Structure prediction, evolution and ligand interaction of CHASE domain

FEBS Letters

Volumn 576, Issue 3, 2004, Pages 287-290

  Pas, Jakub ^a,c   Von Grotthuss, Marcin ^a   Wyrwicz, Lucjan S ^b   Rychlewski, Leszek ^a   Barciszewski, Jan ^c  

^a BIOINFOBANK INSTITUTE   (Poland)

^b ADAM MICKIEWICZ UNIVERSITY   (Poland)

^c INSTITUTE OF BIOORGANIC CHEMISTRY   (Poland)

Author keywords

CHASE; Cytokinin; Ligand interaction; Structure prediction

Indexed keywords

AMINO ACID DERIVATIVE; CYTOKININ; LIGAND; PROTEIN HISTIDINE KINASE;

ARTICLE; CONTROLLED STUDY; ENZYME ACTIVITY; MOLECULAR EVOLUTION; MOLECULAR PHYLOGENY; NONHUMAN; PLANT DEVELOPMENT; PLANT GROWTH; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DOMAIN; PROTEIN INTERACTION; PROTEIN STRUCTURE; SEQUENCE HOMOLOGY; SIGNAL TRANSDUCTION;

AMINO ACID SEQUENCE; BINDING SITES; CYTOKININS; EVOLUTION, MOLECULAR; LIGANDS; MOLECULAR SEQUENCE DATA; PROTEIN FOLDING; PROTEIN STRUCTURE, TERTIARY; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID;

EID: 6344230098     PISSN: 00145793     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.febslet.2004.09.020     Document Type: Article

References (28)

1. Kakimoto T. CKI1, a histidine kinase homolog implicated in cytokinin signal transduction. Science. 274(5289):1996;982-985
2. Pischke M.S., et al. An arabidopsis histidine kinase is essential for megagametogenesis. Proc. Natl. Acad. Sci. USA. 99(24):2002;15800-15805
3. Inoue T., et al. Identification of CRE1 as a cytokinin receptor from Arabidopsis. Nature. 409(6823):2001;1060-1063
4. Taniguchi M., et al. Expression of Arabidopsis response regulator homologs is induced by cytokinins and nitrate. FEBS Lett. 429(3):1998;259-262
5. Mahonen A.P., et al. A novel two-component hybrid molecule regulates vascular morphogenesis of the Arabidopsis root. Genes Dev. 14(23):2000;2938-2943
6. Mizuno T. His-Asp phosphotransfer signal transduction. J. Biochem. (Tokyo). 123(4):1998;555-563
7. Suzuki T., et al. The Arabidopsis sensor His-kinase, AHk4, can respond to cytokinins. Plant Cell. Physiol. 42(2):2001;107-113
8. Parkinson J.S., Kofoid E.C. Communication modules in bacterial signaling proteins. Annu. Rev. Genet. 26:1992;71-112
9. Mougel C., Zhulin I.B. CHASE: an extracellular sensing domain common to transmembrane receptors from prokaryotes, lower eukaryotes and plants. Trends Biochem. Sci. 26(10):2001;582-584
10. Anantharaman V., Aravind L. The CHASE domain: a predicted ligand-binding module in plant cytokinin receptors and other eukaryotic and bacterial receptors. Trends Biochem. Sci. 26(10):2001;579-582
11. Anantharaman V., et al. Regulatory potential, phyletic distribution and evolution of ancient, intracellular small-molecule-binding domains. J. Mol. Biol. 307(5):2001;1271-1292
12. Aravind L., et al. Trends in protein evolution inferred from sequence and structure analysis. Curr. Opin. Struct. Biol. 12(3):2002;392-399
13. Kinch L.N., et al. CASP5 assessment of fold recognition target predictions. Proteins. 53(Suppl 6):2003;395-409
14. Rychlewski L., et al. LiveBench-6: large-scale automated evaluation of protein structure prediction servers. Proteins. 53(Suppl 6):2003;542-547
15. Bujnicki J.M., et al. Structure prediction meta server. Bioinformatics. 17(8):2001;750-751
16. von Grotthuss M., et al. Application of 3D-Jury, GRDB, and Verify3D in fold recognition. Proteins. 53(Suppl 6):2003;418-423
17. Ginalski K., et al. Detecting distant homology with Meta-BASIC. Nucleic Acids Res. 32(Web Server Issue):2004;W576-W581
18. Pappalardo L., et al. The NMR structure of the sensory domain of the membranous two-component fumarate sensor (histidine protein kinase) DcuS of Escherichia coli. J. Biol. Chem. 278(40):2003;39185-39188
19. Reinelt S., et al. The structure of the periplasmic ligand-binding domain of the sensor kinase cita reveals the first extracellular pas domain. J. Biol. Chem. 278(40):2003;39189-39196
20. Plewczynski, D., et al. (2002) 3D-Hit, fast structural comparison of proteins. in: Poster on 10th International Conference on Intelligent Systems For Molecular Biology
21. Sali A., Blundell T.L. Comparative protein modelling by satisfaction of spatial restraints. J. Mol. Biol. 234(3):1993;779-815
22. Luthy R., et al. Assessment of protein models with three-dimensional profiles. Nature. 356(6364):1992;83-85
23. Yamada H., et al. The Arabidopsis AHK4 histidine kinase is a cytokinin-binding receptor that transduces cytokinin signals across the membrane. Plant Cell Physiol. 42(9):2001;1017-1023
24. Carugo O., Pongor S. Protein fold similarity estimated by a probabilistic approach based on C(alpha)-C(alpha) distance comparison. J. Mol. Biol. 315(4):2002;887-898
25. Ponting C.P., Aravind L. PAS: a multifunctional domain family comes to light. Curr. Biol. 7(11):1997;R674-677
26. Zhulin I.B., et al. PAS domain S-boxes in Archaea, Bacteria and sensors for oxygen and redox. Trends Biochem. Sci. 22(9):1997;331-333
27. Aravind L., Ponting C.P. The GAP domain: an evolutionary link between diverse phototransducing proteins. Trends Biochem. Sci. 22(12):1997;458-459
28. Michalopoulos I., et al. TOPS: an enhanced database of protein structural topology. Nucleic Acids Res. 32:2004;D251-D254. Database issue