Computational identification of candidate nucleotide cyclases in higher plants

Methods in Molecular Biology

Volumn 1016, Issue , 2013, Pages 195-205

  Wong, Aloysius ^a   Gehring, Chris ^a  

^a KING ABDULLAH UNIVERSITY OF SCIENCE AND TECHNOLOGY   (Saudi Arabia)

Author keywords

Adenylyl cyclase; Arabidopsis thaliana; Basic local alignment search tool; cAMP; Catalytic center; cGMP; Cyclic nucleotide cyclase; Guanylyl cyclase; Homology modeling; Motif search

Indexed keywords

ADENYLATE CYCLASE; CYCLIC NUCLEOTIDE; CYCLIC NUCLEOTIDE CYCLASE; GUANYLATE CYCLASE; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARABIDOPSIS THALIANA; ARTICLE; CRYSTAL STRUCTURE; GENETIC CONSERVATION; IN VITRO STUDY; IN VIVO STUDY; NONHUMAN; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN STRUCTURE; VASCULAR PLANT;

ANIMALIA; ARABIDOPSIS THALIANA; EMBRYOPHYTA; EUKARYOTA; PROKARYOTA;

EID: 84883181243     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-62703-441-8_13     Document Type: Article

References (18)

1. Neuhaus G, Bowler C, Hiratsuka K, Yamagata H, Chua NH (1997) Phytochrome-regulated repression of gene expression requires calcium and cGMP. EMBO J 16:2554-2564
2. Pharmawati M, Billington T, Gehring CA (1998) Stomatal guard cell responses to kinetin and natriuretic peptides are cGMP dependent. Cell Mol Life Sci 54:272-276
3. Gehring CA, Irving HR (2003) Natriuretic peptides- A class of heterologous molecules in plants. Int J Biochem Cell Biol 35:1318-1322
4. Kwezi L, Ruzvidzo O, Wheeler JI, Govender K, Iacuone S, Thompson PE, Gehring C, Irving HR (2011) The phytosulfokine (PSK) receptor is capable of guanylate cyclase activity and enabling cyclic GMP-dependent signaling in plants. J Biol Chem 286:22580-22588
5. Maathuis FJ, Sanders D (2001) Sodium uptake in Arabidopsis roots is regulated by cyclic nucleotides. Plant Physiol 127:1617-1625
6. Donaldson L, Ludidi N, Knight MR, Gehring C, Denby K (2004) Salt and osmotic stress cause rapid increases in Arabidopsis thaliana cGMP levels. FEBS Lett 569:317-320
7. Pasqualini S, Meier S, Gehring C, Madeo L, Fornaciari M, Romano B, Ederli L (2009) Ozone and nitric oxide induce cGMP-dependent and -independent transcription of defence genes in tobacco. New Phytol 181:860-870
8. Qi Z, Verma R, Gehring C, Yamaguchi Y, Zhao Y, Ryan CA, Berkowitz GA (2010) Ca 2+ signaling by plant Arabidopsis thaliana Pep peptides depends on AtPepR1, a receptor with guanylyl cyclase activity, and cGMP-activated Ca 2+ channels. Proc Natl Acad Sci USA 107:21193-21198
9. Leng Q, Mercier RW, Yao W, Berkowitz GA (1999) Cloning andfirst functional characterization of a plant cyclic nucleotide-gated cation channel. Plant Physiol 121:753-761
10. Ludidi N, Gehring C (2003) Identification of a novel protein with guanylyl cyclase activity in Arabidopsis thaliana. J Biol Chem 278:6490-6494
11. Meier S, Seoighe C, Kwezi L, Irving H, Gehring C (2007) Plant nucleotide cyclases: An increasingly complex and growing family. Plant Signal Behav 2:536-539
12. Kwezi L, Meier S, Mungur L, Ruzvidzo O, Irving H, Gehring C (2007) The Arabidopsis thaliana brassinosteroid receptor (AtBRI1) contains a domain that functions as a guanylyl cyclase in vitro. PloS One 2:e449
13. Gehring C (2010) Adenyl cyclases and cAMP in plant signaling-past and present. Cell Commun Signal 8:15
14. Liu Y, Ruoho A, Rao V, Hurley J (1997) Catalytic mechanisms of the adenyl and guanylyl cyclases: Modelling and mutational analysis. Proc Natl Acad Sci USA 94:13414-13419
15. Mulaudzi T, Ludidi N, Ruzvidzo O, Morse M, Hendricks N, Iwuoha E, Gehring C (2011) Identification of a novel Arabidopsis thaliana nitric oxide-binding molecule with guanylate cyclase activity in vitro. FEBS Lett 585:2693-2697
16. Krieger E, Nabuurs SB, Vriend G (2005) Homology modeling. Structural bioinformatics. Wiley, New York, pp 509-523
17. Eswar N, Webb B, Marti-Renom MA, Madhusudhan MS, Eramian D, Shen MY, Pieper U, Sali A (2001) Comparative protein structure modeling using MODELLER. Current protocols in protein science. Wiley, New York, Chapter 2, Unit 2.9
18. McCue L, McDonough K, Lawrence C (2000) Functional classification of cNMP-binding proteins and nucleotide cyclases with implications for novel regulatory pathways in Mycobacterium tuberculosis. Genome Res 10:204-219