Molecular and Structural Biochemistry - 2007

Morrow, A. L., Williams, K., Sand, A., Boanca, G., & Barycki, J. J. (2007). Characterization of Helicobacter pyloriγ-Glutamyltranspeptidase Reveals the Molecular Basis for Substrate Specificity and a Critical Role for the Tyrosine 433-Containing Loop in Catalysis†,‡. Biochemistry, 46(46), 13407–13414. https://doi.org/10.1021/bi701599e

Easley, K. E., Sommer, B. J., Boanca, G., Barycki, J. J., & Simpson, M. A. (2007). Characterization of Human UDP-Glucose Dehydrogenase Reveals Critical Catalytic Roles for Lysine 220 and Aspartate 280†. Biochemistry, 46(2), 369–378. https://doi.org/10.1021/bi061537d

Longo, A., Guanga, G. P., & Rose, R. B. (2007). Structural Basis for Induced Fit Mechanisms in DNA Recognition by the Pdx1 Homeodomain†,‡. Biochemistry, 46(11), 2948–2957. https://doi.org/10.1021/bi060969l

Pan, Z., Ghosh, T. K., & Batra, S. K. (2007). Dynamic analysis of unwinding yarn from cylindrical packages, part III: The three-region model revisited. Textile Research Journal, 77.

Kojetin, D. J., McLaughlin, P. D., Thompson, R. J., Venters, R. A., Rance, M., & Cavanagh, J. (2007). NMR assignment of the N-terminal repeat domain of Bacillus subtilis ClpC. BIOMOLECULAR NMR ASSIGNMENTS, 1(2), 163–165. https://doi.org/10.1007/s12104-007-9046-8

Carroll, I. M., Andrus, J. M., Bruno-Barcena, J. M., Klaenhammer, T. R., Hassan, H. M., & Threadgill, D. S. (2007). Anti-inflammatory properties of Lactobacillus gasseri expressing manganese superoxide dismutase using the interleukin 10-deficient mouse model of colitis. AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY, 293(4), G729–G738. https://doi.org/10.1152/ajpgi.00132.2007

Strauch, M. A., Bobay, B. G., Cavanagh, J., Yao, F., Wilson, A., & Le Breton, Y. (2007). Abh and AbrB control of Bacillus subtilis antimicrobial gene expression. JOURNAL OF BACTERIOLOGY, 189(21), 7720–7732. https://doi.org/10.1128/JB.01081-07

Adomas, A., Heller, G., Li, G., Olson, A., Chu, T.-M., Osborne, J., … Asiegbu, F. O. (2007). Trranscript profiling of a conifer pathosystem: response of Pinus sylvestris root tissues to pathogen (Heterobasidion annosum) invasion. TREE PHYSIOLOGY, 27(10), 1441–1458. https://doi.org/10.1093/treephys/27.10.1441

Kordys, D. R., Bobay, B. G., Thompson, R. J., Venters, R. A., & Cavanagh, J. (2007). Peptide binding proclivities of calcium loaded calbindin-D28k. FEBS LETTERS, 581(24), 4778–4782. https://doi.org/10.1016/j.febslet.2007.09.004

Wang, G. B., Hernandez, R., Weninger, K., & Brown, D. T. (2007). Infection of cells by Sindbis virus at low temperature. Virology, 362(2), 461–467. https://doi.org/10.1016/j.virol.2006.12.036

Arguello-Astorga, G., Ascencio-Ibanez, J. T., Dallas, M. B., Orozco, B. M., & Hanley-Bowdoin, L. (2007). High-frequency reversion of geminivirus replication protein mutants during infection. JOURNAL OF VIROLOGY, 81(20), 11005–11015. https://doi.org/10.1128/JVI.00925-07

Huggins, W., Shapkina, T., & Wollenzien, P. (2007). Conformational energy and structure in canonical and noncanonical forms of tRNA determined by temperature analysis of the rate of s(4)U8-C13 photocrosslinking. RNA, 13(11), 2000–2011. https://doi.org/10.1261/rna.656907

Gustilo, E. M., Dubois, D. Y., Lapointe, J., & Agris, P. F. (2007). E-coli glutamyl-tRNA synthetase is inhibited by anticodon stem-loop domains and a minihelix. RNA BIOLOGY, 4(2), 85–92. https://doi.org/10.4161/rna.4.2.4736

