Molecular and Structural Biochemistry - 2006

Heldt, C. L., Hernandez, R., Mudiganti, U., Gurgel, P. V., Brown, D. T., & Carbonell, R. G. (2006). A colorimetric assay for viral agents that produce cytopathic effects. Journal of Virological Methods, 135(1), 56–65. https://doi.org/10.1016/j.jviromet.2006.01.022

Boanca, G., Sand, A., & Barycki, J. J. (2006). Uncoupling the Enzymatic and Autoprocessing Activities of Helicobacter pylori γ-Glutamyltranspeptidase. Journal of Biological Chemistry, 281(28), 19029–19037. https://doi.org/10.1074/jbc.M603381200

Kojetin, D. J., Venters, R. A., Kordys, D. R., Thompson, R. J., Kumar, R., & Cavanagh, J. (2006). Structure, binding interface and hydrophobic transitions of Ca2+-loaded calbindin-D28K. Nature Structural & Molecular Biology, 13(7), 641–647. https://doi.org/10.1038/nsmb1112

Budayova-Spano, M., Bonneté, F., Ferté, N., El Hajji, M., Meilleur, F., Blakeley, M. P., … Acta crystallographica. Section, F. (2006). A preliminary neutron diffraction study of rasburicase, a recombinant urate oxidase enzyme, complexed with 8-azaxanthin. Structural Biology and Crystallization Communications, 62(Pt 3), 306–309, https://doi.org/10.1107/s1744309106006439

Blakeley, M. P., Mitschler, A., Hazemann, I., Meilleur, F., Myles, D. A., & Podjarny, A. (2006). Comparison of hydrogen determination with X-ray and neutron crystallography in a human aldose reductase-inhibitor complex. European Biophysics Journal : EBJ, 35(7), 577–583, https://doi.org/10.1007/s00249-006-0064-8

Meilleur, F., Snell, E. H., Woerd, M. J., Judge, R. A., & Myles, D. A. A. (2006). A quasi-Laue neutron crystallographic study of d-xylose isomerase. European Biophysics Journal, 35(7), 601–609. https://doi.org/10.1007/s00249-006-0066-6

Meilleur, F., Myles, D. A. A., & Blakeley, M. P. (2006). Neutron Laue macromolecular crystallography. European Biophysics Journal, 35(7), 611–620. https://doi.org/10.1007/s00249-006-0074-6

Agrawal, A., Subramannian, R., Adler, K. B., Ram, A., Ghosh, B., Farim, M., & Dickey, B. F. (2006). MARCKS related peptide improves airway obstruction related to mucus secretion in a mouse model of asthma. 404nOtfound, Vol. 3, p. A713.

Jacobson, R., Kelly, M., Wehmeyer, F., & Sisler, E. (2006). Method to inhibit ethylene responses in plants. Washington, DC: U.S. Patent and Trademark Office.

Shen, W., & Hanley-Bowdoin, L. (2006). Geminivirus infection up-regulates the expression of two Arabidopsis protein kinases related to yeast SNF1-and mammalian AMPK-activating kinases. PLANT PHYSIOLOGY, 142(4), 1642–1655. https://doi.org/10.1104/pp.106.088476

Soderblom, E. J., & Goshe, M. B. (2006). Collision-induced dissociative chemical cross-linking reagents and methodology: Applications to protein structural characterization using tandem mass spectrometry analysis. ANALYTICAL CHEMISTRY, 78(23), 8059–8068. https://doi.org/10.1021/ac0613840

Guest, S., Essick, G., Young, M., Lee, A., Phillips, N., & McGlone, F. (2006). Oral hydration, parotid salivation and the perceived pleasantness of small water volumes. PHYSIOLOGY & BEHAVIOR, 89(5), 724–734. https://doi.org/10.1016/j.physbeh.2006.08.012

Tsai, S., Mir, B., Martin, A. C., Estrada, J. L., Bischoff, S. R., Hsieh, W. P., … Piedrahita, J. A. (2006). Detection of transcriptional difference of porcine imprinted genes using different microarray platforms. BMC Genomics, 7.

