Structure of an ultraweak protein-protein complex and its crucial role in regulation of cell morphology and motility

Molecular Cell

Volumn 17, Issue 4, 2005, Pages 513-523

  Vaynberg, Julia ^a,b   Fukuda, Tomohiko ^c   Chen, Ka ^c   Vinogradova, Olga ^a   Velyvis, Algirdas ^a   Tu, Yizeng ^c   Ng, Lily ^b   Wu, Chuanyue ^c   Qin, Jun ^a,b  

^a LERNER RESEARCH INSTITUTE   (United States)

^b CLEVELAND STATE UNIVERSITY   (United States)

^c UNIVERSITY OF PITTSBURGH SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

LIM PROTEIN; PROTEIN DERIVATIVE;

ANIMAL CELL; ARTICLE; CELL MIGRATION; CELL MOTILITY; CELL SHAPE; CELL STRUCTURE; CONTROLLED STUDY; FOCAL ADHESION; MOLECULAR DYNAMICS; NONHUMAN; NUCLEAR MAGNETIC RESONANCE; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN DOMAIN; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN METABOLISM; PROTEIN PROTEIN INTERACTION; PROTEIN STRUCTURE;

ANIMALIA;

EID: 13944249955     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.molcel.2004.12.031     Document Type: Article

References (54)

