL MEMBRANE; CELLULAR DISTRIBUTION; CYTOSOL; DIMERIZATION; EXPRESSION VECTOR; HUMAN IMMUNODEFICIENCY VIRUS 1; LENTIVIRINAE; NONHUMAN; OLIGOMERIZATION; PROTEIN ASSEMBLY; PROTEIN CROSS LINKING; PROTEIN LOCALIZATION; SIMIAN IMMUNODEFICIENCY VIRUS; CHEMICAL STRUCTURE; CHEMISTRY; HUMAN; IMMUNOPRECIPITATION; METABOLISM; PROTEIN CONFORMATION; PROTEIN MULTIMERIZATION; TUMOR CELL LINE;

HUMAN IMMUNODEFICIENCY VIRUS 1; LENTIVIRUS;

CELL LINE; CELL LINE, TUMOR; CELL MEMBRANE; CYTOSOL; HIV-1; HUMANS; IMMUNOPRECIPITATION; MODELS, MOLECULAR; NEF GENE PRODUCTS, HUMAN IMMUNODEFICIENCY VIRUS; PROTEIN CONFORMATION; PROTEIN MULTIMERIZATION; SIMIAN IMMUNODEFICIENCY VIRUS;

EID: 77956885987     PISSN: None     EISSN: 17424690     Source Type: Journal    
DOI: 10.1186/1742-4690-7-77     Document Type: Article

References (54)

1. Foster JL, Garcia JV. Role of Nef in HIV-1 replication and pathogenesis. Adv Pharmacol 2007, 55:389-409. full_text, 17586321.
2. Kirchhoff F, Schindler M, Specht A, Arhel N, Munch J. Role of Nef in primate lentiviral immunopathogenesis. Cell Mol Life Sci 2008, 65:2621-2636. 10.1007/s00018-008-8094-2, 18438604.
3. Kestler HW, Ringler DJ, Mori K, et al. Importance of the nef gene for maintenance of high virus loads and for development of AIDS. Cell 1991, 65:651-662. 10.1016/0092-8674(91)90097-I, 2032289.
4. Gorry PR, McPhee DA, Verity E, Dyer WB, Wesselingh SL, Learmont J, Sullivan JS, Roche M, Zaunders JJ, Gabuzda D, Crowe SM, Mills J, Lewin SR, Brew BJ, Cunningham AL, Churchill MJ. Pathogenicity and immunogenicity of attenuated, nef-deleted HIV-1 strains in vivo. Retrovirology 2007, 4:66. 10.1186/1742-4690-4-66, 2075523, 17888184.
5. Arold S, Franken P, Strub MP, Hoh F, Benichou S, Benarous R, Dumas C. The crystal structure of HIV-1 Nef protein bound to the Fyn kinase SH3 domain suggests a role for this complex in altered T cell receptor signaling. Structure 1997, 5(10):1361-1372. 10.1016/S0969-2126(97)00286-4, 9351809.
6. Lindwasser OW, Smith WJ, Chaudhuri R, Yang P, Hurley JH, Bonifacino JS. A diacidic motif in human immunodeficiency virus type 1 Nef is a novel determinant of binding to AP-2. J Virol 2008, 82(3):1166-1174. 10.1128/JVI.01874-07, 2224420, 18032517.
7. Noviello CM, Benichou S, Guatelli JC. Cooperative binding of the class I major histocompatibility complex cytoplasmic domain and human immunodeficiency virus type 1 Nef to the endosomal AP-1 complex via its mu subunit. J Virol 2008, 82(3):1249-1258. 10.1128/JVI.00660-07, 2224416, 18057255.
8. O'Neill E, Kuo LS, Krisko JF, Tomchick DR, Garcia JV, Foster JL. Dynamic evolution of the human immunodeficiency virus type 1 pathogenic factor, Nef. J Virol 2006, 80(3):1311-1320. 10.1128/JVI.80.3.1311-1320.2006, 1346962, 16415008.
9. Shugars DC, Smith MS, Glueck DH, Nantermet PV, Seillier-Moiseiwitsch F, Swanstrom R. Analysis of human immunodeficiency virus type 1 nef gene sequences present in vivo. J Virol 1993, 67(8):4639-4650. 237849, 8043040.
