Archive of Kirill's Paper of the Week - 2006

by Kirill Degtyarenko

Last modified: Fri Jan 5 10:53:01 GMT 2007

15 December 2006.

• Akagawa, M., Ishii, Y., Ishii, T., Shibata, T., Yotsu-Yamashita, M., Suyama, K. and Uchida, K. (2006) Metal-catalyzed oxidation of protein-bound dopamine. Biochemistry 45, 15120-15128.

8 December 2006.

• Gallo, S., Freisinger, E. and Sigel, R.K.O. (2007) Towards the synthesis of light-stable coenzyme B₁₂ analogs. Inorg. Chim. Act 360, 360-368.

1 December 2006.

• Zhang, X.V. and Martin, S.T. (2006) Driving parts of Krebs cycle in reverse through mineral photochemistry. J. Am. Chem. Soc. 128, 16032-16033.

24 November 2006.

• Li, M., Liu, J., Ran, X., Fang, M., Shi, J., Qin, H., Goh, J.-M. and Song, J. (2006) Resurrecting abandoned proteins with pure water: CD and NMR studies of protein fragments solubilized in salt-free water. Biophys. J. 91, 4201-4209.

17 November 2006.

Read and find out why the authors thought it was necessary to repeat "24 min" five times in the abstract!

• Jiang, Z., Morré, D.M. and Morré, D.J. (2006) A role for copper in biological time-keeping. J. Inorg. Biochem. 100, 2140-2149.

10 November 2006.

• Nomata, J., Kitashima, M., Inoue, K. and Fujita, Y. (2006) Nitrogenase Fe protein-like Fe-S cluster is conserved in L-protein (BchL) of dark-operative protochlorophyllide reductase from Rhodobacter capsulatus. FEBS Lett. 580, 6151-6154.

3 November 2006.

• Ireland, D.C., Colgrave, M.L. and Craik, D.J. (2006) A novel suite of cyclotides from Viola odorata: sequence variation and the implications for structure, function and stability. Biochem. J. 400, 1-12.

27 October 2006.

• Semsey, S., Andersson, A.M.C., Krishna, S., Jensen, M.H., Massé, E. and Sneppen, K. (2006) Genetic regulation of fluxes: iron homeostasis of Escherichia coli. Nucleic Acids Res. 34, 4960-4967.

20 October 2006.

• Barraud, N., Hassett, D.J., Hwang, S.-H., Rice, S.A., Kjelleberg, S. and Webb, J.S. (2006) Involvement of nitric oxide in biofilm dispersal of Pseudomonas aeruginosa. J. Bacteriol. 188, 7344-7353.

13 October 2006.

• Torrente, Y., Gavina, M., Belicchi, M., Fiori, F., Komlev, V., Bresolin, N. and Rustichelli, F. (2006) High-resolution X-ray microtomography for three-dimensional visualization of human stem cell muscle homing. FEBS Lett. 580, 5759-5764.

6 October 2006.

• Thomas, D.R., Francis, N.R., Xu, C. and Derosier, D.J. (2006) The three-dimensional structure of the flagellar rotor from a clockwise-locked mutant of Salmonella enterica serovar typhimurium. J. Bacteriol. 188, 7039-7048.

• Riechmann, L. and Winter, G. (2006) Early protein evolution: building domains from ligand-binding polypeptide segments. J. Mol. Biol. 363, 460-468.

22 September 2006.

• del Sol, A., Fujihashi, H., Amoros, D. and Nussinov, R. (2006) Residue centrality, functionally important residues, and active site shape: Analysis of enzyme and non-enzyme families. Protein Science 15, 2120-2128.

15 September 2006.

• Murakami, S., Nakashima, R., Yamashita, E., Matsumoto, T. and Yamaguchi, A. (2006) Crystal structures of a multidrug transporter reveal a functionally rotating mechanism. Nature 443, 173-179.

8 September 2006.

• Shiva, S., Wang, X., Ringwood, L.A., Xu, X., Yuditskaya, S., Annavajjhala, V., Miyajima, H., Hogg, N., Harris, Z.L. and Gladwin, M.T. (2006) Ceruloplasmin is a NO oxidase and nitrite synthase that determines endocrine NO homeostasis. Nature Chem. Biol. 2, 486-493.

