Engineering complementary hydrophobic interactions to control β-hairpin peptide self-assembly, network branching, and hydrogel properties

Biomacromolecules

Volumn 15, Issue 11, 2014, Pages 3891-3900

  Sathaye, Sameer ^a   Zhang, Huixi ^b   Sonmez, Cem ^a,c   Schneider, Joel P ^c   Macdermaid, Christopher M ^b   Von Bargen, Christopher D ^b   Saven, Jeffery G ^b   Pochan, Darrin J ^a  

^a UNIVERSITY OF DELAWARE   (United States)

^b UNIVERSITY OF PENNSYLVANIA   (United States)

^c FREDERICK NATIONAL LABORATORY FOR CANCER RESEARCH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACIDS; CHAINS; HYDROGELS; MOLECULAR DYNAMICS; NANOFIBERS; PEPTIDES; SELF ASSEMBLY; SHEAR FLOW; SHEAR STRESS;

BETA-HAIRPIN; HYDROGEL FORMATION; HYDROGEL NETWORKS; HYDROPHOBIC CORE; HYDROPHOBIC INTERACTIONS; MOLECULAR DYNAMICS SIMULATIONS; MOLECULAR PICTURES; PEPTIDE SELF ASSEMBLIES;

HYDROPHOBICITY;

2 NAPHTHYLALANINE; ALANINE; BETA HAIRPIN PEPTIDE; LNK1 PEPTIDE; MAX1 PEPTIDE; PEPTIDE; UNCLASSIFIED DRUG; VALINE; HYDROGEL; PEPTIDE FRAGMENT;

ARTICLE; CIRCULAR DICHROISM; CONTROLLED STUDY; FIBER; HYDROGEL; HYDROGEN BOND; HYDROPHOBICITY; MOLECULAR DYNAMICS; PROTEIN PROTEIN INTERACTION; SHEAR STRESS; STEADY STATE; TRANSMISSION ELECTRON MICROSCOPY; CHEMICAL ENGINEERING; CHEMICAL PHENOMENA; CHEMISTRY; METABOLISM; PROCEDURES; PROTEIN FOLDING; PROTEIN SECONDARY STRUCTURE; PROTEIN TERTIARY STRUCTURE;

CHEMICAL ENGINEERING; HYDROGELS; HYDROPHOBIC AND HYDROPHILIC INTERACTIONS; PEPTIDE FRAGMENTS; PROTEIN FOLDING; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY;

EID: 84910091199     PISSN: 15257797     EISSN: 15264602     Source Type: Journal    
DOI: 10.1021/bm500874t     Document Type: Article

References (60)

