Molecular mechanics of stutter defects in vimentin intermediate filaments

Experimental Mechanics

Volumn 49, Issue 1, 2009, Pages 79-89

  Ackbarow, Theodor ^a   Buehler, Markus J ^a  

^a Massachusetts Institute of Technology Cambridge   (United States)

Author keywords

Alpha helix; Coiled coil; Cytoskeleton; Defect; Elasticity; Fracture; Hydrogen bond; Intermediate filaments; Mechanics; Persistence length; Protein; Vimentin

Indexed keywords

ALPHA-HELIX; COILED-COIL; CYTOSKELETON; DEFECT; FRACTURE; HYDROGEN BOND; INTERMEDIATE FILAMENTS; PERSISTENCE LENGTH; PROTEIN; VIMENTIN;

AMINES; AMINO ACIDS; BELLS; BINDING SITES; DEFECTS; DIMERS; ELASTICITY; FILAMENTS (LAMP); HYDROGEN; HYDROGEN BONDS; MODEL STRUCTURES; MOLECULAR MECHANICS; OLIGOMERS; ORGANIC ACIDS; PRESSURE EFFECTS;

MECHANICS;

EID: 58949097134     PISSN: 00144851     EISSN: 17412765     Source Type: Journal    
DOI: 10.1007/s11340-007-9100-6     Document Type: Article

References (39)