Nelson, A. R., Henkin, T. M., & Agris, P. F. (2006). tRNA regulation of gene expression: Interactions of an mRNA 5 '-UTR with a regulatory tRNA. RNA, 12(7), 1254–1261. https://doi.org/10.1261/rna.29906

Azcarate-Peril, M. A., Bruno-Barcena, J. M., Hassan, H. M., & Klaenhammer, T. R. (2006). Transcriptional and functional analysis of oxalyl-coenzyme A (CoA) decarboxylase and formyl-CoA transferase genes from Lactobacillus acidophilus. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 72(3), 1891–1899. https://doi.org/10.1128/AEM.72.3.1891-1899.2006

Sisler, E. C. (2006). [Review of The discovery and development of compounds counteracting ethylene at the receptor level]. BIOTECHNOLOGY ADVANCES, 24(4), 357–367. https://doi.org/10.1016/j.biotechadv.2006.01.002

Feeney, B., Pop, C., Swartz, P., Mattos, C., & Clark, A. C. (2006). Role of loop bundle hydrogen bonds in the maturation and activity of (pro) caspase-3. BIOCHEMISTRY, 45(44), 13249–13263. https://doi.org/10.1021/bi0611964

West, J., & Brown, D. T. (2006). Role of a conserved tripeptide in the endodomain of Sindbis virus glycoprotein E2 in virus assembly and function. JOURNAL OF GENERAL VIROLOGY, 87, 657–664. https://doi.org/10.1099/vir.0.81304-0

Uyar, T., Gracz, H. S., Rusa, M., Shin, I. D., El-Shafei, A., & Tonelli, A. E. (2006). Polymerization of styrene in gamma-cyclodextrin channels: Lightly rotaxanated polystyrenes with altered stereosequences. POLYMER, 47(20), 6948–6955. https://doi.org/10.1016/j.polymer.2006.07.054

Lopez-Ochoa, L., Ramirez-Prado, J., & Hanley-Bowdoin, L. (2006). Peptide aptamers that bind to a geminivirus replication protein interfere with viral replication in plant cells. JOURNAL OF VIROLOGY, 80(12), 5841–5853. https://doi.org/10.1128/JVI.02698-05

Grichko, V. (2006). New volatile and water-soluble ethylene antagonists. RUSSIAN JOURNAL OF PLANT PHYSIOLOGY, 53(4), 523–529. https://doi.org/10.1134/S1021443706040145

Czarny, J. C., Grichko, V. P., & Glick, B. R. (2006). [Review of Genetic modulation of ethylene biosynthesis and signaling in plants]. BIOTECHNOLOGY ADVANCES, 24(4), 410–419. https://doi.org/10.1016/j.biotechadv.2006.01.003

Grichko, V., Serek, M., Watkins, C. B., & Yang, S. F. (2006). Father of 1-MCP - Edward C. Sisler. Biotechnology Advances, Vol. 24, pp. 355–356.

Rodriguez, B. J., Kalinin, S. V., Shin, J., Jesse, S., Grichko, V., Thundat, T., … Gruverman, A. (2006). Electromechanical imaging of biomaterials by scanning probe microscopy. JOURNAL OF STRUCTURAL BIOLOGY, 153(2), 151–159. https://doi.org/10.1016/j.jsb.2005.10.008

Serek, M., Woltering, E. J., Sisler, E. C., Frello, S., & Sriskandarajah, S. (2006). [Review of Controlling ethylene responses in flowers at the receptor level]. BIOTECHNOLOGY ADVANCES, 24(4), 368–381. https://doi.org/10.1016/j.biotechadv.2006.01.007

Bazin, D., Sayers, D., Lynch, J., Guczi, L., Treglia, G., & Mottet, C. (2006). [Review of Combining solid state physics concepts and X-ray absorption Spectroscopy to understand DeNO(x) catalysis]. Oil & Gas Science and Technology, 61(5), 677–689.

Dressman, H. K., Barley-Maloney, L., Rowlette, L. L., Agris, P. F., & Garcia-Blanco, M. A. (2006). Assessing incomplete deprotection of microarray oligonucleotides in situ. Nucleic Acids Research, 34(19).

