Visions for novel biophysical elucidations of extracellular matrix networks

International Journal of Biochemistry and Cell Biology

Volumn 39, Issue 2, 2007, Pages 311-318

  Engel, Jürgen ^a  

^a UNIVERSITY OF BASEL   (Switzerland)

Author keywords

Dynamics; Extracellular matrix; Integrin; Molecular machine; Network; Structure

Indexed keywords

ALPHA6BETA4 INTEGRIN; COLLAGEN TYPE 4; SULFATIDE; SYNDECAN; VERY LATE ACTIVATION ANTIGEN 2; VERY LATE ACTIVATION ANTIGEN 6; VITRONECTIN RECEPTOR;

ACTIN FILAMENT; BACTERIAL FLAGELLUM; BETA CHAIN; BIOPHYSICAL EQUIPMENT; CARTILAGE CELL; CELL INTERACTION; CELL MOTILITY; CELL SURVIVAL; CELL ULTRASTRUCTURE; COLLAGEN SYNTHESIS; CYTOLOGY; CYTOSKELETON; ELECTRON BEAM TOMOGRAPHY; EXTRACELLULAR MATRIX; FLUORESCENCE RESONANCE ENERGY TRANSFER; GENOMICS; MOLECULAR DYNAMICS; MOLECULAR INTERACTION; OLIGOMERIZATION; PHOTOSYNTHESIS; PROTEIN CONFORMATION; PROTEIN DEGRADATION; PROTEIN DOMAIN; PROTEIN FAMILY; PROTEIN FUNCTION; PROTEIN HYDROLYSIS; PROTEIN PROTEIN INTERACTION; PROTEIN STRUCTURE; PROTEOMICS; REVIEW; SIGNAL TRANSDUCTION; TRANSCRIPTION REGULATION;

ANIMALS; BIOPHYSICS; EXTRACELLULAR MATRIX; EXTRACELLULAR MATRIX PROTEINS; HUMANS; MOLECULAR MOTOR PROTEINS; MULTIPROTEIN COMPLEXES;

EID: 33845322660     PISSN: 13572725     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.biocel.2006.08.003     Document Type: Review

References (46)

