1piq Citations

Crystal structure of GCN4-pIQI, a trimeric coiled coil with buried polar residues.

J. Mol. Biol. 284 859-65 (1998)
Cited: 52 times
EuropePMC logo PMID: 9837709


Coiled coils consist of two or more alpha-helices wrapped around each other with a superhelical twist. The interfaces between helices of a coiled coil are formed by hydrophobic amino acid residues packed in a "knobs-into-holes" arrangement. Most naturally occurring coiled coils, however, also contain buried polar residues, as do the cores of the majority of naturally occurring globular proteins. Two common buried polar residues in both dimeric and trimeric coiled coils are asparagine and glutamine. In dimeric coiled coils, buried asparagine, but not glutamine, residues have been shown to confer specificity of oligomerization. We have placed a glutamine residue in the otherwise hydrophobic interior of a stable trimeric coiled coil, GCN4-pII, to study the effect of this buried polar residue in a trimeric coiled-coil environment. The resulting peptide, GCN4-pIQI, is a discrete, trimeric coiled coil with a lower stability than GCN4-pII. The crystal structure determined to 1.8 A shows that GCN4-pIQI is a trimeric coiled coil with a chloride ion coordinated by one buried glutamine residue from each monomer.

Articles - 1piq mentioned but not cited (2)

  1. A Cysteine Zipper Stabilizes a Pre-Fusion F Glycoprotein Vaccine for Respiratory Syncytial Virus. Stewart-Jones GB, Thomas PV, Chen M, Druz A, Joyce MG, Kong WP, Sastry M, Soto C, Yang Y, Zhang B, Chen L, Chuang GY, Georgiev IS, McLellan JS, Srivatsan S, Zhou T, Baxa U, Mascola JR, Graham BS, Kwong PD. PLoS ONE 10 e0128779 (2015)
  2. Folding a protein with equal probability of being helix or hairpin. Lin CY, Chen NY, Mou CY. Biophys. J. 103 99-108 (2012)

Reviews citing this publication (6)

  1. Development of Small-molecule HIV Entry Inhibitors Specifically Targeting gp120 or gp41. Lu L, Yu F, Cai L, Debnath AK, Jiang S. Curr Top Med Chem 16 1074-1090 (2016)
  2. Progress in identifying peptides and small-molecule inhibitors targeted to gp41 of HIV-1. Debnath AK. Expert Opin Investig Drugs 15 465-478 (2006)
  3. Protein oligomerization: how and why. Ali MH, Imperiali B. Bioorg. Med. Chem. 13 5013-5020 (2005)
  4. Mechanisms of viral membrane fusion and its inhibition. Eckert DM, Kim PS. Annu. Rev. Biochem. 70 777-810 (2001)
  5. Development of HIV entry inhibitors targeted to the coiled-coil regions of gp41. Jiang S, Debnath AK. Biochem. Biophys. Res. Commun. 269 641-646 (2000)
  6. Helical peptide and protein design. Micklatcher C, Chmielewski J. Curr Opin Chem Biol 3 724-729 (1999)

Articles citing this publication (44)

