Mutational analysis of the AtNUDT7 Nudix hydrolase from arabidopsis thaliana reveals residues required for protein quarternary structure formation and activity

Acta Biochimica Polonica

Volumn 56, Issue 2, 2009, Pages 291-300

  Olejnik, Kamil ^a   Płochocka, Danuta ^a   Grynberg, Marcin ^a   Goch, Grazyna ^a   Gruszecki, Wiesław I ^b   Basińska, Teresa ^c   Kraszewska, Elzbieta ^a  

^a INSTITUTE OF BIOCHEMISTRY AND BIOPHYSICS   (Poland)

^b MARIA CURIE SK ODOWSKA UNIVERSITY   (Poland)

^c CENTRE OF MOLECULAR AND MACROMOLECULAR STUDIES   (Poland)

Author keywords

14.3.3 interaction; Arabidopsis thaliana; AtNUDT7; Biophysical analysis; Dimer; Mutagenesis; Nudix; Structure function analysis

Indexed keywords

ARABIDOPSIS PROTEIN; INORGANIC PYROPHOSPHATASE; MUTANT PROTEIN; NUDIX HYDROLASES; PROTEIN 14 3 3; RECOMBINANT PROTEIN;

AMINO ACID SEQUENCE; ARABIDOPSIS; ARTICLE; CELL LINE; CHEMICAL STRUCTURE; CHEMISTRY; CIRCULAR DICHROISM; COMPARATIVE STUDY; ENZYME ACTIVE SITE; ENZYMOLOGY; ESCHERICHIA COLI; GENETICS; INFRARED SPECTROSCOPY; ISOLATION AND PURIFICATION; KINETICS; LIQUID CHROMATOGRAPHY; METABOLISM; MOLECULAR GENETICS; PROTEIN MULTIMERIZATION; PROTEIN QUATERNARY STRUCTURE; PROTEIN SECONDARY STRUCTURE; SACCHAROMYCES CEREVISIAE; SEQUENCE ALIGNMENT; SITE DIRECTED MUTAGENESIS; TWO HYBRID SYSTEM;

14-3-3 PROTEINS; AMINO ACID SEQUENCE; ARABIDOPSIS; ARABIDOPSIS PROTEINS; CATALYTIC DOMAIN; CELL LINE; CHROMATOGRAPHY, LIQUID; CIRCULAR DICHROISM; ESCHERICHIA COLI; KINETICS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTAGENESIS, SITE-DIRECTED; MUTANT PROTEINS; PROTEIN MULTIMERIZATION; PROTEIN STRUCTURE, QUATERNARY; PROTEIN STRUCTURE, SECONDARY; PYROPHOSPHATASES; RECOMBINANT PROTEINS; SACCHAROMYCES CEREVISIAE; SEQUENCE ALIGNMENT; SPECTROSCOPY, FOURIER TRANSFORM INFRARED; TWO-HYBRID SYSTEM TECHNIQUES;

ARABIDOPSIS; ARABIDOPSIS THALIANA;

EID: 68249109705     PISSN: 0001527X     EISSN: 1734154X     Source Type: Journal    
DOI: None     Document Type: Article

References (28)

1. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215: 403-410.
2. Bartsch M, Gobbato E, Bednarek P, Debey S, Schultze JL, Bautor J, Parker JE (2006) Salicylic acid-independent ENHANCED DISEASE SUSCEPTIBILITY1 signalingin Arabidopsis immunity and cell death is regulated by the monooxygenase FMO1 and the Nudix hydrolase NUDT7. Plant Cell 18: 1038-1051.
3. Bessman MJ, Frick DN, O'Handley SF (1996) The MutT proteins or "Nudix" hydrolases, a family of versatile, widely distributed, "housecleaning" enzymes. J Biol Chem 271: 25059-25062.
4. Böhm G, Mühr R, Jaenicke R (1992) Quantitative analysis of protein far UV circular dichroism spectra by neural networks. Protein Eng 5: 191-195.
5. Calero M, Gasset M (2005) Fourier transform infrared and circular dichroism spectroscopies for amyloid studies. Methods Mol Biol 299: 129-151.
6. Fischer D (2003) 3DS3 and 3DS5 3D-SHOTGUN meta-predictors in CAFASP3. Proteins 51: 434-441.
7. Ge X, Li G-J, Wang S-B, Zhu H, Zhu T, Wang X, Xia Y (2007) AtNUDT7, a negative regulator of basal immunity in Arabidopsis, modulates two distinct defense response pathways and is involved in maintaining redox homeostasis. Plant Physiol 145: 204-215.
8. Ginalski K, Elofsson A, Fischer D, Rychlewski L (2003) 3D-Jury: a simple approach to improve protein structure predictions. Bioinformatics 19: 1015-1018.
9. Gough J, Karplus K, Hughey, Chothia C (2001) Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure. J Mol Biol 313: 903-919.
10. Jambunathan N, Mahalingam R (2006) Analysis of Arabidopsis growth factor gene 1 (GFG1) encoding a nudix hydrolase during oxidative signaling. Planta 224: 1-11.
11. James P, Halladay J, Craig EA (1996) Genomic libraries and a host strain designed for highly efficient two-hybrid selection in yeast. Genetics 144: 1425-1436.
12. Jaroszewski L, Rychlewski L, Li Z, Li W, Godzik A (2005) FFAS03: a server for profile-profile sequence alignments. Nucleic Acids Res 33: W284-288.
13. Jones DT (1999) Gen THREADER: an efficient and reliable protein fold recognition method for genomic sequences. J Mol Biol 292: 195-202.
14. Kelley LA, MacCallum RM, Sternberg MJ (2000) Enhanced genome annotation using structural profiles in the program 3D-PSSM. J Mol Biol 299: 499-520.
15. Kelley L, Bennett-Lovsey R, Herber A Web Page:http://www.sbg.bio.ic.ac.uk/phyre.
16. Kraszewska E, Olejnik K, Wyslouch-Cieszynska A (2004) An Arabidopsis thaliana homologue of the human GFG protein is active on ADP-ribose and FAD. Eur J Biochem 271: Supplement 71.
17. Lambert C, Leonard N, De Bolle X, Depiereux E (2002) ESyPred3D: Prediction of proteins 3D structures. Bioinformatics 18: 1250-1256.
18. Landau M, Mayrose I, Rosenberg Y, Glaser F, Martz E, Pupko T, Ben-Tal N (2005) ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures. Nucleic Acids Res 33: W299-302.
19. Mach H, Middaugh CR, Lewis RV (1992) Statistical determination of the average values of the extinction coefficients of tryptophan and tyrosine in native proteins. Anal Biochem 200: 74-80.
20. McGuffin LJ, Jones DT (2003) Improvement of the Gen- THREADER method for genomic fold recognition. Bioinformatics 19: 874-881.
21. Mildvan AS, Xia Z, Azurmendi HF, Saraswat V, Leger PM, Massiah MA, Gabelli SB, Bianchet MA, Kang L-W, Amzel LM (2005) Structures and mechanisms of Nudix hydrolases. Arch Biochem Biophys 433: 129-143.
22. Ogawa T, Ueda Y, Yoshimura K, Shigeoka S (2005) Comprehensive analysis of cytosolic Nudix hydrolases in Arabidopsis thaliana. J Biol Chem 280: 25277-25283.
23. Olejnik K, Kraszewska E (2005) Cloning and characterization of an Arabidopsis thaliana Nudix hydrolase. Biochim Biophys Acta 1752: 133-141.
24. Ray S, Nowak R, Strokovich K, Brown RH Jr, Walz T, Lansbury PT Jr (2004) An intersubunits disulfide bond prevents in vitro aggregation of a superoxide dismutase-1 mutant linked to familial amyotrophic lateral sclerosis. Biochemistry 43: 4899-4905.
25. Roberts MR, Salinas J, Collinge DB (2002) 14-3-3 proteins and the response to abiotic and biotic stress. Plant Mol Biol 50: 1031-1039.
26. Shi J, Blundell TL, Mizuguchi K (2001) FUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties. J Mol Biol 310: 243-257.
27. Soding J (2005) Protein homology detection by HMMHMM comparison. Bioinformatics 21: 951-960.
28. Ye Y, Godzik A (2003) Flexible structure alignment by chaining aligned fragment pairs allowing twists. Bioinformatics 19 (Suppl 2): ii246-ii255.