Jones, C. I., Spencer, A. C., Hsu, J. L., Spremulli, L. L., Martinis, S. A., DeRider, M., & Agris, P. F. (2006). A counterintuitive Mg2+-dependent and modification-assisted functional folding of mitochondrial tRNAs. JOURNAL OF MOLECULAR BIOLOGY, 362(4), 771–786. https://doi.org/10.1016/j.jmb.2006.07.036

Lee, A., Guest, S., & Essick, G. (2006). Thermally evoked parotid salivation. PHYSIOLOGY & BEHAVIOR, 87(4), 757–764. https://doi.org/10.1016/j.physbeh.2006.01.021

Seip, R. L., Otvos, J., Bilbie, C., Tsongalis, G. J., Miles, M., Zoeller, R., … Thompson, P. D. (2006). The effect of apolipoprotein E genotype on serum lipoprotein particle response to exercise. ATHEROSCLEROSIS, 188(1), 126–133. https://doi.org/10.1016/j.atherosclerosis.2005.06.050

Kojetin, D. J., Venters, R. A., Kordys, D. R., Thompson, R. J., Kumar, R., & Cavanagh, J. (2006). Structure, binding interface and hydrophobic transitions of Ca2+-loaded calbindin-D-28K. Nature Structural & Molecular Biology, 13(7), 641–647. https://doi.org/10.1038/nsmb1112d

Mudiganti, U., Hernandez, R., Ferreira, D., & Brown, D. T. (2006). Sindbis virus infection of two model insect cell systems - A comparative study. Virus Research, 122(1-2), 28–34. https://doi.org/10.1016/j.virusres.2006.06.007

Kalinin, S. V., Rodriguez, B. J., Shin, J., Jesse, S., Grichko, V., Thundat, T., … Gruverman, A. (2006). Bioelectromechanical imaging by scanning probe microscopy: Galvani's experiment at the nanoscale. ULTRAMICROSCOPY, 106(4-5), 334–340. https://doi.org/10.1016/j.ultramic.2005.10.005

Gagnon, K. T., Zhang, X. X., Agris, P. F., & Maxwell, E. S. (2006). Assembly of the archaeal box C/D sRNP can occur via alternative pathways and requires temperature-facilitated sRNA remodeling. Journal of Molecular Biology, 362(5), 1025–1042. https://doi.org/10.1016/j.jmb.2006.07.091

Liu, H.-C. S., Soderblom, E. J., & Goshe, M. B. (2006). A mass spectrometry-based proteornic approach to study Marek's Disease Virus gene expression. JOURNAL OF VIROLOGICAL METHODS, 135(1), 66–75. https://doi.org/10.1016/j.jviromet.2006.02.001

Heldt, C. L., Hernandez, R., Mudiganti, U., Gurgel, P. V., Brown, D. T., & Carbonell, R. G. (2006). A  colorimetric assay for viral agents that produce cytopathic effects. Journal of Virological Methods, 135(1), 56–65. https://doi.org/10.1016/j.j.viromet.2006.01.022

Nuclear magnetic resonance-determined lipoprotein subclass profile in the DCCT/EDIC cohort: associations with carotid intima-media thickness. (2006). Diabetic Medicine: A Journal of the British Diabetic Association, 23(9), 955–966.

Bobay, B. G., Mueller, G. A., Thompson, R. J., Murzin, A. G., Venters, R. A., Strauch, M. A., & Cavanagh, J. (2006). NMR structure of AbhN and comparison with AbrBN - First insights into the DNA binding promiscuity and specificity of AbrB-like transition state regulator proteins. JOURNAL OF BIOLOGICAL CHEMISTRY, 281(30), 21399–21409. https://doi.org/10.1074/jbc.M601963200

Tsai, S., Cassady, J. P., Freking, B. A., Nonneman, D. J., Rohrer, G. A., & Piedrahita, J. A. (2006, August). Annotation of the Affymetrix(1) porcine genome microarray. ANIMAL GENETICS, Vol. 37, pp. 423–424. https://doi.org/10.1111/j.1365-2052.2006.01460.x

Szulc, Z. M., Bielawski, J., Gracz, H., Gustilo, M., Mayroo, N., Hannun, Y. A., … Bielawska, A. (2006). Tailoring structure-function and targeting properties of ceramides by site-specific cationization. BIOORGANIC & MEDICINAL CHEMISTRY, 14(21), 7083–7104. https://doi.org/10.1016/j.bmc.2006.07.016

Chen, Y. R., & Clark, A. C. (2006). Substitutions of prolines examine their role in kinetic trap formation of the caspase recruitment domain (CARD) of RICK. PROTEIN SCIENCE, 15(3), 395–409. https://doi.org/10.1110/ps.051943006

