A novel, multilayer structure of a helical peptide

Protein Science

Volumn 5, Issue 3, 1996, Pages 414-421

  Taylor, K S ^a   Lou, M Z ^a   Chin, T M ^a   Yang, N C ^a   Garavito, R M ^a,b  

^a UNIVERSITY OF CHICAGO   (United States)

^b Michigan State University ^*  (United States)

Author keywords

amphiphilicity; de novo design; helix packing; peptide assembly; water mediated contacts

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; HYDROGEN BOND; HYDROPHOBICITY; NONHUMAN; PEPTIDE SYNTHESIS; PRIORITY JOURNAL; PROTEIN ASSEMBLY; PROTEIN CONFORMATION; PROTEIN PROTEIN INTERACTION; PROTEIN STRUCTURE; X RAY ANALYSIS; X RAY DIFFRACTION;

EID: 0029880863     PISSN: 09618368     EISSN: None     Source Type: Journal    
DOI: 10.1002/pro.5560050302     Document Type: Article

References (54)

1. Banerjee U, Tsui F, Balasubramanian T, Marshall G, Chan S. 1983. Structure of alamethicin in solution. One- and two-dimensional 1H nuclear magnetic resonance studies at 500 MHz. J Mol Biol 165:757-775.
2. Bechinger B, Kim Y, Chirlian L, Gesell J, Neumann J, Montal M, Tomich J, Zasloff M, Opella SJ. 1991. Orientations of amphipathic helical peptides in membrane bilayers determined by solid-state NMR spectroscopy. J Biomol NMR 1:167-173.
3. Blundell T, Barlow D, Borkakoti N, Thornton J. 1983. Solvent-induced distortions and the curvature of α-helices. Nature 306:281-283.
4. Brunger A. 1992. X-PLOR manual, version 3.1. New Haven, Connecticut: Yale University Press
5. Chakrabarti P, Bernard M, Rees D. 1986. Peptide-bond distortions and the curvature of α-helices. Biopolymers 25:1087-1093.
6. Chin T, Berndt K, Yang N. 1992. Self-assembling hexameric helical bundle forming peptides. J Am Chem Soc 114:2279-2280.
7. Choma C, Lear J, Nelson M, Dutton P. 1994. Design of a heme-binding four-helix bundle. J Am Chem Soc 116:856-865.
8. Chothia C, Levitt M, Richardson D. 1981. Helix to helix packing in proteins. J Mol Biol 145:215-250.
9. Collaborative Computational Project, N4. 1994. The CCP4 suite: Programs for protein crystallography. Ada Crystallogr D 50:760-763.
10. Crick F 1952. Is α-keratin a coiled coil? Nature 170:882-883.
11. Cruciani R, Barker J, Durell S, Raghunathan G, Guy H, Zasloff M, Stanley E. 1992. Magainin 2, a natural antibiotic from frog skin, forms ion channels in lipid bilayer membranes. Eur J Pharmacol 226:287-296.
12. Cruciani R, Barker J, Zasloff M, Chen H, Colamonici O. 1991. Antibiotic magainins exert cytolytic activity against transformed cell lines through channel formation. Proc Natl Acad Sci USA 88:3792-3796.
13. DeGrado VV. 1988. Design of peptides and proteins. Adv Prot Chem 39:51-124.
14. DeGrado W, Regan L, Ho S. 1987. The design of a four-helix bundle protein. Cold Spring Harbor Symp Quant Biol 52:521-526.
15. DeGrado W, Wasserman Z, Lear J 1989. Protein design, a minimalist approach. Science 243:622-628.
16. Engh R, Huber R. 1991. Accurate bond and angle parameters for X-ray protein structure refinement. Acta Crystallogr A 47:392-400.
17. Fox R, Richards F. 1982 A voltage-gated ion channel model inferred from the crystal structure of alamethacin at 1.5-Å resolution. Nature 300:325-330.
18. +2-binding protein. J Am Chem Soc 112:6710-6711.
19. Handel T, Williams S, DeGrado W. 1993. Metal ion-dependent modulation of the dynamics of a designed protein. Science 261:879-885.
20. Harbury P, Kim P, Alber T. 1994. Crystal structure of an isoleucine-zipper trimer. Nature 371:80-83.
21. Harbury P, Zhang T, Kim P, Alber T. 1993. A switch between two-, three-, and four-stranded coiled coils in GCN4 leucine zipper mutants. Science 262:1401-1407.
22. Hecht M, Richardson J, Richardson D, Ogden R. 1990. De novo design, expression, and characterization of Felix: A four-helix bundle protein of native-like sequence. Science 249:884-891
23. 1: Implications for protein design. Science 249:543-546.
24. Ho S, DeGrado W. 1987. Design of a 4-helix bundle protein: Synthesis of peptides which self-associate into a helical protein. J Am Chem Soc 109:6751-6758.
25. Hu Y, Chin T, Fleming G, Yang N. 1993. Fluorescence study of hexameric helical peptide systems. J Phys Chem 97:13330-13334.
26. Juretic D, Hendler R, Kamp F, Caughey W, Zasloff M, Westerhoff H. 1994. Magainin oligomers reversibly dissipate delta microH+ in cytochrome oxidase liposomes. Biochemistry 53:4562-4570.
