Crystal structure of A. fulgidus Rio2 defines a new family of serine protein kinases

Structure

Volumn 12, Issue 9, 2004, Pages 1585-1594

  Laronde Leblanc, Nicole ^a   Wlodawer, Alexander ^a  

^a NATIONAL CANCER INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; AMINO ACID DERIVATIVE; FUNGAL PROTEIN; PROTEIN SERINE THREONINE KINASE; RIO1 PROTEIN; RIO2 PROTEIN; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ARCHAEOGLOBUS FULGIDUS; ARTICLE; CARBOXY TERMINAL SEQUENCE; CATALYSIS; CATALYST; CELL VIABILITY; CONTROLLED STUDY; CRYSTAL STRUCTURE; MOLECULAR DYNAMICS; MOLECULAR INTERACTION; MOLECULAR MECHANICS; NONHUMAN; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN DETERMINATION; PROTEIN DNA BINDING; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN PHOSPHORYLATION; PROTEIN TARGETING; SACCHAROMYCES CEREVISIAE; SEQUENCE HOMOLOGY; STRUCTURE ANALYSIS; X RAY CRYSTALLOGRAPHY;

AMINO ACID SEQUENCE; ARCHAEAL PROTEINS; ARCHAEOGLOBUS FULGIDUS; CRYSTALLOGRAPHY, X-RAY; HUMANS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; PROTEIN-SERINE-THREONINE KINASES; SEQUENCE ALIGNMENT;

ARCHAEA; ARCHAEOGLOBUS; ARCHAEOGLOBUS FULGIDUS; SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 4444348265     PISSN: 09692126     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.str.2004.06.016     Document Type: Article

References (38)