10. Arold S, Hoh F, Domergue S, Birck C, Delsuc MA, Jullien M, Dumas C. Characterization and molecular basis of the oligomeric structure of HIV-1 nef protein. Protein Sci 2000, 9(6):1137-1148. 10.1110/ps.9.6.1137, 2144662, 10892807.
11. Hodge DR, Chen YM, Samuel KP. Oligomerization of the HIV type 2 Nef protein: mutational analysis of the heptad leucine repeat motif and cysteine residues. AIDS Res Hum Retroviruses 1995, 11(1):65-79. 10.1089/aid.1995.11.65, 7734198.
12. Kienzle N, Freund J, Kalbitzer HR, Mueller-Lantzsch N. Oligomerization of the Nef protein from human immunodeficiency virus (HIV) type 1. Eur J Biochem 1993, 214(2):451-457. 10.1111/j.1432-1033.1993.tb17941.x, 8513795.
13. Poe JA, Smithgall TE. HIV-1 Nef dimerization is required for Nef-mediated receptor downregulation and viral replication. J Mol Biol 2009, 394(2):329-342. 10.1016/j.jmb.2009.09.047, 19781555.
14. Arold ST, Baur AS. Dynamic Nef and Nef dynamics: how structure could explain the complex activities of this small HIV protein. Trends Biochem Sci 2001, 26(6):356-363. 10.1016/S0968-0004(01)01846-1, 11406408.
15. Breuer S, Gerlach H, Kolaric B, Urbanke C, Opitz N, Geyer M. Biochemical indication for myristoylation-dependent conformational changes in HIV-1 Nef. Biochemistry 2006, 45(7):2339-2349. 10.1021/bi052052c, 16475823.
16. Bentham M, Mazaleyrat S, Harris M. Role of myristoylation and N-terminal basic residues in membrane association of the human immunodeficiency virus type 1 Nef protein. J Gen Virol 2006, 87(Pt 3):563-571. 10.1099/vir.0.81200-0, 16476977.
17. Gerlach H, Laumann V, Martens S, Becker CF, Goody RS, Geyer M. HIV-1 Nef membrane association depends on charge, curvature, composition and sequence. Nat Chem Biol 2010, 6(1):46-53. 10.1038/nchembio.268, 19935658.
18. Liu LX, Heveker N, Fackler OT, Arold S, Le Gall S, Janvier K, Peterlin BM, Dumas C, Schwartz O, Benichou S, Benarous R. Mutation of a conserved residue (D123) required for oligomerization of human immunodeficiency virus type 1 Nef protein abolishes interaction with human thioesterase and results in impairment of Nef biological functions. J Virol 2000, 74(11):5310-5319. 10.1128/JVI.74.11.5310-5319.2000, 110886, 10799608.
19. Ye H, Choi HJ, Poe J, Smithgall TE. Oligomerization is required for HIV-1 Nef-induced activation of the Src family protein-tyrosine kinase, Hck. Biochemistry 2004, 43(50):15775-15784. 10.1021/bi048712f, 15595833.
20. Cullen BR. The role of Nef in the replication cycle of the human and simian immunodeficiency viruses. Virology 1994, 205(1):1-6. 10.1006/viro.1994.1613, 7975204.
21. Fackler OT, Moris A, Tibroni N, Giese SI, Glass B, Schwartz O, Kräusslich HG. Functional characterization of HIV-1 Nef mutants in the context of viral infection. Virology 2006, 351(2):322-339. 10.1016/j.virol.2006.03.044, 16684552.
22. Giese SI, Woerz I, Homann S, Tibroni N, Geyer M, Fackler OT. Specific and distinct determinants mediate membrane binding and lipid raft incorporation of HIV-1(SF2) Nef. Virology 2006, 355(2):175-191. 10.1016/j.virol.2006.07.003, 16916529.
23. Kaminchik J, Margalit R, Yaish S, Drummer H, Amit B, Sarver N, Gorecki M, Panet A. Cellular distribution of HIV type 1 Nef protein: identification of domains in Nef required for association with membrane and detergent-insoluble cellular matrix. AIDS Res Hum Retroviruses 1994, 10(8):1003-1010. 10.1089/aid.1994.10.1003, 7811531.
24. Welker R, Harris M, Cardel B, Kräusslich HG. Virion incorporation of human immunodeficiency virus type 1 Nef is mediated by a bipartite membrane-targeting signal: analysis of its role in enhancement of viral infectivity. J Virol 1998, 72(11):8833-8840. 110300, 9765428.
