NMR structure of F-actin-binding domain of Arg/AbI2 from Homo sapiens

Proteins: Structure, Function and Bioinformatics

Volumn 78, Issue 5, 2010, Pages 1326-1330

  Liu, Gaohua ^a   Huang, Yuanpeng J ^b   Xiao, Rong ^b   Wang, Dongyan ^b   Acton, Thomas B ^b   Montelione, Gaetano T ^a  

^a RUTGERS UNIVERSITY   (United States)

^b RUTGERS UNIVERSITY   (United States)

Author keywords

Abelson tyrosine kinase; Abl; Abl related gene; Abl2; ARG; Four helical bundle

Indexed keywords

ABELSON KINASE; ARGININE; F ACTIN; PROTEIN ABL2; UNCLASSIFIED DRUG; ACTIN; ARG TYROSINE KINASE; PROTEIN TYROSINE KINASE;

ARTICLE; NUCLEAR MAGNETIC RESONANCE; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DOMAIN; PROTEIN STRUCTURE; CHEMICAL STRUCTURE; CHEMISTRY; DRUG DESIGN; GENETICS; HUMAN; METABOLISM; MOLECULAR GENETICS; PROTEIN BINDING; PROTEIN CONFORMATION;

HOMO SAPIENS;

ACTINS; DRUG DESIGN; HUMANS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN-TYROSINE KINASES;

EID: 77951231968     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.22656     Document Type: Article

References (39)

