Optimisation of the surface electrostatics as a strategy for cold adaptation of uracil-DNA N-glycosylase (UNG) from Atlantic cod (Gadus morhua)

Journal of Molecular Biology

Volumn 343, Issue 5, 2004, Pages 1221-1230

  Moe, Elin ^a   Leiros, Ingar ^b   Riise, Ellen Kristin ^a   Olufsen, Magne ^a   Lanes, Olav ^c   Smalås, Arneo ^a   Willassen, Nils Peder ^a  

^a UNIVERSITY OF TROMSØ   (Norway)

^b EUROPEAN SYNCHROTRON RADIATION FACILITY   (France)

^c Biotec Pharmacon ASA   (Norway)

Author keywords

cold adapted enzymes; crystal structure; electrostatics; stability; uracil DNA N glycosylase

Indexed keywords

MUTANT PROTEIN; URACIL DNA GLYCOSYLTRANSFERASE;

ARTICLE; ATLANTIC COD; COLD ACCLIMATIZATION; COMPARATIVE STUDY; CRYSTAL STRUCTURE; ELECTRICITY; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME STABILITY; PRIORITY JOURNAL; SURFACE PROPERTY; TEMPERATURE SENSITIVE MUTANT; THERMOSTABILITY;

GADUS; GADUS MORHUA;

EID: 6344242968     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2004.09.004     Document Type: Article

References (26)

1. P.W. Hochachka, and G.N. Somero Biochemical Adaptation 1984 Princeton University Press Princeton, NJ
2. A.O. Smalas, H.K. Leiros, V. Os, and N.P. Willassen Cold adapted enzymes Biotechnol. Annu. Rev. 6 2000 1 57
3. A.A. Gorfe, B.O. Brandsdal, H.K. Leiros, R. Helland, and A.O. Smalas Electrostatics of mesophilic and psychrophilic trypsin isoenzymes: qualitative evaluation of electrostatic differences at the substrate binding site Proteins: Struct. Funct. Genet. 40 2000 207 217
4. B.O. Brandsdal, A.O. Smalas, and J. Aqvist Electrostatic effects play a central role in cold adaptation of trypsin FEBS Letters 499 2001 171 175
5. S.Y. Kim, K.Y. Hwang, S.H. Kim, H.C. Sung, Y.S. Han, and Y. Cho Structural basis for cold adaptation. Sequence, biochemical properties, and crystal structure of malate dehydrogenase from a psychrophile Aquaspirillium arcticum J. Biol. Chem. 274 1999 11761 11767
6. R.J. Russell, U. Gerike, M.J. Danson, D.W. Hough, and G.L. Taylor Structural adaptations of the cold-active citrate synthase from an Antarctic bacterium Structure 6 1998 351 361
7. T. Lindahl, and B. Nyberg Heat-induced deamination of cytosine residues in deoxyribonucleic acid Biochemistry 13 1974 3405 3410
8. C.D. Mol, A.S. Arvai, G. Slupphaug, B. Kavli, I. Alseth, H.E. Krokan, and J.A. Tainer Crystal structure and mutational analysis of human uracil-DNA glycosylase: structural basis for specificity and catalysis Cell 80 1995 869 878
9. R. Savva, K. McAuley-Hecht, T. Brown, and L. Pearl The structural basis of specific base-excision repair by uracil-DNA glycosylase Nature 373 1995 487 493
10. R. Ravishankar, M. Bidya Sagar, S. Roy, K. Purnapatre, P. Handa, U. Varshney, and M. Vijayan X-ray analysis of a complex of Escherichia coli uracil DNA glycosylase (EcUDG) with a proteinaceous inhibitor. The structure elucidation of a prokaryotic UDG Nucl. Acids Res. 26 1998 4880 4887
11. I. Leiros, E. Moe, O. Lanes, A.O. Smalas, and N.P. Willassen The crystal structure of uracil-DNA N-glycosylase from Atlantic cod (Gadus morhua) reveals cold-adaptation features Acta Crystallog. sect. D 59 2003 1357 1365
12. S.S. Parikh, C.D. Mol, G. Slupphaug, S. Bharati, H.E. Krokan, and J.A. Tainer Base excision repair initiation revealed by crystal structures and binding kinetics of human uracil-DNA glycosylase with DNA EMBO J. 17 1998 5214 5226
13. O. Lanes, I. Leiros, A.O. Smalas, and N.P. Willassen Identification, cloning, and expression of uracil-DNA glycosylase from Atlantic cod (Gadus morhua): characterization and homology modeling of the cold-active catalytic domain Extremophiles 6 2002 73 86
14. N. Guex, and M.C. Peitsch SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling Electrophoresis 18 1997 2714 2723
15. A. Nicholls, K.A. Sharp, and B. Honig Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons Proteins: Struct. Funct. Genet. 11 1991 281 296
16. S.N. Ho, H.D. Hunt, R.M. Horton, J.K. Pullen, and L.R. Pease Site-directed mutagenesis by overlap extension using the polymerase chain reaction Gene 77 1989 51 59
17. O. Lanes, P.H. Guddal, D.R. Gjellesvik, and N.P. Willassen Purification and characterization of a cold-adapted uracil-DNA glycosylase from Atlantic cod (Gadus morhua) Comp. Biochem. Physiol. B 127 2000 399 410
18. M.M. Bradford A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding Anal. Biochem. 72 1976 248 254
19. U.K. Laemmli Cleavage of structural proteins during the assembly of the head of bacteriophage T4 Nature 227 1970 680 685
20. I. Leiros, O. Lanes, O. Sundheim, R. Helland, A.O. Smalas, and N.P. Willassen Crystallization and preliminary X-ray diffraction analysis of a cold- adapted uracil-DNA glycosylase from Atlantic cod (Gadus morhua) Acta Crystallog. sect. D 57 2001 1706 1708
21. Z. Otwinowski, and W. Minor Processing of X-ray diffraction data collected in oscillation mode Methods Enzymol. 276 1997 307 326
22. Collaborative Computational Project, Number 4 The CCP4 suite: programs for protein crystallography Acta Crystallog. sect. D 50 1994 760 763
23. A.T. Brunger, P.D. Adams, G.M. Clore, W.L. DeLano, P. Gros, and R.W. Grosse-Kunstleve Crystallography and NMR system: a new software suite for macromolecular structure determination Acta Crystallog. sect. D 54 1998 905 921
24. T.A. Jones, J.Y. Zou, S.W. Cowan, and M. Kjeldgaard Improved methods for building protein models in electron density maps and the location of errors in these models Acta Crystallog. sect. A 47 1991 110 119
25. G.J. Kleywegt, and A.T. Brunger Checking your imagination: applications of the free R value Structure 4 1996 897 904
26. R.A. Laskowski, M.W. MacArthur, D.S. Moss, and J.M. Thornton PROCHECK: A program to check the stereochemical quality of protein structures J. Appl. Crystallog. 26 1993 283 291