1. Schneider, J. P.; Pochan, D. J.; Ozbas, B.; Rajagopal, K.; Pakstis, L.; Kretsinger, J. J. Am. Chem. Soc. 2002, 124, 15030
2. Pochan, D.; Schneider, J. Biopolymers 2003, 71, 317
3. Pochan, D. J.; Schneider, J. P.; Kretsinger, J.; Ozbas, B.; Rajagopal, K.; Haines, L. J. Am. Chem. Soc. 2003, 125, 11802
4. Ozbas, B.; Kretsinger, J.; Rajagopal, K.; Schneider, J. P.; Pochan, D. J. Macromolecules 2004, 37, 7331
5. Ozbas, B.; Rajagopal, K.; Schneider, J. P.; Pochan, D. J. Phys. Rev. Lett. 2004, 93
6. Rajagopal, K.; Ozbas, B.; Pochan, D. J.; Schneider, J. P. Eur. Biophys. J. 2006, 35, 162
7. Ozbas, B.; Rajagopal, K.; Haines-Butterick, L.; Schneider, J. P.; Pochan, D. J. J. Phys. Chem. B 2007, 111, 13901
8. Yucel, T.; Micklitsch, C. M.; Schneider, J. P.; Pochan, D. J. Macromolecules 2008, 41, 5763
9. Banwell, E. F.; Abelardo, E. S.; Adams, D. J.; Birchall, M. A.; Corrigan, A.; Donald, A. M.; Kirkland, M.; Serpell, L. C.; Butler, M. F.; Woolfson, D. N. Nat. Mater. 2009, 8, 596
10. Shen, W.; Lammertink, R. G. H.; Sakata, J. K.; Kornfield, J. A.; Tirrell, D. A. Macromolecules 2005, 38, 3909
11. Petka, W. A.; Harden, J. L.; McGrath, K. P.; Wirtz, D.; Tirrell, D. A. Science 1998, 281, 389
12. Jing, P.; Rudra, J. S.; Herr, A. B.; Collier, J. H. Biomacromolecules 2008, 9, 2438
13. Papapostolou, D.; Smith, A. M.; Atkins, E. D. T.; Oliver, S. J.; Ryadnov, M. G.; Serpell, L. C.; Woolfson, D. N. Proc. Natl. Acad. Sci. U. S. A. 2007, 104, 10853
14. Foo, C.; Lee, J. S.; Mulyasasmita, W.; Parisi-Amon, A.; Heilshorn, S. C. Proc. Natl. Acad. Sci. U. S. A. 2009, 106, 22067
15. Sacanna, S.; Irvine, W. T. M.; Chaikin, P. M.; Pine, D. J. Nature 2010, 464, 575
16. Sprules, T.; Green, N.; Featherstone, M.; Gehring, K. J. Biol. Chem. 2003, 278, 1053
17. Schwyzer, R. Biopolymers 1995, 37, 5
18. Helm, C. A.; Knoll, W.; Israelachvili, J. N. Proc. Natl. Acad. Sci. U. S. A. 1991, 88, 8169
19. Lichtenthaler, F. W. Angew. Chem., Int. Ed. 1994, 33, 2364
20. Wilchek, M.; Bayer, E. A. Anal. Biochem. 1988, 171, 1
21. Holzinger, M.; Singh, M.; Cosnier, S. Langmuir 2012, 28, 12569
22. Rohs, R.; Jin, X. S.; West, S. M.; Joshi, R.; Honig, B.; Mann, R. S. In Annual Review of Biochemistry; Kornberg, R. D.; Raetz, C. R. H.; Rothman, J. E.; Thorner, J. W., Eds.; Annual Reviews: Palo Alto, CA, 2010; Vol. 79, p 233.
23. Hamley, I. W. Angew. Chem., Int. Ed. 2007, 46, 8128
24. Cui, H. G.; Webber, M. J.; Stupp, S. I. Biopolymers 2010, 94, 1
25. van der Linden, E.; Venema, P. Curr. Opin. Colloid Interface Sci. 2007, 12, 158
26. Hartgerink, J. D.; Zubarev, E. R.; Stupp, S. I. Curr. Opin. Solid State Mater. Sci. 2001, 5, 355
27. Dobson, C. M. Semin. Cell Dev. Biol. 2004, 15, 3
28. Aggeli, A.; Nyrkova, I. A.; Bell, M.; Harding, R.; Carrick, L.; McLeish, T. C. B.; Semenov, A. N.; Boden, N. Proc. Natl. Acad. Sci. U. S. A. 2001, 98, 11857
29. Gosal, W. S.; Clark, A. H.; Ross-Murphy, S. B. Biomacromolecules 2004, 5, 2430
30. Gosal, W. S.; Clark, A. H.; Ross-Murphy, S. B. Biomacromolecules 2004, 5, 2408
31. Gosal, W. S.; Clark, A. H.; Ross-Murphy, S. B. Biomacromolecules 2004, 5, 2420
32. Veerman, C.; Rajagopal, K.; Palla, C. S.; Pochan, D. J.; Schneider, J. P.; Furst, E. M. Macromolecules 2006, 39, 6608