25. Yu G, Felsted RL. Effect of myristoylation on p27 nef subcellular distribution and suppression of HIV-LTR transcription. Virology 1992, 187(1):46-55. 10.1016/0042-6822(92)90293-X, 1736544.
26. Greenberg ME, Iafrate AJ, Skowronski J. The SH3 domain-binding surface and an acidic motif in HIV-1 Nef regulate trafficking of class I MHC complexes. EMBO J 1998, 17(10):2777-2789. 10.1093/emboj/17.10.2777, 1170618, 9582271.
27. Rudolph JM, Eickel N, Haller C, Schindler M, Fackler OT. Inhibition of T-cell receptor-induced actin remodeling and relocalization of Lck are evolutionarily conserved activities of lentiviral Nef proteins. J Virol 2009, 83(22):11528-11539. 10.1128/JVI.01423-09, 2772722, 19726522.
28. Swigut T, Iafrate AJ, Muench J, Kirchhoff F, Skowronski J. Simian and human immunodeficiency virus Nef proteins use different surfaces to downregulate class I major histocompatibility complex antigen expression. J Virol 2000, 74(12):5691-701. 10.1128/JVI.74.12.5691-5701.2000, 112057, 10823877.
29. Hill BT, Skowronski J. Human N-myristoyltransferases form stable complexes with lentiviral nef and other viral and cellular substrate proteins. J Virol 2005, 79(2):1133-1141. 10.1128/JVI.79.2.1133-1141.2005, 538564, 15613341.
30. Janardhan A, Swigut T, Hill B, Myers MP, Skowronski J. HIV-1 Nef binds the DOCK2-ELMO1 complex to activate rac and inhibit lymphocyte chemotaxis. PLoS Biol 2004, 2(1):E6. 10.1371/journal.pbio.0020006, 314466, 14737186.
31. Raney A, Shaw AY, Foster JL, Garcia JV. Structural constraints on human immunodeficiency virus type 1 Nef function. Virology 2007, 368(1):7-16. 10.1016/j.virol.2007.02.036, 17632197.
32. Orlando V. Mapping chromosomal proteins in vivo by formaldehyde-crosslinked-chromatin immunoprecipitation. Trends Biochem Sci 2000, 25(3):99-104. 10.1016/S0968-0004(99)01535-2, 10694875.
33. Aiken C, Krause L, Chen YL, Trono D. Mutational analysis of HIV-1 Nef: identification of two mutants that are temperature-sensitive for CD4 downregulation. Virology 1996, 217(1):293-300. 10.1006/viro.1996.0116, 8599214.
34. Zazopoulos E, Haseltine WA. Mutational analysis of the human immunodeficiency virus type 1 Eli Nef function. Proc Natl Acad Sci USA 1992, 89(14):6634-6638. 10.1073/pnas.89.14.6634, 49556, 1631166.
35. Cohen GB, Rangan VS, Chen BK, Smith S, Baltimore D. The human thioesterase II protein binds to a site on HIV-1 Nef critical for CD4 down-regulation. J Biol Chem 2000, 275(30):23097-23105. 10.1074/jbc.M000536200, 10807905.
36. Williams M, Roeth JF, Kasper MR, Filzen TM, Collins KL. Human immunodeficiency virus type 1 Nef domains required for disruption of major histocompatibility complex class I trafficking are also necessary for coprecipitation of Nef with HLA-A2. J Virol 2005, 79(1):632-636. 10.1128/JVI.79.1.632-636.2005, 538737, 15596859.
37. Kim WM, Sigalov AB, Stern LJ. Pseudo-merohedral twinning and noncrystallographic symmetry in orthorhombic crystals of SIVmac239 Nef core domain bound to different-length TCRzeta fragments. Acta Crystallogr D Biol Crystallogr 2010, 66(Pt 2):163-75. 10.1107/S090744490904880X, 2815668, 20124696.
38. Grzesiek S, Stahl SJ, Wingfield PT, Bax A. The CD4 determinant for downregulation by HIV-1 Nef directly binds to Nef. Mapping of the Nef binding surface by NMR. Biochemistry 1996, 35(32):10256-10261. 10.1021/bi9611164, 8756680.
39. Lee CH, Saksela K, Mirza UA, Chait BT, Kuriyan J. Crystal structure of the conserved core of HIV-1 Nef complexed with a Src family SH3 domain. Cell 1996, 85(6):931-942. 10.1016/S0092-8674(00)81276-3, 8681387.
