Archive of Kirill's Review of the Week

Archive of Kirill's Review of the Week - 1999

By Kirill Degtyarenko

Last modified: Thu Apr 15 16:01:39 BST 2004

24 December 1999.

Bolin, K.A. and Millhauser, G.L. (1999) and 3₁₀: the split personality of polypeptide helices. Acc. Chem. Res. 32, 1027-1033.

Merry Christmas and a Happy Year 2000

17 December 1999.

D'Alessio, G. (1999) Evolution of oligomeric proteins: The unusual case of a dimeric ribonuclease. Eur. J. Biochem. 266, 699-708.

10 December 1999.

Kühlmann, U.C., Moore, G.R., James, R., Kleanthous, C. and Hemmings, A.M. (1999) Structural parsimony in endonuclease active sites: should the number of homing endonuclease families be redefined? FEBS Lett. 463, 97-102.

2 December 1999.

Ghanadan, H. (1999) Multimedia in analytical chemistry. Anal. Chem. 71, 761A-763A.

This article includes two animated figures as Supporting Information.

26 November 1999.

Claiborne, A., Yeh, J.I., Mallett, T.C., Luba, J., Crane, E.J., III, Charrier, V. and Parsonage, D. (1999) Protein-sulfenic acids: diverse roles for an unlikely player in enzyme catalysis and redox regulation. Biochemistry 38, 15407-15416.

19 November 1999.

Hackstein, J.H.P., Akhmanova, A., Boxma, B., Harhangi, H.R. and Voncken, F.G.J. (1999) Hydrogenosomes: eukaryotic adaptations to anaerobic environments. Trends Microbiol. 7, 441-447.

12 November 1999.

Hobza, P. and Sponer, J. (1999) Structure, energetics, and dynamics of the nucleic acid base pairs: nonempirical ab initio calculations. Chem. Rev. 99, 3247-3276.

5 November 1999.

Staley, J.T. and Gosink, J.J. (1999) Poles apart: biodiversity and biogeography of sea ice bacteria. Annu. Rev. Microbiol. 53, 189-215.

29 October 1999.

Picknett, T. and Davis, K. (1999) The 100 most-cited articles from JMB. J. Mol. Biol. 293, 13773-13779.

The full list is available here. It includes some very influential bioinformatics papers (well it was called computational or even theoretical biology in those days):

4. Kyte, J. and Doolittle, R.F. (1982) A simple method for displaying the hydropathic character of a protein. J. Mol. Biol. 157, 105-132.

...

9. Bernstein, F.C., Koetzle, T.F., Williams, G.J., Meyer, E.E., Jr., Brice, M.D., Rodgers, J.R., Kennard, O., Shimanouchi, T. and Tasumi, M. (1977) The Protein Data Bank: a computer-based archival file for macromolecular structures. J. Mol. Biol. 112, 535-542.

[Remarkably, this paper was reprinted in two other journals: Eur. J. Biochem. 80, 319-324 (1977) and Arch. Biochem. Biophys. 185, 584-591 (1978)!]

...

11. Garnier, J., Osguthorpe, D.J. and Robson, B. (1978) Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins. J. Mol. Biol. 120, 97-120.

...

14. Altschul, S.F., Gish, W., Miller, W., Myers, E.W. and Lipman, D.J. (1990) Basic local alignment search tool. J. Mol. Biol. 215, 403-410.

...

25. Needleman, S.B. and Wunsch, C.D. (1970) A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol. 48, 443-453.

...

38. von Heijne, G. (1985) Signal sequences. The limits of variation. J. Mol. Biol. 184, 99-105.

...

46. Eisenberg, D., Schwarz, E., Komaromy, M. and Wall, R. (1984) Analysis of membrane and surface protein sequences with the hydrophobic moment plot. J. Mol. Biol. 179, 125-142.

...

60. Chou, P.Y. & Fasman, G.D. (1977) Beta-turns in proteins. J. Mol. Biol. 115, 135-175.

...

98. Ponder, J.W. & Richards, F.M. (1987) Tertiary templates for proteins. Use of packing criteria in the enumeration of allowed sequences for different structural classes. J. Mol. Biol. 193, 775-791.