1. Alberts B. The cell as a collection of protein machines: preparing the next generation of molecular biologists. Cell 92 3 (1998) 291-294
2. Aumailley M., Bruckner-Tuderman L., Carter W.G., Deutzmann R., Edgar D., Ekblom P., et al. A simplified laminin nomenclature. Matrix Biol. 24 5 (2005) 326-332
3. Bork P., Downing A.K., Kieffer B., and Campbell I.D. Structure and distribution of modules in extracellular proteins. Q. Rev. Biophys. 29 2 (1996) 119-167
4. Bustamante C., Chemla Y.R., Forde N.R., and Izhaky D. Mechanical processes in biochemistry. Annu. Rev. Biochem. 73 (2004) 705-748
5. Canty E.G., Lu Y., Meadows R.S., Shaw M.K., Holmes D.F., and Kadler K.E. Coalignment of plasma membrane channels and protrusions (fibripositors) specifies the parallelism of tendon. J. Cell Biol. 165 4 (2004) 553-563
6. Charbonneau N.L., Ono R.N., Corson G.M., Keene D.R., and Sakai L.Y. Fine tuning of growth factor signals depends on fibrillin microfibril networks. Birth Defects Res. C: Embryo Today 72 1 (2004) 37-50
7. Coban O., Lamb D.C., Zaychikov E., Heumann H., and Nienhaus G.U. Conformational heterogeneity in RNA polymerase observed by single-pair FRET microscopy. Biophys. J. 90 12 (2006) 4605-4617
8. Deisenhofer J., and Michel H. The photosynthetic reaction centre from the purple bacterium Rhodopseudomonas viridis. Biosci. Rep. 24 4/5 (2004) 323-361
9. Eichman B.F., and Fanning E. The power of pumping together; deconstructing the engine of a DNA replication machine. Cell 119 1 (2004) 3-4
10. Engel J. Role of oligomerization domains in thrombospondins and other extracellular matrix proteins. Int. J. Biochem. Cell Biol. 36 6 (2004) 997-1004
11. Forde N.R., Izhaky D., Woodcock G.R., Wuite G.J., and Bustamante C. Using mechanical force to probe the mechanism of pausing and arrest during continuous elongation by Escherichia coli RNA polymerase. Proc. Natl. Acad. Sci. U.S.A. 99 18 (2002) 11682-11687
12. Friedl P. Dynamic imaging of cellular interactions with extracellular matrix. Histochem. Cell Biol. 122 3 (2004) 183-190
13. Ginsberg M.H., Partridge A., and Shattil S.J. Integrin regulation. Curr. Opin. Cell Biol. 17 5 (2005) 509-516
14. Groll M., and Huber R. Substrate access and processing by the 20S proteasome core particle. Int. J. Biochem. Cell Biol. 35 5 (2003) 606-616
15. Groll M., and Huber R. Purification, crystallization, and X-ray analysis of the yeast 20S proteasome. Meth. Enzymol. 398 (2005) 329-336
16. Hansen U., and Bruckner P. Macromolecular specificity of collagen fibrillogenesis: fibrils of collagens I and XI contain a heterotypic alloyed core and a collagen I sheath. J. Biol. Chem. 278 39 (2003) 37352-37359
17. He W., Cowin P., and Stokes D.L. Untangling desmosomal knots with electron tomography. Science 302 5642 (2003) 109-113
18. Huber R. Nobel lecture. A structural basis of light energy and electron transfer in biology. Biosci. Rep. 9 6 (1989) 635-673
19. Hynes R.O. Integrins: bidirectional, allosteric signaling machines. Cell 110 6 (2002) 673-687
20. Kellermayer M.S. Visualizing and manipulating individual protein molecules. Physiol. Meas. 26 4 (2005) R119-R153
21. Klostermeier D., and Millar D.P. Time-resolved fluorescence resonance energy transfer: a versatile tool for the analysis of nucleic acids. Biopolymers 61 3 (2001) 159-179
22. Le Gros M.A., McDermott G., and Larabell C.A. X-ray tomography of whole cells. Curr. Opin. Struct. Biol. 15 5 (2005) 593-600
23. Li S., Liquari P., McKee K.K., Harrison D., Patel R., Lee S., et al. Laminin-sulfatide binding initiates basement membrane assembly and enables receptor signaling in Schwann cells and fibroblasts. J. Cell Biol. 169 1 (2005) 179-189
24. Medalia O., Weber I., Frangakis A.S., Nicastro D., Gerisch G., and Baumeister W. Macromolecular architecture in eukaryotic cells visualized by cryoelectron tomography. Science 298 5596 (2002) 1209-1213
25. Monod J., and Jacob F. Teleonomic mechanisms in cellular metabolism, growth, and differentiation. Cold Spring Harb. Symp. Quant. Biol. 26 (1961) 389-401
26. Mould A.P., and Humphries M.J. Cell biology: adhesion articulated. Nature 432 7013 (2004) 27-28
27. Nagase H., Visse R., and Murphy G. Structure and function of matrix metalloproteinases and TIMPs. Cardiovasc. Res. 69 3 (2006) 562-573
28. Nickell S., Kofler C., Leis A.P., and Baumeister W. A visual approach to proteomics. Nat. Rev. Mol. Cell Biol. 7 3 (2006) 225-230
29. Oster G., and Wang H. Rotary protein motors. Trends Cell Biol. 13 3 (2003) 114-121
30. Pickart C.M., and Cohen R.E. Proteasomes and their kin: proteases in the machine age. Nat. Rev. Mol. Cell Biol. 5 3 (2004) 177-187
31. Rossmann M.G., Mesyanzhinov V.V., Arisaka F., and Leiman P.G. The bacteriophage T4 DNA injection machine. Curr. Opin. Struct. Biol. 14 2 (2004) 171-180
32. Sasaki T., Fäessler R., and Hohenester E. Laminin: the crux of basement membrane assembly. J. Cell Biol. 164 7 (2004) 959-963
33. Sasaki T., Wiedemann H., Matzner M., Chu M.L., and Timpl R. Expression of fibulin-2 by fibroblasts and deposition with fibronectin into a fibrillar matrix. J. Cell Sci. 109 Pt 12 (1996) 2895-2904
34. Schwartz T.U. Modularity within the architecture of the nuclear pore complex. Curr. Opin. Struct. Biol. 15 2 (2005) 221-226
35. Springer T.A., and Wang J.H. The three-dimensional structure of integrins and their ligands, and conformational regulation of cell adhesion. Adv. Protein Chem. 68 (2004) 29-63
36. Spronk H.M., Govers-Riemslag J.W., and ten Cate H. The blood coagulation system as a molecular machine. Bioessays 25 12 (2003) 1220-1228
37. Timpl R. Macromolecular organization of basement membranes. Curr. Opin. Cell Biol. 8 5 (1996) 618-624
38. Vale R.D. Myosin V motor proteins: marching stepwise towards a mechanism. J. Cell Biol. 163 3 (2003) 445-450
39. Wallrabe H., and Periasamy A. Imaging protein molecules using FRET and FLIM microscopy. Curr. Opin. Biotechnol. 16 1 (2005) 19-27
40. Wiberg C., Klatt A.R., Wagener R., Paulsson M., Bateman J.F., Heinegard D., et al. Complexes of matrilin-1 and biglycan or decorin connect collagen VI microfibrils to both collagen II and aggrecan. J. Biol. Chem. 278 39 (2003) 37698-37704
41. Woodside D.G., Liu S., and Ginsberg M.H. Integrin activation. Thromb. Haemost. 86 1 (2001) 316-323
42. Xiong J.P., Stehle T., Diefenbach B., Zhang R., Dunker R., Scott D.L., et al. Crystal structure of the extracellular segment of integrin alpha Vbeta3. Science 294 5541 (2001) 339-345
43. Xiong J.P., Stehle T., Goodman S.L., and Arnaout M.A. New insights into the structural basis of integrin activation. Blood 102 4 (2003) 1155-1159
44. Xiong J.P., Stehle T., Zhang R., Joachimiak A., Frech M., Goodman S.L., et al. Crystal structure of the extracellular segment of integrin alpha Vbeta3 in complex with an Arg-Gly-Asp ligand. Science 296 5565 (2002) 151-155
45. Yurchenco P.D., Amenta P.S., and Patton B.L. Basement membrane assembly, stability and activities observed through a developmental lens. Matrix Biol. 22 7 (2004) 521-538
46. Yurchenco P.D., and O'Rear J.J. Basal lamina assembly. Curr. Opin. Cell Biol. 6 5 (1994) 674-681