27. Kabsch W. 1988 Evaluation of single-crystal X-ray diffraction data from a position sensitive detector. J Appl Crystallogr 21:916-924.
28. Kamtekar S, Schiffer J, Xiong H, Babik J, Hecht M. 1993 Protein design by binary patterning of polar and nonpolar ammo acids. Science 262: 1680-1685.
29. Karle I. 1994. Diffraction studies of model and natural peptides. In: S. White, ed. Membrane protein structure. New York: Oxford University Press, pp 355-381.
30. Karle I, Balaram P. 1990. Structural characteristics of α-helical peptide molecules containing Aib residues. Biochemistry 29:6747-6756.
31. 1]zervamicin, a membrane ion-channel peptide: Implications for gating mechanisms. Proc Nail Acad Sci USA 88:5307-5311.
32. Karle I, Flippen-Anderson J, Uma K, Balaram P. 1990. Synthetic peptide helices in crystals. Structure and antiparallel and skewed packing motifs for α-helices in two isomeric decapeptides. Biopolymers 30:719-731.
33. Lear J, Wasserman Z, DeGrado W. 1988. Synthetic amphiphilic peptide models for protein ion channels. Science 240:1177-1181.
34. Lovejoy B, Choe S, Cascio D, McRone D, DeGrado W, Eisenberg D. 1993. Crystal structure of a synthetic triple-stranded α-helical bundle. Science 259:1288-1293.
35. Lutgring R, Chmielewski J. 1994. General strategy for covalently stabilizing helical bundles: A novel five-helix bundle protein. J Am Chem Soc 116:6451-6452.
36. + salt bridges in short peptides of de novo design. Proc Natl Acad Sci USA 84:8898-8902.
37. Matsuzaki K, Murase O, Fujii N, Miyajima K. 1995. Translocation of a channel-forming antimicrobial peptide, magainin 2, across lipid bilayers by forming a pore. Biochemistry 34:6521-6526.
38. McLachlan A, Stewart M. 1975. Topomyosin coiled-coil interactions: Evidence for an unstaggered structure. J Mol Biol 98:293-304.
39. Messerschmidt A, Pflugrath J. 1987. Crystal orientation and X-ray pattern prediction routines for area-detector diffractometer systems in macromolecular crystallography. J Appl Crystallogr 20:306-315.
40. Montal M. 1995. Molecular mimicry in channel protein structure. Curr Opin Struct Biol 5:501-506.
41. Oblatt-Montal M, Bühler L, Iwamoto T, Tomich J, Montal M. 1993. Synthetic peptides and four-helix bundle proteins as model systems for the pore-forming structure of channel proteins. J Biol Chem 268:14601-14607.
42. O'Shea E, Klemm J, Kim P, Alber T. 1991. X-ray structure of the GCN4 leucine zipper, a two-stranded, parallel coiled coil. Science 254:539-544.
43. Presnell S, Cohen F. 1989. Topological distribution of four-α-helix bundles. Proc Natl Acad Sci USA 86:6592-6596.
44. Presta L, Rose G. 1988. Helix signals in proteins. Science 240:1632-1641.
45. Prive G, Ogihara N, Wesson L, Cascio D, Eisenberg D. 1995. A designer peptide at high resolution: Shake and bake solution of a 400 atom structure. Montreal, Canada: Am Crystallogr Assoc Annual Meeting. pp 149 [Abstr].
46. Ramachandran G, Sasisekharan V. 1968. Conformations of polypeptides and proteins. Adv Prot Chem 25:283-438.
47. Regan L, Clarke N. 1990. A tetrahedral zinc(II)-binding site introduced into a designed protein. Biochemistry 29:10878-10883.
48. Richardson J, Richardson D. 1988. Amino acid preferences for specific locations at the ends of α helices. Science 240:1649-1652.
49. Robertson D, Farid R, Moser C, Urbauer J, Mulholland S, Pidikiti R, Lear J, Wand A, DeGrado W, Dutton P. 1994. Design and synthesis of multiheam proteins. Nature 368:425-432.
50. Schafmeister C, Miercke L, Stroud R. 1993. Structure at 2.5 Å of a designed peptide that maintains solubility of membrane proteins. Science 262:734-738.
51. Serrano L, Fersht A. 1989. Capping and ̊-helix stability. Nature 342:296-299.
52. TerwilligerT, Weissman L, Eisenberg D. 1982. The structure of melittin in the form 1 crystals and its implication for melittin's lytic surface activities. Biophys J 37:353-361.
53. Tytler E, Anamharamaiah G, Walker D, Mishra V, Palgunachari M, Segrest J. 1995. Molecular basis for prokaryotic specificity of magainin-induced lysis. Biochemistry 34:4393-4401.
54. Weber P, Salemme F. 1980. Structural and functional diversity in 4-α-helical proteins. Nature 287:82-84.