1. Alberts B et al. (2002) Molecular biology of the cell. New York: Taylor and Francis.
2. Rose A, Meier I (2004) Scaffolds, levers, rods and springs: Diverse cellular functions of long coiled-coil proteins. Cell Mol Life Sci 61(16):1996-2009.
3. Strelkov SV, Herrmann H, Aebi U (2003) Molecular architecture of intermediate filaments. Bioessays 25(3):243-251.
4. Maccallum JL et al. (2007) Hydrophobic association of {alpha}-helices, steric dewetting, and enthalpic barriers to protein folding. Proc Natl Acad Sci U S A 104(15):6206-6210.
5. Burkhard P et al. (2000) The coiled-coil trigger site of the rod domain of cortexillin I unveils a distinct network of interhelical and intrahelical salt bridges. Structure with Folding & Design 8(3):223-230.
6. Gruber M, Lupas AN (2003) Historical review: Another 50th anniversary - new periodicities in coiled coils. Trends Biochem Sci 28(12):679-685.
7. McLachlan AD, Karn J (1983) Periodic features in the amino-acid-sequence of nematode myosin rod. J Mol Biol 164(4):605-626.
8. Brown JH, Cohen C, Parry DAD (1996) Heptad breaks in alpha-helical coiled coils: Stutters and stammers. Proteins 26(2):134-145.
9. Strelkov SV et al. (2002) Conserved segments 1A and 2B of the intermediate filament dimer: Their atomic structures and role in filament assembly. EMBO J 21(6):1255-1266.
10. Herrmann H, Aebi U (1999) Intermediate filament assembly: Temperature sensitivity and polymorphism. Cell Mol Life Sci 55(11):1416-1431.
11. Parry DAD (1978) Fibrinogen - preliminary-analysis of amino-acid sequences of portions of alpha-chains, beta-chains and gamma-chains postulated to form interdomainal link between globular regions of molecule. J Mol Biol 120(4):545-551.
12. Akkermans RLC, Warren PB (2004) Multiscale modelling of human hair. Philos Trans R Soc Lond Ser A Math Phys Sci 362(1821):1783-1793.
13. Cieplak M, Hoang TX, Robbins MO (2002) Thermal folding and mechanical unfolding pathways of protein secondary structures. Proteins 49(1):104-113.
14. Rohs R, Etchebest C, Lavery R (1999) Unraveling proteins: A molecular mechanics study. Biophys J 76(5):2760-2768.
15. Bornschlogl T, Rief M (2006) Single molecule unzipping of coiled coils: sequence resolved stability profiles. Phys Rev Lett 96(11):118102.
16. Wang N, Stamenovic D (2002) Mechanics of vimentin intermediate filaments. J Muscle Res Cell Motil 23(5-6):535-540.
17. Smith TA et al. (2003) Modeling alpha-helical coiled-coil interactions: the axial and azimuthal alignment of 1B segments from vimentin intermediate filaments. Proteins 50(2):207-212.
18. Kreplak L, Aebi U, Herrmann H (2004) Molecular mechanisms underlying the assembly of intermediate filaments. Exp Cell Res 301(1):77-83.
19. Fudge DS et al. (2003) The mechanical properties of hydrated intermediate filaments: Insights from hagfish slime threads. Biophys J 85(3):2015-2027.
20. Fudge DS, Gosline JM (2004) Molecular design of the alpha-keratin composite: Insights from a matrix-free model, hagfish slime threads. Proc R Soc Lond B Biol Sci 271(1536):291-299.
21. Moir RD, Spann TP (2001) The structure and function of nuclear lamins: implications for disease. Cell Mol Life Sci 58(12-13):1748-1757.
22. Wilson KL, Zastrow MS, Lee KK (2001) Lamins and disease: Insights into nuclear infrastructure. Cell 104(5): 647-650.
23. Coulombe PA et al. (2000) The 'ins' and 'outs' of intermediate filament organization. Trends Cell Biol 10(10):420-428.
24. Kreplak L et al. (2005) Exploring the mechanical behavior of single intermediate filaments. J Mol Biol 354(3):569-577.
25. Kiss B, Karsai A, Kellermayer MSZ (2006) Nanomechanical properties of desmin intermediate filaments. J Struct Biol 155(2):327-339.
26. Omary MB, Coulombe PA, McLean WHI (2004) Mechanisms of disease: intermediate filament proteins and their associated diseases. N Engl J Med 351(20):2087-2100.
27. Schietke R et al. (2006) Mutations in vimentin disrupt the cytoskeleton in fibroblasts and delay execution of apoptosis. Eur J Cell Biol 85(1):1-10.
28. Herrmann H, Aebi U (2004) Intermediate filaments: Molecular structure, assembly mechanism, and integration into functionally distinct intracellular scaffolds. Ann Rev Biochem 73:749-789.
29. Ackbarow T, Buehler MJ (2007) Superelasticity, energy dissipation and strain hardening of vimentin coiled-coil intermediate filaments: atomistic and continuum studies. J Mater Sci 42:8771-8787.
30. Bell GI (1978) Models for specific adhesion of cells to cells. Science 200(4342):618-627.
31. Nelson MT et al. (1996) NAMD: A parallel, object oriented molecular dynamics program. Int J Supercomput Appl High Perform Comput 10(4):251-268.
32. MacKerell AD et al. (1998) All-atom empirical potential for molecular modeling and dynamics studies of proteins. J Phys Chem B 102(18):3586-3616.
33. Lu H et al. (1998) Unfolding of titin immunoglobulin domains by steered molecular dynamics simulation. Biophys J 75(2):662-671.
34. Humphrey W, Dalke A, Schulten K (1996) VMD: Visual molecular dynamics. J Mol Graph 14(1):33.
35. Schwaiger I et al. (2002) The myosin coiled-coil is a truly elastic protein structure. Nat Mater 1(4):232-235.
36. Currey JD (2002) Bones: Structure and mechanics. Princeton, NJ: Princeton University Press.
37. Barthelat F et al. (2007) On the mechanics of mother-of-pearl: A key feature in the material hierarchical structure. J Mech Phys Solids 55(2):306-337.
38. Heslot H (1998) Artificial fibrous proteins: A review. Biochimie 80(1):19-31.
39. Ball P (1997) Made to measure: New materials for the 21st Century. Princeton, NJ, USA: Princeton University Press.