1. Barnett P., Bottger G., Klein A.T., Tabak H.F., Distel B. The peroxisomal membrane protein Pex13p shows a novel mode of SH3 interaction. EMBO J. 19:2000;6382-6391
2. Beckerle M. Zyxin. zinc fingers at sites of cell adhesion Bioessays. 19:1997;949-957
3. Bladt F., Aippersbach E., Gelkop S., Strasser G.A., Nash P., Tafuri A., Gertler F.B., Pawson T. The murine Nck SH2/SH3 adaptors are important for the development of mesoderm-derived embryonic structures and for regulating the cellular actin network. Mol. Cell. Biol. 23:2003;4586-4597
4. Brakebusch C., Fassler R. The integrin-actin connection, an eternal love affair. EMBO J. 22:2003;2324-2333
5. Buday L., Wunderlich L., Tamas P. The Nck family of adapter proteins. Regulators of actin cytoskeleton Cell. Signal. 14:2002;723-731
6. Campellone K.G., Rankin S., Pawson T., Kirschner M.W., Tipper D.J., Leong J.M. Clustering of Nck by a 12-residue Tir phosphopeptide is sufficient to trigger localized actin assembly. J. Cell Biol. 64:2004;407-416
7. Cesareni G., Panni S., Nardelli G., Castagnoli L. Can we infer peptide recognition specificity mediated by SH3 domains? FEBS Lett. 513:2002;38-44
8. Chen M., She H., Kim A., Woodley D.T., Li W. Nckbeta adapter regulates actin polymerization in NIH 3T3 fibroblasts in response to platelet-derived growth factor bb. Mol. Cell. Biol. 20:2000;7867-7880
9. Clark K.A., McGrail M., Beckerle M.C. Analysis of PINCH function in Drosophila demonstrates its requirement in integrin-dependent cellular processes. Development. 130:2003;2611-2621
10. 1H residual dipolar couplings using conjoined rigid body/torsion angle dynamics. J. Am. Chem. Soc. 125:2003;2902-2912
11. Cornilescu G., Delaglio F., Bax A. Protein backbone angle restraints from searching a database for chemical shift and sequence homology. J. Biomol. NMR. 13:1999;289-302
12. Cowan C.A., Henkemeyer M. The SH2/SH3 adaptor Grb4 transduces B-ephrin reverse signals. Nature. 413:2001;174-179
13. Deane J.E., Mackay J.P., Kwan A.H.Y., Sum E.Y.M., Visvader J.E., Matthews J.M. Structural basis for the recognition of Idb1 by the N-terminal LIM domains of LMO2 and LMO4. EMBO J. 22:2003;2224-2233
14. Delaglio F., Grzesiek S., Vuister G.W., Zhu G., Pfeifer J., Bax A. NMRPipe. a multidimensional spectral processing system based on UNIX pipes J. Biomol. NMR. 6:1995;277-293
15. Espanel X., Sudol M. Yes-associated protein and p53-binding protein-2 interact through their WW and SH3 domains. J. Biol. Chem. 276:2001;14514-14523
16. Fukuda T., Chen K., Shi X., Wu C. PINCH-1 is an obligate partner of ILK functioning in cell shape modulation, motility and survival. J. Biol. Chem. 278:2003;51324-51333
17. Garrett D.S., Powers R., Gronenborn A.M., Clore G.M. A common-sense approach to peak picking in two-, three-, and four-dimensional spectra using automatic computer analysis of contour diagrams. J. Magn. Reson. 95:1991;214-220
18. Garvalov B.K., Higgins T.E., Sutherland J.D., Zettl M., Scaplehorn N., Kocher T., Piddini E., Griffiths G., Way M. The conformational state of Tes regulates its zyxin-dependent recruitment to focal adhesions. J. Cell Biol. 161:2003;33-39
19. Gavin A.C., Bosche M., Krause R., Grandi P., Marzioch M., Bauer A., Schultz J., Rick J.M., Michon A.M., Cruciat C.M., et al. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature. 415:2002;141-147
20. Ghose R., Shehtman A., Goger M.J., Ji H., Cowburn D. A novel, specific interaction involving the Csk SH3 domain and its natural ligand. Nat. Struct. Biol. 8:2001;998-1004
21. Goicoechea S.M., Yizeng T., Hua Y., Chen K., Shen T.-L., Guan J.-L., Wu C. Nck-2 interacts with focal adhesion kinase and modulates cell motility. Int. J. Biochem. Cell Biol. 34:2002;791-805
22. Ho Y., Gruhler A., Heilbut A., Bader G.D., Moore L., Adams S.L., Millar A., Taylor P., Bennett K., Boutilier K., et al. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature. 415:2002;180-183
23. Hobert O., Moerman D.G., Clark K.A., Beckerle M.C., Ruvkun G. A conserved LIM protein that affects muscular adherens junction integrity and mechanosensory function in Caenorhabditis elegans. J. Cell Biol. 144:1999;45-57
24. Hoffman L.M., Nix D.A., Benson B., Boot-Hanford R., Gustafsson E., Jamora C., Menzies A.S., Goh K.L., Jensen C.C., Gertler F.B., et al. Targeted disruption of the murine zyxin gene. Mol. Cell. Biol. 23:2003;70-79
25. Huxford T., Mishler D., Phelps C.B., Huang D.B., Sengchanthalangsy L.L., Reeves R., Hughes C.A., Komives E.A., Ghosh G. Solvent exposed non-contacting amino acids play a critical role in NF-kappaB/IkappaBalpha complex formation. J. Mol. Biol. 324:2002;587-597
26. Jahn T., Seipel P., Coutinho S., Miething C., Peschel C., Duyster J. Grb4/Nckbeta acts as a nuclear repressor of v-Abl-induced transcription from c-jun/c-fos promoter elements. J. Biol. Chem. 276:2001;43419-43427
27. phox, Grb2 and Pex13p. EMBO J. 21:2002;4268-4276
