Amylose folding under the influence of lipids

Carbohydrate Research

Volumn 364, Issue , 2012, Pages 1-7

  López, Cesar A ^a   De Vries, Alex H ^a   Marrink, Siewert J ^a  

^a UNIVERSITY OF GRONINGEN   (Netherlands)

Author keywords

Carbohydrates; Molecular dynamics; Oligosaccharides; Protein folding; V Amylose

Indexed keywords

AMYLOSE CHAINS; COMPLEXATION PROCESS; EXPERIMENTAL EVIDENCE; HELICAL PITCH; HELICAL STRUCTURES; HYDROGEN BOND NETWORKS; MOLECULAR DYNAMICS SIMULATIONS; NON-POLAR LIGANDS; V-AMYLOSE;

CARBOHYDRATES; HYDROGEN BONDS; MOLECULAR DYNAMICS; OLIGOSACCHARIDES; PROTEIN FOLDING;

LIPIDS;

AMYLOSE; HYDROGEN; LIPID; POLYSACCHARIDE; UNCLASSIFIED DRUG; V AMYLOSE;

ALPHA HELIX; AQUEOUS SOLUTION; ARTICLE; COMPLEX FORMATION; CONTROLLED STUDY; CRYSTAL STRUCTURE; ENZYME STRUCTURE; HYDROGEN BOND; LIPID ANALYSIS; MOLECULAR DYNAMICS; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN FOLDING; X RAY CRYSTALLOGRAPHY;

1,2-DIPALMITOYLPHOSPHATIDYLCHOLINE; ALKANES; AMYLOSE; COMPUTATIONAL BIOLOGY; GLYCERIDES; HYDROGEN BONDING; MACROMOLECULAR SUBSTANCES; MOLECULAR CONFORMATION; MOLECULAR DYNAMICS SIMULATION; SOLUTIONS; SOLVENTS; STATIC ELECTRICITY; WATER;

EID: 84868224613     PISSN: 00086215     EISSN: 1873426X     Source Type: Journal    
DOI: 10.1016/j.carres.2012.10.007     Document Type: Article

References (49)