33. Rajagopal, K.; Lamm, M. S.; Haines-Butterick, L. A.; Pochan, D. J.; Schneider, J. P. Biomacromolecules 2009, 10, 2619
34. Micklitsch, C. M.; Knerr, P. J.; Branco, M. C.; Nagarkar, R.; Pochan, D. J.; Schneider, J. P. Angew. Chem.Int. Ed. 2011, 50, 1577
35. Rughani, R. V.; Branco, M. C.; Pochan, D.; Schneider, J. P. Macromolecules 2010, 43, 7924
36. Salick, D. A.; Kretsinger, J. K.; Pochan, D. J.; Schneider, J. P. J. Am. Chem. Soc. 2007, 129, 14793
37. Nagarkar, R. P.; Schneider, J. P. Methods Mol. Biol. (Clifton, N.J.) 2008, 474, 61
38. Canutescu, A. A.; Dunbrack, R. L. Protein Sci. 2003, 12, 963
39. Ting, D.; Wang, G. L.; Shapovalov, M.; Mitra, R.; Jordan, M. I.; Dunbrack, R. L. PLoS Comput. Biol. 2010, 6
40. Fry, H. C.; Lehmann, A.; Sinks, L. E.; Asselberghs, I.; Tronin, A.; Krishnan, V.; Blasie, J. K.; Clays, K.; DeGrado, W. F.; Saven, J. G.; Therien, M. J. J. Am. Chem. Soc. 2013, 135, 13914
41. Lanci, C. J.; MacDermaid, C. M.; Kang, S. G.; Acharya, R.; North, B.; Yang, X.; Qiu, X. J.; DeGrado, W. F.; Saven, J. G. Proc. Natl. Acad. Sci. U. S. A. 2012, 109, 7304
42. Chowdhury, P.; Wang, W.; Lavender, S.; Bunagan, M. R.; Klemke, J. W.; Tang, J.; Saven, J. G.; Cooperman, B. S.; Gai, F. J. Mol. Biol. 2007, 369, 462
43. Calhoun, J. R.; Kono, H.; Lahr, S.; Wang, W.; DeGrado, W. F.; Saven, J. G. J. Mol. Biol. 2003, 334, 1101
44. Phillips, J. C.; Braun, R.; Wang, W.; Gumbart, J.; Tajkhorshid, E.; Villa, E.; Chipot, C.; Skeel, R. D.; Kalé, L.; Schulten, K. Comput. Chem. 2005, 26, 1781
45. MacKerell, A. D.; Bashford, D.; Dunbrack, R. L.; Evanseck, J. D.; Field, M. J.; Fischer, S.; Gao, J.; Guo, H.; Ha, S.; Joseph-McCarthy, D.; Kuchnir, L.; Kuczera, K.; Lau, F. T. K.; Mattos, C.; Michnick, S.; Ngo, T.; Nguyen, D. T.; Prodhom, B.; Reiher, W. E.; Roux, B.; Schlenkrich, M.; Smith, J. C.; Stote, R.; Straub, J.; Watanabe, M.; Wiórkiewicz-Kuczera, J.; Yin, D.; Karplus, M. J. Phys. Chem. B 1998, 102, 3586
46. Jorgensen, W. L.; Chandrasekhar, J.; Madura, J. D.; Impey, R. W.; Klein, M. L. J. Chem. Phys. 1983, 79, 926
47. Humphrey, W.; Dalke, A.; Schulten, K. J. Mol. Graph. 1996, 14, 33
48. Nerenberg, P. S.; Head-Gordon, T. J. Chem. Theory Comput. 2011, 7, 1220
49. Shevchuk, R.; Prada-Gracia, D.; Rao, F. J. Phys. Chem. B 2012, 116, 7538
50. Ryckaert, J.-P.; Ciccotti, G.; Berendsen, H. J. C. J. Comput. Phys. 1977, 23, 327
51. Yan, C.; Altunbas, A.; Yucel, T.; Nagarkar, R. P.; Schneider, J. P.; Pochan, D. J. Soft Matter 2010, 6, 5143
52. Leonard, S. R.; Cormier, A. R.; Pang, X. D.; Zimmerman, M. I.; Zhou, H. X.; Paravastu, A. K. Biophys. J. 2013, 105, 222
53. Kahler, A.; Sticht, H.; Horn, A. H. C. PLoS One 2013, 8, e70521
54. Morriss-Andrews, A.; Bellesia, G.; Shea, J. E. J. Chem. Phys. 2012, 137
55. Larini, L.; Shea, J. E. Biophys. J. 2012, 103, 576
56. Melquiond, A.; Boucher, G.; Mousseau, N.; Derreumaux, P. J. Chem. Phys. 2005, 122, 174904/1
57. Wei, G.; Song, W.; Derreumaux, P.; Mousseau, N.; Wei, S. Front. Biosci. 2008, 13, 5681
58. Yu, X.; Wang, J.; Yang, J.-C.; Wang, Q.; Cheng, S. Z. D.; Nussinov, R.; Zheng, J. Biophys. J. 2010, 98, 27
59. Zheng, J.; Jang, H.; Ma, B.; Tsai, C.-J.; Nussinov, R. Biophys. J. 2007, 93, 3046
60. Hule, R. A.; Nagarkar, R. P.; Hammouda, B.; Schneider, J. P.; Pochan, D. J. Macromolecules 2009, 42, 7137