...

22 October 1999.

Jacob, M. and Schmid, F.X. (1999) Protein folding as a diffusional process. Biochemistry 38, 13773-13779.

15 October 1999.

Seeman, N.C. (1999) DNA engineering and its application to nanotechnology. Trends Biotechnol. 17, 437-443.

8 October 1999.

Rensing, C., Ghosh, M. and Rosen, B.P. (1999) Families of soft-metal-ion-transporting ATPases. J. Bacteriol. 181, 5891-5897.

1 October 1999.

Begley, T.P., Xi, J., Kinsland, C., Taylor, S. and McLafferty, F. (1999) The enzymology of sulfur activation during thiamin and biotin biosynthesis. Curr. Opin. Chem. Biol. 3, 623-629.

24 September 1999.

Kornberg, A., Rao, N. and Ault-Riché, D. (1999) Inorganic polyphosphate: a molecule of many functions. Annu. Rev. Biochem. 68, 89-126.

17 September 1999.

Louie, A.Y. and Meade, T.J. (1999) Metal complexes as enzyme inhibitors. Chem. Rev. 99, 2711-2734.
This review appears in the special issue of Chemical Reviews on Medicinal Inorganic Chemistry (Chemical Reviews vol. 99, no. 9, 1999).

10 September 1999.

Scrutton, N.S., Basran, J. and Sutcliffe, M.J. (1999) New insights into enzyme catalysis. Ground state tunnelling driven by protein dynamics. Eur. J. Biochem. 264, 666-671.

3 September 1999.

Deppenmeier, U., Lienard, T. and Gottschalk, G. (1999) Novel reactions involved in energy conservation by methanogenic archaea. FEBS Lett. 457, 291-297.

20 August 1999.

Kirshenbaum, K., Zuckermann, R.N. and Dill, K.A. (1999) Designing polymers that mimic biomolecules. Curr. Opin. Struct. Biol. 9, 530-535.

13 August 1999.

Chatgilialoglu, C., Crich, D., Komatsu, M. and Ryu, I. (1999) Chemistry of acyl radicals. Chem. Rev. 99, 1991-2070.

6 August 1999.

Batey, R.T., Rambo, R.P. and Doudna, J.A. (1999) Tertiary motifs in RNA structure and folding. Angew. Chem. Int. Ed. 38, 2326-2343.

30 July 1999.

De Voss, J.J., Rutter, K., Schroeder, B.G. and Barry, C.E., III. (1999) Iron acquisition and metabolism by mycobacteria. J. Bacteriol. 181, 4443-4451.

23 July 1999.

Pines, J. (1999) Four-dimensional control of the cell cycle. Nature Cell Biol. 1, E73 -E79.

16 July 1999.

Involvement of mitochondria in apoptosis - from

Crompton, M. (1999) The mitochondrial permeability transition pore and its role in cell death. Biochem. J. 341, 233-249.

9 July 1999.

Nehlig, A. (1999) Does caffeine lead to psychological dependence? CHEMTECH 29, 30-35.

Studies in animals and humans reveal that it may lead to dependence only at very high doses.

2 July 1999.

Kohen, A. and Klinman, J.P. (1999) Hydrogen tunneling in biology. Chemistry & Biology 6, R191-R198.

25 June 1999.

Liu, L., White, M.J. and MacRae, T.H. (1999) Transcription factors and their genes in higher plants: Functional domains, evolution and regulation. Eur. J. Biochem. 262, 247-257.

18 June 1999.

Oren, A. (1999) Bioenergetic aspects of halophilism. Microbiol. Mol. Biol. Rev. 63, 334-348.

11 June 1999.

Commans, S. and Böck, A. (1999) Selenocysteine inserting tRNAs: an overview. FEMS Microbiol. Rev. 23, 335-351.

This publication appears in the special issue RNA and RNAses: Dynamics and Catalytic Functions of Magic Molecules (Klug, G., Rauhut, R. and Dürre, P., Eds.) FEMS Microbiology Reviews, vol. 23, no. 3 (1999).

4 June 1999.

Pirrung, M.C. (1999) Histidine kinases and two-component signal transduction systems. Chemistry & Biology 6, R167-R175.