Serrano, V., Chen, Z., Davis, M. F., & Franzen, S. (2007). X-ray crystal structural analysis of the binding site in the ferric and oxyferrous forms of the recombinant heme dehaloperoxidase cloned from Amphitrite ornata. ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY, 63, 1094–1101. https://doi.org/10.1107/S0907444907043417

Buhrman, G., Wink, G., & Mattos, C. (2007). Transformation efficiency of RasQ61 mutants linked to structural features of the switch regions in the presence of Raf. STRUCTURE, 15(12), 1618–1629. https://doi.org/10.1016/j.str.2007.10.011

Soderblom, E. J., Bobay, B. G., Cavanagh, J., & Goshe, M. B. (2007). Tandem mass spectrometry acquisition approaches to enhance identification of protein-protein interactions using low-energy collision-induced dissociative chemical crosslinking reagents. RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 21(21), 3395–3408. https://doi.org/10.1002/rcm.3213

Whitehurst, C. B., Soderblom, E. J., West, M. L., Hernandez, R., Goshe, M. B., & Brown, D. T. (2007). Location and role of free cysteinyl residues in the Sindbis virus E1 and E2 glycoproteins. JOURNAL OF VIROLOGY, 81(12), 6231–6240. https://doi.org/10.1128/JVI.02859-06

Gagnon, K., Zhang, X. X., & Maxwell, E. S. (2007). [Review of In vitro reconstitution and affinity purification of catalytically active archaeal box C/D sRNP complexes]. RNA modification, 425, 263–282. https://doi.org/10.1016/s0076-6879(07)25012-8

Milam, S. L., Nicely, N. I., Feeney, B., Mattos, C., & Clark, A. C. (2007). Rapid folding and unfolding of Apaf-1 CARD. JOURNAL OF MOLECULAR BIOLOGY, 369(1), 290–304. https://doi.org/10.1016/j.jmb.2007.02.105

McLaughlin, P. D., Bobaya, B. G., Regel, E. J., Thompson, R. J., Hoch, J. A., & Cavanagh, J. (2007). Predominantly buried residues in the response regulator Spo0F influence specific sensor kinase recognition. FEBS LETTERS, 581(7), 1425–1429. https://doi.org/10.1016/j.febslet.2007.02.061

Shultz, R. W., Tatineni, V. M., Hanley-Bowdoin, L., & Thompson, W. F. (2007). [Review of Genome-wide analysis of the core DNA replication machinery in the higher plants Arabidopsis and rice(1[W][OA])]. Plant Physiology, 144(4), 1697–1714.

Di Costanzo, L., Moulin, M., Haertlein, M., Meilleur, F., & Christianson, D. W. (2007). Expression, purification, assay, and crystal structure of perdeuterated human arginase I. ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS, 465(1), 82–89. https://doi.org/10.1016/j.abb.2007.04.036

Shafiee-Kermani, F., Han, S.-oh, & Miller, W. L. (2007). Chronic gonadotropin-releasing hormone inhibits activin induction of the ovine follicle-stimulating hormone beta-subunit: Involvement of 3 ',5 '-cyclic adenosine monophosphate response element binding protein and nitric oxide synthase type I. ENDOCRINOLOGY, 148(7), 3346–3355. https://doi.org/10.1210/en.2006-1740

Appel, C. D., & Maxwell, E. S. (2007). Structural features of the guide : target RNA duplex required for archaeal box C/D sRNA-guided nucleotide 2 '-O-methylation. RNA, 13(6), 899–911. https://doi.org/10.1261/rna.517307

Longo, A., Guanga, G. P., & Rose, R. (2007). Structural basis for induced fit mechanisms in DNA recognition by the Pdx1 homeodomain. Biochemistry, 46(11), 2948–2957. https://doi.org/10.1021/bi0609691

Eshete, M., Marchbank, M. T., Deutscher, S. L., Sproat, B., Leszczynska, G., Malkiewicz, A., & Agris, P. F. (2007). Specificity of phage display selected peptides for modified anticodon stem and loop domains of tRNA. PROTEIN JOURNAL, 26(1), 61–73. https://doi.org/10.1007/s10930-006-9046-z

Sederoff, R. (2007, April). Regulatory science in forest biotechnology. TREE GENETICS & GENOMES, Vol. 3, pp. 71–74. https://doi.org/10.1007/s11295-006-0081-x