28. Kang H., Freund C., Duke-Cohan J.S., Musacchio A., Wagner G., Rudd C.E. SH3 domain recognition of a proline-independent tyrosine-based RkxxYxY motif in immune cell adapter SKAP55. EMBO J. 19:2000;2889-2899
29. Kang R.S., Daniels C.M., Francis S.A., Shih S.C., Salerno W.J., Hicke L., Radhakrishnan I. Solution structure of a CUE-ubiquitin complex reveals a conserved mode of ubiquitin binding. Cell. 113:2003;621-630
30. Kato M., Miyazawa K., Kitamura N. A deubiquitinating enzyme UBPY interacts with the Src homology 3 domain of Hrs-binding protein via a novel binding motif PX(V/I)(D/N)RXXKP. J. Biol. Chem. 275:2000;37481-37487
31. Koradi R., Billeter M., Wuthrich K. Molmol. a program for display and analysis of macromolecular structures J. Mol. Graph. 14:1996;51-55
32. Laskowski R.A., Rullmannn J.A., MacArthur M.W., Kaptein R., Thornton J.M. Aqua and procheck-nmr. programs for checking the quality of protein structures solved by nmr J. Biomol. NMR. 8:1996;477-486
33. Lewitzky M., Kardinal C., Gehring N.H., Schmidt E.K., Konkol B., Eulitz M., Birchmeier W., Schaeper U., Feller S.M. The C-terminal SH3 domain of the adapter protein Grb2 binds with high affinity to sequences in Gab1 and SLP-76 which lack the SH3-typical P-x-x-P core motif. Oncogene. 20:2001;1052-1062
34. Liu Q., Berry D., Nash P., Pawson T., McGlade C.J., Li S.S. Structural basis for specific binding of the Gads SH3 domain to an RxxK motif-containing SLP-76 peptide. a novel mode of peptide recognition Mol. Cell. 11:2003;471-481
35. Manser E., Loo T.H., Koh C.G., Zhao Z.S., Chen X.Q., Tan L., Tan I., Leung T., Lim L. PAK kinases are directly coupled to the PIX family of nucleotide exchange factors. Mol. Cell. 1:1998;183-192
36. Mayer B.J. SH3 domains. complexity in moderation J. Cell Sci. 114:2001;1253-1263
37. Mongiovi A.M., Romano P.R., Panni S., Mendoza M., Wong W.T., Musacchio A., Cesareni G., Di Fiore P.P. A novel peptide-SH3 interaction. EMBO J. 18:1999;5300-5309
38. Nicholls A., Sharp K.A., Honig B. Protein folding and association - insights from the interfacial and thermodynamic properties of hydrocarbons. Proteins. 11:1991;281-296
39. Nooren I.M., Thornton J.M. Diversity of protein-protein interactions. EMBO J. 22:2003;3486-3492
40. Pires J.R., Hong X., Brockmann C., Volkmer-Engert R., Schneider-Mergener J., Oschkinat H., Erdmann R. The ScPex13p SH3 domain exposes two distinct binding sites for Pex5p and Pex14p. J. Mol. Biol. 326:2003;1427-1435
41. Qin J., Vinogradova O., Gronenborn A. Protein-protein interactions probed by NMR spectroscopy. Methods Enzymol. 339:2001;377-389
42. Rivera G.M., Briceno C.A., Takeshima F., Snapper S.B., Mayer B.J. Inducible clustering of membrane-targeted SH3 domains of the adaptor protein Nck triggers localized actin polymerization. Curr. Biol. 14:2004;11-22
43. Schomburg, D., and Schomburg, I. (2001). Springer Handbook of Enzymes, Edition 2 (New York: Springer).
44. Sundquist W.I., Schubert H.L., Kelly B.N., Hill G.C., Holton J.M., Hill C.P. Ubiquitin recognition by the human TSG101 protein. Mol. Cell. 13:2004;783-789
45. Tu Y., Li F., Wu C. Nck-2, a novel Src homology2/3-containing adaptor protein that interacts with the LIM-only protein PINCH and components of growth factor receptor kinase-signaling pathways. Mol. Biol. Cell. 9:1998;3367-3382
46. Tu Y., Kucik D.F., Wu C. Identification and kinetic analysis of the interaction between Nck-2 and DOCK180. FEBS Lett. 491:2001;193-199
47. van der Merwe P.A., Davis S.J. Molecular interactions mediating T cell antigen recognition. Annu. Rev. Immunol. 21:2003;659-684
48. Velyvis A., Yang Y., Wu C., Qin J. Solution structure of the focal adhesion adaptor PINCH LIM1 domain and characterization of its interaction with the integrin-linked kinase ankyrin repeat domain. J. Biol. Chem. 276:2001;4932-4939
49. Velyvis A., Vinogradova O., Wu C., Qin J. Structural and functional insights into PINCH LIM4 domain-mediated integrin signaling. Nat. Struct. Biol. 10:2003;558-564
50. Wang J.H., Meijers R., Xiong Y., Liu J.H., Sakihama T., Zhang R., Joachimiak A., Reinherz E.L. Crystal structure of the human CD4 N-terminal two-domain fragment complexed to a class II MHC molecule. Proc. Natl. Acad. Sci. USA. 98:2001;10799-10804
51. Wu C. Integrin-linked kinase and PINCH. partners in regulation of cell-extracellular matrix interaction and signal transduction J. Cell Sci. 112:1999;4485-4489
52. Wu C., Dedhar S. Integrin linked kinase (ILK) and its interactors. a new paradigm for the coupling of extracellular matrix to actin cytoskeleton and signaling complexes J. Cell Biol. 155:2001;505-510
53. Zhang Y., Guo L., Chen K., Wu C. A critical role of the PINCH-integrin-linked kinase interaction in the regulation of cell shape change and migration. J. Biol. Chem. 277:2002;318-326
54. Zwahlen C., Legault P., Vincent S.J.F., Greenblatt J., Konrat R., Kay L.E. Methods for measurement of intermolecular NOEs by multinuclear NMR spectroscopy. application to a bacteriophage λ N-peptide/boxB RNA complex J. Am. Chem. Soc. 119:1997;711-721