25 August 2006.

• Tsuchiya, Y., Kinoshita, K. and Nakamura, H. (2006) Analyses of homo-oligomer interfaces of proteins from the complementarity of molecular surface, electrostatic potential and hydrophobicity. PEDS 19, 421-429.

28 July 2006.

• Marcaida, M.J., Schlarb-Ridley, B.G., Worrall, J.A.R., Wastl, J., Evans, T.J., Bendall, D.S., Luisi, B.F., Howe, C.J.(2006) Structure of cytochrome c_6A, a novel dithio-cytochrome of Arabidopsis thaliana, and its reactivity with plastocyanin: implications for function. J. Mol. Biol. 360, 968-977.

21 July 2006.

• Sadqi, M., Fushman, D. and Muñoz, V. (2006) Atom-by-atom analysis of global downhill protein folding. Nature 442, 317-321.

14 July 2006.

• Csotonyi, J.T., Stackebrandt, E. and Yurkov, V. (2006) Anaerobic respiration on tellurate and other metalloids in bacteria from hydrothermal vent fields in the eastern Pacific ocean. Appl. Environ. Microbiol. 72, 4950-4956.

7 July 2006.

• Watanabe, K., Hotta, K., Praseuth, A.P., Koketsu, K., Migita, A., Boddy, C.N., Wang, C.C.C., Oguri, H. and Oikawa, H. (2006) Total biosynthesis of antitumor nonribosomal peptides in Escherichia coli. Nature Chem. Biol. 2, 423-428.

30 June 2006.

• Summerer, D., Chen, S., Wu, N., Deiters, A., Chin, J.W. and Schultz, P.G. (2006) A genetically encoded fluorescent amino acid. Proc. Natl. Acad. Sci. USA 103, 9785-9789.

23 June 2006.

• Weiss, Y., Shulman, A., Shir, I.B., Keinan, E. and Wolf S. (2006) Herbicide-resistance conferred by expression of a catalytic antibody in Arabidopsis thaliana. Nature Biotechnol. 24, 713-717.

16 June 2006.

• Inoue, M., Usuki, T., Lee, N., Hirama, M., Tanaka, T., Hosoi, F., Ohie, S. and Otani, T. (2006) Antitumor enediyne chromoprotein C-1027: Mechanistic investigation of the chromophore-mediated self-decomposition pathway. J. Am. Chem. Soc. 128, 7896-7903.

9 June 2006.

• Priel, A., Ramos, A.J., Tuszynski, J.A. and Cantiello, H.F. (2006) A biopolymer transistor: electrical amplification by microtubules. Biophys. J. 90, 4639-4643.

26 May 2006.

• Holden, M.A., Jayasinghe, L., Daltrop, O., Mason, A. and Bayley, H. (2006) Direct transfer of membrane proteins from bacteria to planar bilayers for rapid screening by single-channel recording. Nature Chem. Biol. 2, 314-318.

19 May 2006.

• Zawadzka, A.M., Crawford, R.L. and Paszczynski, A.J. (2006) Pyridine-2,6-bis(thiocarboxylic acid) produced by Pseudomonas stutzeri KC reduces and precipitates selenium and tellurium oxyanions. Appl. Environ. Microbiol. 72, 3119-3129.

12 May 2006.

• Tabor, J.J., Levy, M. and Ellington, A.D. (2006) Deoxyribozymes that recode sequence information. Nucleic Acids Res. 34, 2166-2172.

5 May 2006.

• Shimizu-Ibuka, A., Morita, Y., Terada, T., Asakura, T., Nakajima, K.-i., Iwata, S., Misaka, T., Sorimachi, H., Arai, S. and Abe, K. (2006) Crystal structure of neoculin: insights into its sweetness and taste-modifying activity. J. Mol. Biol. 359, 148-158.

28 April 2006.

• Heimann, A.C., Batstone, D.J. and Jakobsen, R. (2006) Methanosarcina spp. drive vinyl chloride dechlorination via interspecies hydrogen transfer. Appl. Environ. Microbiol. 72, 2942-2949.