1. Huang YJ, Hang D, Lu LJ, Tong L, Gerstein MB, Montelione GT. Targeting the human cancer pathway protein interaction network by structural genomics. Mol Cell Proteomics 2008;7:2048-2060.
2. Pendergast AM. The Abl family kinases: mechanisms of regulation and signaling. Adv Cancer Res 2002;85:51-100.
3. 3. Hantschel O, Superti-Furga G. Regulation of the c-Abl and Bcr-Abl tyrosine kinases. Nat Rev Mol Cell Biol 2004;5:33-44. (Pubitemid 38089839)
4. Gu JJ, Ryu JR, Pendergast AM. Abl tyrosine kinases in T-cell signaling. Immunol Rev 2009;228:170-183.
5. Zandy NL, Playford M, Pendergast AM. Abl tyrosine kinases regulate cell-cell adhesion through Rho GTPases. Proc Natl Acad Sci USA 2007;104:17686-17691.
6. Zandy NL, Pendergast AM. Abl tyrosine kinases modulate cadherin-dependent adhesion upstream and downstream of Rho family GTPases. Cell Cycle 2008;7:444-448.
7. Peacock JG, Miller AL, Bradley WD, Rodriguez OC, Webb DJ, Koleske AJ. The Abl-related gene tyrosine kinase acts through p190RhoGAP to inhibit actomyosin contractility and regulate focal adhesion dynamics upon adhesion to fibronectin. Mol Biol Cell 2007;18:3860-3872.
8. Koleske AJ, Gifford AM, Scott ML, Nee M, Bronson RT, Miczek KA, Baltimore D. Essential roles for the Abl and Arg tyrosine kinases in neurulation. Neuron 1998;21:1259-1272.
9. Van Etten RA, Jackson PK, Baltimore D, Sanders MC, Matsudaira PT, Janmey PA. The COOH terminus of the c-Abl tyrosine kinase contains distinct F- and G-actin binding domains with bundling activity. J Cell Biol 1994;124:325-340.
10. Wang Y, Miller AL, Mooseker MS, Koleske AJ. The Abl-related gene (Arg) nonreceptor tyrosine kinase uses two F-actin-binding domains to bundle F-actin. Proc Natl Acad Sci USA 2001;98:14865-14870.
11. 11. Miller AL, Wang Y, Mooseker MS, Koleske AJ. The Abi-related gene (Arg) requires its F-actin-microtubule cross-linking activity to regulate lamellipodial dynamics during fibroblast adhesion. J Cell Biol 2004;165:407-419. (Pubitemid 38649915)
12. Finn RD, Mistry J, Schuster-Bockler B, Griffiths-Jones S, Hollich V, Lassmann T, Moxon S, Marshall M, Khanna A, Durbin R, Eddy SR, Sonnhammer EL, Bateman A, Pfam: clans, web tools and services. Nucleic Acids Res 2006;34:D247-D251.
13. Hantschel O, Wiesner S, Guttler T, Mackereth CD, Rix LL, Mikes Z, Dehne J, Gorlich D, Sattler M, Superti-Furga G. Structural basis for the cytoskeletal association of Bcr-Abl/c-Abl. Mol Cell 2005;19:461-473.
14. Acton TB, Gunsalus KC, Xiao R, Ma LC, Aramini J, Baran MC, Chiang YW, Climent T, Cooper B, Denissova NG, Douglas SM, Everett JK, Ho CK, Macapagal D, Rajan PK, Shastry R, Shih LY, Swapna GVT, Wilson M, Wu M, Gerstein M, Inouye M, Hunt JF, Montelione GT. Robotic cloning and protein production platform of the Northeast structural genomics consortium. Methods Enzymol 2005;394:210-243.
15. Jansson M, Li YC, Jendeberg L, Anderson S, Montelione GT, Nilsson B. High-level production of uniformly N-15- and C-13-enriched fusion proteins in Escherichia coli. J Biomol NMR 1996;7:131-141.
16. Neri D, Szyperski T, Otting G, Senn H, Wuthrich K. Stereospecific nuclear magnetic resonance assignments of the methyl groups of valine and leucine in the DNA-binding domain of the 434 repressor by biosynthetically directed fractional 13C labeling. Biochemistry 1989;28:7510-7516.
17. Atreya HS, Szyperski T. G-matrix Fourier transform NMR spectroscopy for complete protein resonance assignment. Proc Natl Acad Sci USA 2004;101:9642-9647.
18. 18. Shen Y, Atreya HS, Liu G, Szyperski T. G-matrix Fourier transform NOESY-based protocol for high-quality protein structure determination. J Am Chem Soc 2005;127:9085-9099. (Pubitemid 40897602)
19. Delaglio F, Grzesiek S, Vuister GW, Zhu G, Pfeifer J, Bax A. Nmrpipe-a multidimensional spectral processing system based on unix pipes. J Biomol NMR 1995;6:277-293.
20. Bartels C, Xia TH, Billeter M, Guntert P, Wuthrich K. The program Xeasy for computer-supported nmr spectral-analysis of biological macromolecules. J Biomol NMR 1995;6:1-10.
21. Liu G, Shen Y, Atreya HS, Parish D, Shao Y, Sukumaran DK, Xiao R, Yee A, Lemak A, Bhattacharya A, Acton TA, Arrowsmith CH, Montelione GT, Szyperski T. NMR data collection and analysis protocol for high-throughput protein structure determination. Proc Natl Acad Sci USA 2005;102:10487-10492.
22. Moseley HNB, Monleon D, Montelione GT. Automatic determination of protein backbone resonance assignments from triple resonance nuclear magnetic resonance data. NMR Biol Macromol Part B 2001;339:91-108.
23. Wishart DS, Sykes BD. The C-13 chemical-shift index-a simple method for the identification of protein secondary structure using C-13 chemical-shift data. J Biomol NMR 1994;4:171-180.
24. Guntert P, Mumenthaler C, Wuthrich K. Torsion angle dynamics for NMR structure calculation with the new program DYANA. J Mol Biol 1997;273:283-298.
25. Herrmann T, Guntert P, Wuthrich K. Protein NMR structure determination with automated NOE assignment using the new software CANDID and the torsion angle dynamics algorithm DYANA. J Mol Biol 2002;319:209-227.
26. 26. Huang YJ, Moseley HNB, Baran MC, Arrowsmith C, Powers R, Tejero R, Szyperski T, Montelione GT. An integrated platform for automated analysis of protein NMR structures. Methods Enzymol 2005;394:111-141. (Pubitemid 40460914)
27. Shen Y, Delaglio F, Cornilescu G, Bax A. TALOS+: a hybrid method for predicting protein backbone torsion angles from NMR chemical shifts. J Biomol NMR 2009;44:213-223.
28. Huang YJ, Powers R, Montelione GT. Protein NMR recall, precision, and F-measure scores (RPF scores): structure quality assessment measures based on information retrieval statistics. J Am Chem Soc 2005;127:1665-1674.
29. Laskowski. RA, Macarthur MW, Moss DS, Thornton JM. Procheck-a program to check the stereochemical quality of protein structures. J Appl Crystallogr 1993;26:283-291.
30. Word JM, Bateman RC, Presley BK, Lovell SC, Richardson DC. Exploring steric constraints on protein mutations using MAGE/ PROBE. Protein Sci 2000;9:2251-2259.
31. Bhattacharya A, Tejero R, Montelione GT. Evaluating protein structures determined by structural genomics consortia. Proteins 2007; 66:778-795.
32. Linge JP, Williams MA, Spronk CA, Bonvin AM, Nilges M. Refinement of protein structures in explicit solvent. Proteins 2003;50:496-506.
33. Brunger AT, et al. Crystallography and NMR system: a new software suite for macromolecular structure determination. Acta Crystaliogr Sect D 1998;54:905-921.
34. Landau M, Mayrose I, Rosenberg Y, Glaser F, Martz E, Pupko T, Ben-Tal N. ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures. Nucleic Acids Res 2005;33:W299-W302.
35. Koradi R, Billeter M, Wuthrich K. MOLMOL: a program for display and analysis of macromolecular structures. J Mol Graphics 1996;14:51-55.
36. DeLano WL. The pymol manual. San Carlos, CA: DeLano Scientific; 2002.
37. Huang YJ, Montelione GT. DisMeta. Available at: http://www. nmr.cabm.rutgers.edu/bioinformatic/disorder/.
38. Holm L, Sander C. Dali: a network tool for protein structure comparison. Trends Biochem Sci 1995;20:478-480.
39. 39. Liu G, Guibao CD, Zheng J. Structural insight into the mechanisms of targeting and signaling of focal adhesion kinase. Mol Cell Biol 2002;22:2751-2760. (Pubitemid 34262995)