1. Alekshun M.N., Levy S.B., Mealy T.R., Seaton B.A., Head J.F. The crystal structure of MarR, a regulator of multiple antibiotic resistance, at 2.3 Å resolution. Nat. Struct. Biol. 8:2001;710-714
2. Angermayr M., Bandlow W. RIO1, an extraordinary novel protein kinase. FEBS Lett. 524:2002;31-36
3. Angermayr M., Roidl A., Bandlow W. Yeast Rio1p is the founding member of a novel subfamily of protein serine kinases involved in the control of cell cycle progression. Mol. Microbiol. 44:2002;309-324
4. Bossemeyer D. Protein kinases-structure and function. FEBS Lett. 369:1995;57-61
5. Brown N.R., Noble M.E., Lawrie A.M., Morris M.C., Tunnah P., Divita G., Johnson L.N., Endicott J.A. Effects of phosphorylation of threonine 160 on cyclin-dependent kinase 2 structure and activity. J. Biol. Chem. 274:1999;8746-8756
6. Carson M. Ribbons 4.0. J. Appl. Crystallogr. 24:1991;958-961
7. Chen P., Luo C., Deng Y., Ryan K., Register J., Margosiak S., Tempczyk-Russell A., Nguyen B., Myers P., Lundgren K., et al. The 1.7 A crystal structure of human cell cycle checkpoint kinase Chk1. implications for Chk1 regulation Cell. 100:2000;681-692
8. Clark K.L., Halay E.D., Lai E., Burley S.K. Co-crystal structure of the HNF-3/fork head DNA-recognition motif resembles histone H5. Nature. 364:1993;412-420
9. Cox S., Radzio-Andzelm E., Taylor S.S. Domain movements in protein kinases. Curr. Opin. Struct. Biol. 4:1994;893-901
10. Dong G., Chakshusmathi G., Wolin S.L., Reinisch K.M. Structure of the La motif. a winged helix domain mediates RNA binding via a conserved aromatic patch EMBO J. 23:2004;1000-1007
11. Engh R.A., Bossemeyer D. Structural aspects of protein kinase control-role of conformational flexibility. Pharmacol. Ther. 93:2002;99-111
12. Gajiwala K.S., Burley S.K. Winged helix proteins. Curr. Opin. Struct. Biol. 10:2000;110-116
13. Gajiwala K.S., Chen H., Cornille F., Roques B.P., Reith W., Mach B., Burley S.K. Structure of the winged-helix protein hRFX1 reveals a new mode of DNA binding. Nature. 403:2000;916-921
14. 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
15. Geerlings T.H., Faber A.W., Bister M.D., Vos J.C., Raue H.A. Rio2p, an evolutionarily conserved, low abundant protein kinase essential for processing of 20 S Pre-rRNA in Saccharomyces cerevisiae. J. Biol. Chem. 278:2003;22537-22545
16. Giaever G., Chu A.M., Ni L., Connelly C., Riles L., Veronneau S., Dow S., Lucau-Danila A., Anderson K., Andre B., et al. Functional profiling of the Saccharomyces cerevisiae genome. Nature. 418:2002;387-391
17. Hanks S.K., Hunter T. Protein kinases 6. The eukaryotic protein kinase superfamily. kinase (catalytic) domain structure and classification FASEB J. 9:1995;576-596
18. Hanks S.K., Quinn A.M., Hunter T. The protein kinase family. conserved features and deduced phylogeny of the catalytic domains Science. 241:1988;42-52
19. 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
20. Holm L., Sander C. Protein structure comparison by alignment of distance matrices. J. Mol. Biol. 233:1993;123-138
21. Humphrey W., Dalke A., Schulten K. Vmd. visual molecular dynamics J. Mol. Graph. 14:1996;33-38
22. Knighton D.R., Zheng J.H., Ten Eyck L.F., Ashford V.A., Xuong N.H., Taylor S.S., Sowadski J.M. Crystal structure of the catalytic subunit of cyclic adenosine monophosphate-dependent protein kinase. Science. 253:1991;407-414. a
23. Knighton D.R., Zheng J.H., Ten Eyck L.F., Xuong N.H., Taylor S.S., Sowadski J.M. Structure of a peptide inhibitor bound to the catalytic subunit of cyclic adenosine monophosphate-dependent protein kinase. Science. 253:1991;414-420. b
24. Leonard C.J., Aravind L., Koonin E.V. Novel families of putative protein kinases in bacteria and archaea. evolution of the "eukaryotic" protein kinase superfamily Genome Res. 8:1998;1038-1047
25. Manning G., Whyte D.B., Martinez R., Hunter T., Sudarsanam S. The protein kinase complement of the human genome. Science. 298:2002;1912-1934
26. McRee D.E. XtalView/Xfit. a versatile program for manipulating atomic coordinates and electron density J. Struct. Biol. 125:1999;156-165
27. Meritt E.A., Murphy M.E.P. Raster3D Version 2.0. A program for photorealistic molecular graphics. Acta Crystallogr. D. 50:1994;869-873
28. Murshudov G.N., Vagin A.A., Dodson E.J. Refinement of macromolecular structures by the maximum-likelihood method. Acta Crystallogr. D. 53:1997;240-255
29. Nicholls A. GRASP. Graphical Representation and Analysis of Surface Properties:1992;Columbia University, New York
30. Otwinowski Z., Minor W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276:1997;307-326
31. Perrakis A., Morris R., Lamzin V.S. Automated protein model building combined with iterative structure refinement. Nat. Struct. Biol. 6:1999;458-463
32. Ruggero D., Pandolfi P.P. Does the ribosome translate cancer? Nat. Rev. Cancer. 3:2003;179-192
33. Schafer T., Strauss D., Petfalski E., Tollervey D., Hurt E. The path from nucleolar 90S to cytoplasmic 40S pre-ribosomes. EMBO J. 22:2003;1370-1380
34. Vanrobays E., Gleizes P.E., Bousquet-Antonelli C., Noaillac-Depeyre J., Caizergues-Ferrer M., Gelugne J.P. Processing of 20S pre-rRNA to 18S ribosomal RNA in yeast requires Rrp10p, an essential non-ribosomal cytoplasmic protein. EMBO J. 20:2001;4204-4213
35. Vanrobays E., Gelugne J.P., Gleizes P.E., Caizergues-Ferrer M. Late cytoplasmic maturation of the small ribosomal subunit requires RIO proteins in Saccharomyces cerevisiae. Mol. Cell. Biol. 23:2003;2083-2095
36. Wolberger C., Campbell R. New perch for the winged helix. Nat. Struct. Biol. 7:2000;261-262
37. Xu R.M., Carmel G., Sweet R.M., Kuret J., Cheng X. Crystal structure of casein kinase-1, a phosphate-directed protein kinase. EMBO J. 14:1995;1015-1023
38. Zheng J., Knighton D.R., Ten Eyck L.F., Karlsson R., Xuong N., Taylor S.S., Sowadski J.M. Crystal structure of the catalytic subunit of cAMP-dependent protein kinase complexed with MgATP and peptide inhibitor. Biochemistry. 32:1993;2154-2161