Jordan, C. V., Shen, W., Hanley-Bowdoin, L. K., & Robertson, D. (2007). Geminivirus-induced gene silencing of the tobacco retinoblastoma-related gene results in cell death and altered development. PLANT MOLECULAR BIOLOGY, 65(1-2), 163–175. https://doi.org/10.1007/s11103-007-9206-3

Fink, R. C., Evans, M. R., Porwollik, S., Vazquez-Torres, A., Jones-Carson, J., Troxell, B., … Hassan, H. M. (2007). FNR is a global regulator of virulence and anaerobic metabolism in Salmonella enterica serovar typhimurium (ATCC 14028s). JOURNAL OF BACTERIOLOGY, 189(6), 2262–2273. https://doi.org/10.1128/JB.00726-06

Garrett, P. E., Andreyev, A., Austin, R. A. E., Ball, G. C., Bandyopadhyay, D., Becker, J. A., … Zganjar, E. F. (2007, August). The TRIUMF nuclear structure program and TIGRESS. NUCLEAR INSTRUMENTS & METHODS IN PHYSICS RESEARCH SECTION B-BEAM INTERACTIONS WITH MATERIALS AND ATOMS, Vol. 261, pp. 1084–1088. https://doi.org/10.1016/j.nimb.2007.04.258

Su, P., Shafiee-Kermani, F., Gore, A. J., Jia, J., Wu, J. C., & Miller, W. L. (2007). Expression and regulation of the beta-subunit of ovine follicle-stimulating hormone relies heavily on a promoter sequence likely to bind smad-associated proteins. ENDOCRINOLOGY, 148(9), 4500–4508. https://doi.org/10.1210/en.2006-1635

Mazur, M., Hope-Ross, K., Kadla, J. F., Sederoff, R., & Chang, H.-min. (2007). Synthesis of hydroxyphenylpropanoid beta-D-glucosides. JOURNAL OF WOOD CHEMISTRY AND TECHNOLOGY, 27(1), 1–8. https://doi.org/10.1080/02773810701282264

Mitra, S. K., Gantt, J. A., Ruby, J. F., Clouse, S. D., & Goshe, M. B. (2007). Membrane proteomic analysis of Arabidopsis thaliana using alternative solubilization techniques. JOURNAL OF PROTEOME RESEARCH, 6(5), 1933–1950. https://doi.org/10.1021/pr060525b

Weixlbaumer, A., Murphy, F. V., Dziergowska, A., Malkiewicz, A., Vendeix, F. A. P., Agris, P. F., & Ramakrishnan, V. (2007). Mechanism for expanding the decoding capacity of transfer RNAs by modification of uridines. NATURE STRUCTURAL & MOLECULAR BIOLOGY, 14(6), 498–502. https://doi.org/10.1038/nsmb1242

Ke, C., Humeniuk, M., S-Gracz, H., & Marszalek, P. E. (2007). Direct measurements of base stacking interactions in DNA by single-molecule atomic-force spectroscopy. PHYSICAL REVIEW LETTERS, 99(1). https://doi.org/10.1103/physrevlett.99.018302

Ascencio-Ibanez, J. T., & Settlage, S. B. (2007). DNA abrasion onto plants is an effective method for geminivirus infection and virus-induced gene silencing. JOURNAL OF VIROLOGICAL METHODS, 142(1-2), 198–203. https://doi.org/10.1016/j.jviromet.2007.01.031

Agris, P. F., Vendeix, F. A. P., & Graham, W. D. (2007). [Review of tRNA's wobble decoding of the genome: 40 years of modification]. Journal of Molecular Biology, 366(1), 1–13.

Barley-Maloney, L., & Agris, P. F. (2007). Quality assessment of commercial small interfering RNA and DNA: Monoclonal antibodies and a high-throughput chemiluminescence assay. Analytical Biochemistry, 360(1), 172–174.

Prevo, B. G., Hon, E. W., & Velev, O. D. (2007). Assembly and characterization of colloid-based antireflective coatings on multicrystalline silicon solar cells. JOURNAL OF MATERIALS CHEMISTRY, 17(8), 791–799. https://doi.org/10.1039/b612734g

Hu, B., Pillai-Nair, N., & Hemenway, C. (2007). Long-distance RNA-RNA interactions between terminal elements and the same subset of internal elements on the potato virus X genome mediate minus- and plus-strand RNA synthesis. RNA, 13(2), 267–280. https://doi.org/10.1261/rna.243607