  1. Inhibiting HIV-1 entry: discovery of D-peptide inhibitors that target the gp41 coiled-coil pocket. Eckert DM, Malashkevich VN, Hong LH, Carr PA, Kim PS. Cell 99 103-115 (1999)
  2. Polar side chains drive the association of model transmembrane peptides. Gratkowski H, Lear JD, DeGrado WF. Proc. Natl. Acad. Sci. U.S.A. 98 880-885 (2001)
  3. Core structure of the envelope glycoprotein GP2 from Ebola virus at 1.9-A resolution. Malashkevich VN, Schneider BJ, McNally ML, Milhollen MA, Pang JX, Kim PS. Proc. Natl. Acad. Sci. U.S.A. 96 2662-2667 (1999)
  4. Design of potent inhibitors of HIV-1 entry from the gp41 N-peptide region. Eckert DM, Kim PS. Proc. Natl. Acad. Sci. U.S.A. 98 11187-11192 (2001)
  5. A stable trimeric influenza hemagglutinin stem as a broadly protective immunogen. Impagliazzo A, Milder F, Kuipers H, Wagner MV, Zhu X, Hoffman RM, van Meersbergen R, Huizingh J, Wanningen P, Verspuij J, de Man M, Ding Z, Apetri A, Kükrer B, Sneekes-Vriese E, Tomkiewicz D, Laursen NS, Lee PS, Zakrzewska A, Dekking L, Tolboom J, Tettero L, van Meerten S, Yu W, Koudstaal W, Goudsmit J, Ward AB, Meijberg W, Wilson IA, Radošević K. Science 349 1301-1306 (2015)
  6. Dissection of human immunodeficiency virus type 1 entry with neutralizing antibodies to gp41 fusion intermediates. Golding H, Zaitseva M, de Rosny E, King LR, Manischewitz J, Sidorov I, Gorny MK, Zolla-Pazner S, Dimitrov DS, Weiss CD. J. Virol. 76 6780-6790 (2002)
  7. Covalent stabilization of coiled coils of the HIV gp41 N region yields extremely potent and broad inhibitors of viral infection. Bianchi E, Finotto M, Ingallinella P, Hrin R, Carella AV, Hou XS, Schleif WA, Miller MD, Geleziunas R, Pessi A. Proc. Natl. Acad. Sci. U.S.A. 102 12903-12908 (2005)
  8. Cryo-electron microscopy structure of a coronavirus spike glycoprotein trimer. Walls AC, Tortorici MA, Bosch BJ, Frenz B, Rottier PJM, DiMaio F, Rey FA, Veesler D. Nature 531 114-117 (2016)
  9. De novo design of protein homo-oligomers with modular hydrogen-bond network-mediated specificity. Boyken SE, Chen Z, Groves B, Langan RA, Oberdorfer G, Ford A, Gilmore JM, Xu C, DiMaio F, Pereira JH, Sankaran B, Seelig G, Zwart PH, Baker D. Science 352 680-687 (2016)
  10. Crystal structure and size-dependent neutralization properties of HK20, a human monoclonal antibody binding to the highly conserved heptad repeat 1 of gp41. Sabin C, Corti D, Buzon V, Seaman MS, Lutje Hulsik D, Hinz A, Vanzetta F, Agatic G, Silacci C, Mainetti L, Scarlatti G, Sallusto F, Weiss R, Lanzavecchia A, Weissenhorn W. PLoS Pathog. 6 e1001195 (2010)
  11. Structural characterization of the fusion-active complex of severe acute respiratory syndrome (SARS) coronavirus. Ingallinella P, Bianchi E, Finotto M, Cantoni G, Eckert DM, Supekar VM, Bruckmann C, Carfi A, Pessi A. Proc. Natl. Acad. Sci. U.S.A. 101 8709-8714 (2004)
  12. Crystal structure of the oligomerization domain of NSP4 from rotavirus reveals a core metal-binding site. Bowman GD, Nodelman IM, Levy O, Lin SL, Tian P, Zamb TJ, Udem SA, Venkataraghavan B, Schutt CE. J. Mol. Biol. 304 861-871 (2000)
  13. Coiled coils at the edge of configurational heterogeneity. Structural analyses of parallel and antiparallel homotetrameric coiled coils reveal configurational sensitivity to a single solvent-exposed amino acid substitution. Yadav MK, Leman LJ, Price DJ, Brooks CL, Stout CD, Ghadiri MR. Biochemistry 45 4463-4473 (2006)
  14. A novel fluorescence intensity screening assay identifies new low-molecular-weight inhibitors of the gp41 coiled-coil domain of human immunodeficiency virus type 1. Cai L, Gochin M. Antimicrob. Agents Chemother. 51 2388-2395 (2007)