1. N.W.H. Cheetham, and L. Tao Carbohydr. Polym. 35 1998 287 295
2. J. Nuessli, J.L. Putaux, P.L. Bail, and A. Buléon Int. J. Biol. Macromol. 33 2003 227 234
3. W. Helbert, and H. Chanzy Int. J. Biol. Macromol. 16 1994 207 213
4. M.B. Cardoso, J.-L. Putaux, Y. Nishiyama, W. Helbert, M. Hÿtch, N.P. Silveira, and H. Chanzy Biomacromolecules 8 2007 1319 1326
5. Ahmadi-Abhari, S.; Woortman, A. J. J.; Hamer, R. J.; Oudhuis, A. A. C. M.; Loos, K. Carbohydr. Polym. in press. http://dx.doi.org/10.1016/j.carbpol. 2012.05.020.
6. S. Zabar, U. Lesmes, I. Katz, E. Shimoni, and H. Bianco-Peled Food Hydrocolloids 23 2009 1918 1925
7. M. Kowblansky Macromolecules 18 1985 1776 1779
8. M.C. Godet, V. Tran, M.M. Delage, and A. Buléon Int. J. Biol. Macromol. 15 1993 11 16
9. J. Putseys, L. Lamberts, and J.J. Delcour Cereal Sci. 51 2010 238 247
10. K.N. Kirschner, A.B. Yongye, S.M. Tschampel, J. González- Outeirino, C.R. Daniels, B.L. Foley, and R.J.J. Woods Comput. Chem. 29 2008 622 655
11. R. Behrends, and U. Kaatze ChemPhysChem 6 2005 1133 1145
12. D.F.J. Green Phys. Chem. B 112 2008 5238 5249
13. V. Kräutler, M. Müller, and P.H. Hünenberger Carbohydr. Res. 342 2007 2097 2124
14. O. Guvench, S.N. Greene, G. Kamath, J.W. Brady, R.M. Venable, R.W. Pastor, and A.D.J. Mackerell Comput. Chem. 29 2008 2543 2564
15. D. Kony, W. Damm, S. Stoll, and W.F.J. van Gunsteren Comput. Chem. 23 2002 1416 1429
16. R.D. Lins, and P.H.J. Hünenberger Comput. Chem. 26 2005 1400 1412
17. C.A. López, A.J. Rzepiela, A.H. de Vries, L. Dijkhuizen, P.H. Hunenberger, and S.J.J. Marrink Chem. Theory Comput. 5 2009 3195 3210
18. V. Spiwok, P. Lipovová, T. Skálová, E. Vondrácková, J. Dohnálek, J. Hasek, and B.J. Králová Comput.-Aided Mol. Des. 19 2005 887 901
19. H.S. Hansen, and P.H.J. Hünenberger Comput. Chem. 32 2010 998 1032
20. R. Stenutz, and G. Widmalm Glycoconjugate J. 15 1998 415 418
21. T. Kozar, I. Tvaroska, and J.P. Carver Glycoconjugate J. 15 1998 187 191
22. C.S. Pereira, D. Kony, R. Baron, M. Müller, W.F. van Gunsteren, and P.H. Hünenberger Biophys. J. 90 2006 4337 4344
23. M. Tusch, J. Krüger, and G.J. Fels Chem. Theory Comput. 7 2011 2919 2928
24. H. Yu, M. Amann, T. Hansson, J. Kohler, G. Wich, and W.F. van Gunsteren Carbohydr. Res. 339 2004 1697 1709
25. M. Kuttel, and K.J.J. Naidoo Am. Chem. Soc. 127 2005 12 13
26. C. Oostenbrink, A. Villa, A.E. Mark, and W.F.J. van Gunsteren Comput. Chem. 25 2004 1656 1676
27. H.J.C. Berendsen, J.P.M. Postma, W.F. van Gunsteren, and J. Hermans Interaction Models for Water in Relation to Protein Hydration 1981 Reidel Dordrecht
28. B. Hess, C. Kutzner, D. van der Spoel, and E.J. Lindahl Chem. Theory Comput. 4 2008 435 447
29. B. Hess, H. Bekker, H.J.C. Berendsen, and J.J. Fraaije Comput. Chem. 18 1997 1463 1472
30. H.J.C. Berendsen, J.P.M. Postma, W.F. van Gunsteren, A. Dinola, and J.R.J. Haak Chem. Phys. 81 1984 3684 3690
31. W.F. van Gunsteren, and H.J.C. Berendsen Angew. Chem. Int. Ed. 29 1990 992 1023
32. I. Tironi, R. Sperb, P. Smith, and W.F.J. van Gunsteren Chem. Phys. 102 1995 5451 5459
33. G. Torrie, and J.J. Valleau Comput. Phys. 23 1977 187 199
34. S. Kumar, J. Rosenberg, D. Bouzida, R. Swendsen, and P.J. Kollman Comput. Chem. 13 1992 1011 1021
35. X. Daura, K. Gademann, B. Jaun, D. Seebach, W.F. van Gunsteren, and A.E. Mark Angew. Chem., Int. Ed. 38 1999 236 240
36. H. Sugiyama, T. Nitta, M. Horii, K. Motohashi, J. Sakai, T. Usui, K. Hisamichi, and J.I. Ishiyama Carbohydr. Res. 325 2000 177 182
37. M.A. Boone, H. Nymeyer, and A.M. Striegel Carbohydr. Res. 343 2008 132 138
38. M.S. Motawia, I. Damager, C.E. Olsen, B.L. Moller, S.B. Engelsen, S. Hansen, L.H. Ogendal, and R. Bauer Biomacromolecules 6 2005 143 151
39. G. Uccello-Barretta, G. Sicoli, F. Balzano, and P. Salvadori Carbohydr. Res. 340 2005 271 281
40. S. Bekiroglu, L. Kenne, and C.J. Sandström Org. Chem. 68 2003 1671 1678
41. K. Ott, and B. Meyer Carbohydr. Res. 281 1996 11 34
42. N.W.H. Cheetham, P. Dasgupta, and G.E. Ball Carbohydr. Res. 338 2003 955 962
43. G.J. Quigley, A. Sarko, and R.H.J. Marchessault Am. Chem. Soc. 92 1970 5834 5839
44. F. Takusagawa, and R.A. Jacobson Acta Crystallogr. Sect. B 34 1978 213 218
45. H.-J. Schneider, F. Hacket, V. Rüdiger, and H. Ikeda Chem. Rev. 98 1998 1755 1786
46. Q. Zhang, Z. Lu, H. Hu, W. Yang, and P.E.J. Marszalek Am. Chem. Soc. 128 2006 9387 9393
47. K. Gessler, I. Usón, T. Takaha, N. Krauss, S.M. Smith, S. Okada, G.M. Sheldrick, and W. Saenger Proc. Natl. Acad. Sci. U.S.A. 96 1999 4246 4251
48. O. Nimz, K. Gessler, I. Usón, G.M. Sheldrick, and W. Saenger Carbohydr. Res. 339 2004 1427 1437
49. C.E. Snape, W.R. Morrison, M.M. Maroto-Valer, J. Karkalas, and R.A. Pethrick Carbohydr. Polym. 36 1998 225 237