28 May 1999.

Brakefield, P.M. and French, V. (1999) Butterfly wings: the evolution of development of colour patterns. BioEssays 21, 391-401.

14 May 1999.

Harris, T.K. and Mildvan, A.S. (1999) High-precision measurement of hydrogen bond lengths in proteins by nuclear magnetic resonance methods. Proteins 35, 275-282.

7 May 1999.

Williams, D.H. and Bardsley, B. (1999) The vancomycin group of antibiotics and the fight against resistant bacteria. Angew. Chem. Int. Ed. 38, 1172-1193.

30 April 1999.

Miles, E.W., Rhee, S. and Davies, D.R. (1999) The molecular basis of substrate channeling. J. Biol. Chem. 274, 12193-12196.

23 April 1999.

Boore, J.L. (1999) Animal mitochondrial genomes. Nucleic Acids Res. 27, 1767-1780.

16 April 1999.

Fabret, C., Feher, V.A. and Hoch, J.A. (1999) Two-component signal transduction in Bacillus subtilis: How one organism sees its world. J. Bacteriol. 181, 1975-1983. .

9 April 1999.

Egger, M. and Niggli, E. (1999) Regulatory function of Na-Ca exchange in the heart: Milestones and outlook. J. Membrane Biol. 168, 107-130.

1 April 1999.

Gowers, D.M. and Fox, K.R. (1999) Towards mixed sequence recognition by triple helix formation. Nucleic Acids Res. 27, 1569-1577.

26 March 1999.

Ballaré, C.L. (1999) Keeping up with the neighbours: phytochrome sensing and other signalling mechanisms. Trends Plant Sci. 4, 97-102.

19 March 1999.

Madison, L.L. and Huisman, G.W. (1999) Metabolic engineering of poly(3-hydroxyalkanoates): From DNA to plastic. Microbiol. Mol. Biol. Rev. 63, 21-53.

12 March 1999.

Barciszewski, J., Jurczak, J., Porowski, S., Specht, T. and Erdmann, V.A. (1999) The role of water structure in conformational changes of nucleic acids in ambient and high-pressure conditions. Eur. J. Biochem. 260, 347-354.

5 March 1999.

Martin, W. (1999) Mosaic bacterial chromosomes: a challenge en route to a tree of genomes. BioEssays 21, 99-104.

This review appears in the special Genomics issue (BioEssays vol. 21, no. 2, 1999).

26 February 1999.

Ferry, J.G. (1999) Enzymology of one-carbon metabolism in methanogenic pathways. FEMS Microbiol. Rev. 23, 13-38.

19 February 1999.

Voziyanov, Y., Pathania, S. and Jayaram, M. (1999) A general model for site-specific recombination by the integrase family recombinases. Nucleic Acids Res. 27, 930-941.

12 February 1999.

Mesiano, A.J., Beckman, E.J. and Russell, A.J. (1999) Supercritical biocatalysis. Chem. Rev. 99, 623-634.

5 February 1999.

Pécheur, E.I., Sainte-Marie, J., Bienvenüe, A. and Hoekstra, D. (1999) Peptides and membrane fusion: Towards an understanding of the molecular mechanism of protein-induced fusion. J. Membrane Biol. 167, 1-17.

28 January 1999.

Tantillo, D.J., Chen, J. and Houk, K.N. (1998) Theozymes and compuzymes: theoretical models for biological catalysis. Curr. Opin. Chem. Biol. 2, 743-750.

22 January 1999.

Kaifer, A.E. (1999) Interplay between molecular recognition and redox chemistry. Acc. Chem. Res. 32, 62-67.

15 January 1999.

Draper, D.E. and Reynaldo, L.P. (1999) RNA binding strategies of ribosomal proteins. Nucleic Acids Res. 27, 381-388.

8 January 1999.

Sansom, M.S.P., Forrest, L.R. and Bull, R. (1998) Viral ion channels: molecular modeling and simulation. BioEssays 20, 992-1000.

1 January 1999.

Joseleau-Petit, D., Vinella, D. and D'Ari, R. (1999) Metabolic alarms and cell division in Escherichia coli. J. Bacteriol. 181, 9-14.

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