40. Chaudhuri R, Lindwasser OW, Smith WJ, Hurley JH, Bonifacino JS. Downregulation of CD4 by human immunodeficiency virus type 1 Nef is dependent on clathrin and involves direct interaction of Nef with the AP2 clathrin adaptor. J Virol 2007, 81(8):3877-3890. 10.1128/JVI.02725-06, 1866153, 17267500.
41. Wonderlich ER, Williams M, Collins KL. The tyrosine binding pocket in the adaptor protein 1 (AP-1) mu1 subunit is necessary for Nef to recruit AP-1 to the major histocompatibility complex class I cytoplasmic tail. J Biol Chem 2008, 283(6):3011-3022. 10.1074/jbc.M707760200, 18073204.
42. Singh RK, Lau D, Noviello CM, Ghosh P, Guatelli JC. An MHC-I cytoplasmic domain/HIV-1 Nef fusion protein binds directly to the mu subunit of the AP-1 endosomal coat complex. PLoS One 2009, 4(12):e8364. 10.1371/journal.pone.0008364, 2791223, 20020046.
43. Foster JL, Molina RP, Luo T, Arora VK, Huang Y, Ho DD, Garcia JV. Genetic and functional diversity of human immunodeficiency virus type 1 subtype B Nef primary isolates. J Virol 2001, 75(4):1672-1680. 10.1128/JVI.75.4.1672-1680.2001, 114076, 11160665.
44. Phizicky EM, Fields S. Protein-protein interactions: methods for detection and analysis. Microbiol Rev 1995, 59(1):94-123. 239356, 7708014.
45. Geyer M, Munte CE, Schorr J, Kellner R, Kalbitzer HR. Structure of the anchor-domain of myristoylated and non-myristoylated HIV-1 Nef protein. J Mol Biol 1999, 289(1):123-138. 10.1006/jmbi.1999.2740, 10339411.
46. Grzesiek S, Bax A, Hu JS, Kaufman J, Palmer I, Stahl SJ, Tjandra N, Wingfield PT. Refined solution structure and backbone dynamics of HIV-1 Nef. Protein Sci 1997, 6(6):1248-1263. 10.1002/pro.5560060613, 2143732, 9194185.
47. Groesch TD, Freire E. Characterization of intramolecular interactions of HIV-1 accessory protein Nef by differential scanning calorimetry. Biophys Chem 2007, 126(1-3):36-42. 10.1016/j.bpc.2006.05.007, 16730880.
48. Hochrein JM, Wales TE, Lerner EC, Schiavone AP, Smithgall TE, Engen JR. Conformational features of the full-length HIV and SIV Nef proteins determined by mass spectrometry. Biochemistry 2006, 45(25):7733-7739. 10.1021/bi060438x, 16784224.
49. Hoffmann S, Jonas E, König S, Preusser-Kunze A, Willbold D. Nef protein of human immunodeficiency virus type 1 binds its own myristoylated N-terminus. Biol Chem 2007, 388(2):181-183. 10.1515/BC.2007.020, 17261081.
50. Trible RP, Emert-Sedlak L, Wales TE, Ayyavoo V, Engen JR, Smithgall TE. Allosteric loss-of-function mutations in HIV-1 Nef from a long-term non-progressor. J Mol Biol 2007, 374(1):121-129. 10.1016/j.jmb.2007.09.009, 2117379, 17920628.
51. Wain-Hobson S. The fastest genome evolution ever described: HIV variation in situ. Curr Opin Genet Dev 1993, 3(6):878-83. 10.1016/0959-437X(93)90008-D, 7509668.
52. Chang AH, Hoxie JA, Cassol S, O'Shaughnessy M, Jirik F. Construction of single-chain antibodies that bind an overlapping epitope of HIV-1 Nef. FEBS Lett 1998, 441(2):307-312. 10.1016/S0014-5793(98)01569-5, 9883905.
53. Henikoff S, Henikoff JG. Amino acid substitution matrices from protein blocks. Proc Natl Acad Sci USA 1992, 89(22):10915-10919. 10.1073/pnas.89.22.10915, 50453, 1438297.
54. Garcia JV, Foster JL. Structural and functional correlates between HIV-1 and SIV Nef isolates. Virology 1996, 226(2):161-166. 10.1006/viro.1996.0642, 8955034.