Sherman, M. B., Guenther, R. H., Tama, F., Sit, T. L., Brooks, C. L., Mikhailov, A. M., … Lommel, S. A. (2006). Removal of divalent cations induces structural transitions in Red clover necrotic mosaic virus, revealing a potential mechanism for RNA release. JOURNAL OF VIROLOGY, 80(21), 10395–10406. https://doi.org/10.1128/JVI.01137-06

Shen, W., & Huber, S. C. (2006). Polycations globally enhance binding of 14-3-3 omega to target proteins in spinach leaves. PLANT AND CELL PHYSIOLOGY, 47(6), 764–771. https://doi.org/10.1093/pcp/pcj050

Gookin, J. L., Copple, C. N., Papich, M. G., Poore, M. F., Stauffer, S. H., Birkenheuer, A. J., … Levy, M. G. (2006). Efficacy of ronidazole for treatment of feline Tritrichomonas foetus infection. JOURNAL OF VETERINARY INTERNAL MEDICINE, Vol. 20, pp. 536–543. https://doi.org/10.1892/0891-6640(2006)20[536:EORFTO]2.0.CO;2

Connor, D. M., Sayers, D., Sumner, D. R., & Zhong, Z. (2006). Diffraction enhanced imaging of controlled defects within bone, including bone-metal gaps. Physics in Medicine & Biology, 51(12), 3283–3300.

Ruano, G., Seip, R. L., Windemuth, A., Zollner, S., Tsongalis, G. J., Ordovas, J., … Thompson, P. D. (2006). Apolipoprotein A1 genotype affects the change in high density lipoprotein cholesterol subfractions with exercise training. ATHEROSCLEROSIS, 185(1), 65–69. https://doi.org/10.1016/j.atherosclerosis.2005.05.029

Feeney, B., Soderblom, E. J., Goshe, M. B., & Clark, A. C. (2006). Novel protein purification system utilizing an N-terminal fusion protein and a caspase-3 cleavable linker. Protein Expression and Purification, 47(1), 311–318. https://doi.org/10.1016/j.pep.2005.10.005

Uyar, T., Hunt, M. A., Gracz, H. S., & Tonelli, A. E. (2006). Crystalline cyclodextrin inclusion compounds formed with aromatic guests: Guest-dependent stoichiometries and hydration-sensitive crystal structures. CRYSTAL GROWTH & DESIGN, 6(5), 1113–1119. https://doi.org/10.1021/cg050500+

Mattos, C., Bellamacina, C. R., Peisach, E., Pereira, A., Vitkup, D., Petsko, G. A., & Ringe, D. (2006). Multiple solvent crystal structures: Probing binding sites, plasticity and hydration. JOURNAL OF MOLECULAR BIOLOGY, 357(5), 1471–1482. https://doi.org/10.1016/j.jmb.2006.01.039

Loo, L., Guenther, R. H., Basnayake, V. R., Lommel, S. A., & Franzen, S. (2006). Controlled encapsidation of gold nanoparticles by a viral protein shell. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 128(14), 4502–4503. https://doi.org/10.1021/ja057332u

Whitehurst, C. B., Willis, J. H., Sinodis, C. N., Hernandez, R., & Brown, D. T. (2006). Single and multiple deletions in the transmembrane domain of the Sindbis virus E2 glycoprotein identify a region critical for normal virus growth. VIROLOGY, 347(1), 199–207. https://doi.org/10.1016/j.virol.2005.11.029

Sharp, J. S., Nelson, S., Brown, D., & Tomer, K. B. (2006). Structural characterization of the E2 glycoprotein from Sindbis by lysine biotinylation and LC-MS/MS. VIROLOGY, 348(1), 216–223. https://doi.org/10.1016/j.virol.2005.12.020

West, J., Hernandez, R., Ferreira, D., & Brown, D. T. (2006). Mutations in the endodomain of Sindbis virus glycoprotein E2 define sequences critical for virus assembly. JOURNAL OF VIROLOGY, 80(9), 4458–4468. https://doi.org/10.1128/jvi.80.9.4458-4468.2006

Sharp, J. S., Sullivan, D. M., Cavanagh, J., & Tomer, K. B. (2006). Measurement of multisite oxidation kinetics reveals an active site conformational change in Spo0F as a result of protein oxidation. BIOCHEMISTRY, 45(20), 6260–6266. https://doi.org/10.1021/bi060470r