  15. Binding of a potent small-molecule inhibitor of six-helix bundle formation requires interactions with both heptad-repeats of the RSV fusion protein. Roymans D, De Bondt HL, Arnoult E, Geluykens P, Gevers T, Van Ginderen M, Verheyen N, Kim H, Willebrords R, Bonfanti JF, Bruinzeel W, Cummings MD, van Vlijmen H, Andries K. Proc. Natl. Acad. Sci. U.S.A. 107 308-313 (2010)
  16. Glycan shield and epitope masking of a coronavirus spike protein observed by cryo-electron microscopy. Walls AC, Tortorici MA, Frenz B, Snijder J, Li W, Rey FA, DiMaio F, Bosch BJ, Veesler D. Nat. Struct. Mol. Biol. 23 899-905 (2016)
  17. Testing the 3Q:1R "rule": mutational analysis of the ionic "zero" layer in the yeast exocytic SNARE complex reveals no requirement for arginine. Katz L, Brennwald P. Mol. Biol. Cell 11 3849-3858 (2000)
  18. The retro-GCN4 leucine zipper sequence forms a stable three-dimensional structure. Mittl PR, Deillon C, Sargent D, Liu N, Klauser S, Thomas RM, Gutte B, Grütter MG. Proc. Natl. Acad. Sci. U.S.A. 97 2562-2566 (2000)
  19. Crystal structure of a designed, thermostable, heterotrimeric coiled coil. Nautiyal S, Alber T. Protein Sci 8 84-90 (1999)
  20. Domain organization and polarity of tail needle GP26 in the portal vertex structure of bacteriophage P22. Bhardwaj A, Olia AS, Walker-Kopp N, Cingolani G. J. Mol. Biol. 371 374-387 (2007)
  21. Thermodynamic characterization of the binding interaction between the histone demethylase LSD1/KDM1 and CoREST. Hwang S, Schmitt AA, Luteran AE, Toone EJ, McCafferty DG. Biochemistry 50 546-557 (2011)
  22. Self-association and domains of interactions of an amphipathic helix peptide inhibitor of HIV-1 integrase assessed by analytical ultracentrifugation and NMR experiments in trifluoroethanol/H(2)O mixtures. Maroun RG, Krebs D, El Antri S, Deroussent A, Lescot E, Troalen F, Porumb H, Goldberg ME, Fermandjian S. J. Biol. Chem. 274 34174-34185 (1999)
  23. Design and characterization of ebolavirus GP prehairpin intermediate mimics as drug targets. Clinton TR, Weinstock MT, Jacobsen MT, Szabo-Fresnais N, Pandya MJ, Whitby FG, Herbert AS, Prugar LI, McKinnon R, Hill CP, Welch BD, Dye JM, Eckert DM, Kay MS. Protein Sci. 24 446-463 (2015)
  24. Long-Lasting Cross-Protection Against Influenza A by Neuraminidase and M2e-based immunization strategies. Schotsaert M, Ysenbaert T, Smet A, Schepens B, Vanderschaeghe D, Stegalkina S, Vogel TU, Callewaert N, Fiers W, Saelens X. Sci Rep 6 24402 (2016)
  25. Contributions of the ionization states of acidic residues to the stability of the coiled coil domain of matrilin-1. Dames SA, Kammerer RA, Moskau D, Engel J, Alexandrescu AT. FEBS Lett. 446 75-80 (1999)
  26. X-ray structure of a water-soluble analog of the membrane protein phospholamban: sequence determinants defining the topology of tetrameric and pentameric coiled coils. Slovic AM, Stayrook SE, North B, Degrado WF. J. Mol. Biol. 348 777-787 (2005)
  27. A trimeric lipoprotein assists in trimeric autotransporter biogenesis in enterobacteria. Grin I, Hartmann MD, Sauer G, Hernandez Alvarez B, Schütz M, Wagner S, Madlung J, Macek B, Felipe-Lopez A, Hensel M, Lupas A, Linke D. J. Biol. Chem. 289 7388-7398 (2014)
  28. Crystal structure of the leucine zipper domain of small-conductance Ca2+-activated K+ (SK(Ca)) channel from Rattus norvegicus. Kim JY, Kim MK, Kang GB, Park CS, Eom SH. Proteins 70 568-571 (2008)