21 April 2006.

• Pletneva, N., Pletnev, S., Tikhonova, T., Popov, V., Martynov, V. and Pletnev, V. (2006) Structure of a red fluorescent protein from Zoanthus, zRFP574, reveals a novel chromophore. Acta Crystallogr. D 62, 527-532.

7 April 2006.

• Lunin, V.V., Dobrovetsky, E., Khutoreskaya, G., Zhang, R., Joachimiak, A., Doyle, D.A., Bochkarev, A., Maguire, M.E., Edwards, A.M. and Koth, C.M. (2006) Crystal structure of the CorA Mg²⁺ transporter. Nature 440, 833-837. [Supplementary Material]

31 March 2006.

• Gao, S., Tan, G., Yuan, H., Xiao, D. and Choi, M.M.F. (2006) A simple fluorometric method using chlorophyll a for determination of Hg²⁺ ion. Microchimica Acta 153, 159-162.

24 March 2006.

• Xie, S.-X., Huang, W.-J., Ma, Z.-Q., Huang, M., Hanzlik, R.P. and Ye, Q.-Z. (2006) Structural analysis of metalloform-selective inhibition of methionine aminopeptidase. Acta Crystallogr. D 62, 425-432.

17 March 2006.

• Blasiak, L.C., Vaillancourt, F.H., Walsh, C.T. and Drennan, C.L. (2006) Crystal structure of the non-haem iron halogenase SyrB2 in syringomycin biosynthesis. Nature 440, 368-371.

10 March 2006.

• Sazanov, L.A. and Hinchliffe, P. (2006) Structure of the hydrophilic domain of respiratory complex I from Thermus thermophilus. Science 311, 1430-1436.

3 March 2006.

• Vinklárek, J., Palácková, H., Honzícek, J., Holubová, J., Holcapek, M. and Císarová, I. (2006) Investigation of vanadocene(IV) -amino acid complexes: Synthesis, structure, and behavior in physiological solutions, human plasma, and blood. Inorg. Chem. 45, 2156-2162. [Supplementary Material]

24 February 2006.

• Raugei, S. and Carloni, P. (2006) Structure and function of vanadium haloperoxidases. J. Phys. Chem. B 110, 3747-3758.

17 February 2006.

• Henriksen, J., Rowat, A.C., Brief, E., Hsueh, Y.W., Thewalt, J.L., Zuckermann, M.J. and Ipsen, J.H. (2006) Universal behavior of membranes with sterols. Biophys. J. 90, 1639-1649.

10 February 2006.

• Dudev, T. and Lim, C. (2006) A DFT/CDM study of metal-carboxylate interactions in metalloproteins: Factors governing the maximum number of metal-bound carboxylates. J. Am. Chem. Soc. 128, 1553-1561.

3 February 2006.

• Senanayake, S.D. and Idriss, H. (2006) Photocatalysis and the origin of life: Synthesis of nucleoside bases from formamide on TiO₂(001) single surfaces. Proc. Natl. Acad. Sci. USA 103, 1194-1198.

27 January 2006.

• Yoshikawa, Y., Hizume, K., Oda, Y., Takeyasu, K., Araki, S. and Yoshikawa, K. (2006) Protective effect of vitamin C against double-strand breaks in reconstituted chromatin visualized by single-molecule observation. Biophys. J. 90, 993-999.

20 January 2006.

• Katayama, Y., Hashimoto, K., Nakayama, H., Mino, H., Nojiri, M., Ono, T.-a., Nyunoya, H., Yohda, M., Takio, K. and Odaka, M. (2006) Thiocyanate hydrolase is a cobalt-containing metalloenzyme with a cysteine-sulfinic acid ligand. J. Am. Chem. Soc. 128, 728-729. [Supplementary Material]

13 January 2006.

• Komeili, A., Li, Z., Newman, D.K. and Jensen, G.J. (2006) Magnetosomes are cell membrane invaginations organized by the actin-like protein MamK. Science 311, 242-245.

6 January 2006.

• Kaucher, M.S., Harrell, W.A., Jr. and Davis, J.T. (2006) A unimolecular G-quadruplex that functions as a synthetic transmembrane Na⁺ transporter. J. Am. Chem. Soc. 128, 38-39. [Supplementary Material]

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