  29. Improved expression of secretory and trimeric proteins in mammalian cells via the introduction of a new trimer motif and a mutant of the tPA signal sequence. Wang JY, Song WT, Li Y, Chen WJ, Yang D, Zhong GC, Zhou HZ, Ren CY, Yu HT, Ling H. Appl. Microbiol. Biotechnol. 91 731-740 (2011)
  30. Tectonic conformational changes of a coronavirus spike glycoprotein promote membrane fusion. Walls AC, Tortorici MA, Snijder J, Xiong X, Bosch BJ, Rey FA, Veesler D. Proc. Natl. Acad. Sci. U.S.A. 114 11157-11162 (2017)
  31. TNF receptor-1 (TNF-R1) ubiquitous scaffolding and signaling protein interacts with TNF-R1 and TRAF2 via an N-terminal docking interface. Terry Powers JL, Mace KE, Parfrey H, Lee SJ, Zhang G, Riches DW. Biochemistry 49 7821-7829 (2010)
  32. Amino acid derivatives of the (-) enantiomer of gossypol are effective fusion inhibitors of human immunodeficiency virus type 1. An T, Ouyang W, Pan W, Guo D, Li J, Li L, Chen G, Yang J, Wu S, Tien P. Antiviral Res. 94 276-287 (2012)
  33. Combination of cysteine- and oligomerization domain-mediated protein immobilization on a surface plasmon resonance (SPR) gold chip surface. Park K, Lee JM, Jung Y, Habtemariam T, Salah AW, Fermin CD, Kim M. Analyst 136 2506-2511 (2011)
  34. Glycan Shield and Fusion Activation of a Deltacoronavirus Spike Glycoprotein Fine-Tuned for Enteric Infections. Xiong X, Tortorici MA, Snijder J, Yoshioka C, Walls AC, Li W, McGuire AT, Rey FA, Bosch BJ, Veesler D. J. Virol. 92 (2018)
  35. A time-resolved fluorescence assay to identify small-molecule inhibitors of HIV-1 fusion. Dams G, Van Acker K, Gustin E, Vereycken I, Bunkens L, Holemans P, Smeulders L, Clayton R, Ohagen A, Hertogs K. J Biomol Screen 12 865-874 (2007)
  36. Improving coiled coil stability while maintaining specificity by a bacterial hitchhiker selection system. Kükenshöner T, Wohlwend D, Niemöller C, Dondapati P, Speck J, Adeniran AV, Nieth A, Gerhardt S, Einsle O, Müller KM, Arndt KM. J. Struct. Biol. 186 335-348 (2014)
  37. Crucial steps in the structure determination of a coronavirus spike glycoprotein using cryo-electron microscopy. Walls A, Tortorici MA, Bosch BJ, Frenz B, Rottier PJ, DiMaio F, Rey FA, Veesler D. Protein Sci. 26 113-121 (2017)
  38. Engineering of the hydrophobic core of an alpha-helical coiled coil. Kiyokawa T, Kanaori K, Tajima K, Tanaka T. Biopolymers 55 407-414 (2000)
  39. A Single Immunization with Spike-Functionalized Ferritin Vaccines Elicits Neutralizing Antibody Responses against SARS-CoV-2 in Mice. Powell AE, Zhang K, Sanyal M, Tang S, Weidenbacher PA, Li S, Pham TD, Pak JE, Chiu W, Kim PS. ACS Cent Sci 7 183-199 (2021)
  40. Conformational Dynamics of Asparagine at Coiled-Coil Interfaces. Thomas F, Niitsu A, Oregioni A, Bartlett GJ, Woolfson DN. Biochemistry 56 6544-6554 (2017)
  41. High thermal stability imparted by a designed tandem Arg-Trp stretch in an alpha-helical coiled coil. Sakurai Y, Mizuno T, Hiroaki H, Gohda K, Oku J, Tanaka T. Angew. Chem. Int. Ed. Engl. 44 6180-6183 (2005)
  42. Crystal structure of a super leucine zipper, an extended two-stranded super long coiled coil. Diao J. Protein Sci. 19 319-326 (2010)
  43. Swapped-domain constructs of the glycoprotein-41 ectodomain are potent inhibitors of HIV infection. Chu S, Kaur H, Nemati A, Walsh JD, Partida V, Zhang SQ, Gochin M. ACS Chem. Biol. 10 1247-1257 (2015)
  44. Fcγ Receptors Contribute to the Antiviral Properties of Influenza Virus Neuraminidase-Specific Antibodies. Job ER, Ysenbaert T, Smet A, Van Hecke A, Meuris L, Kleanthous H, Saelens X, Vogel TU. mBio 10 (2019)