| | This journal provides immediate access to some articles. Perspective A glimpse into the active site of a group II intron and maybe the spliceosome, too Kwaku T. Dayie and Richard A. Padgett PMCID: PMC2525965 Bioinformatics Group II introns in Eubacteria and Archaea: ORF-less introns and new varieties Dawn M. Simon, Nicholas A.C. Clarke, Bonnie A. McNeil, Ian Johnson, Davin Pantuso, Lixin Dai, Dinggeng Chai, and Steven Zimmerly PMCID: PMC2525955 Reports Potent RNAi by short RNA triggers Chia-ying Chu and Tariq M. Rana PMCID: PMC2525957 Firefly luciferase gene contains a cryptic promoter Václav Vopálenský, Tomáš Mašek, Ondřej Horváth, Blanka Vicenová, Martin Mokrejš, and Martin Pospíšek PMCID: PMC2525954 All translation elongation factors and the e, f, and h subunits of translation initiation factor 3 are encoded by 5′-terminal oligopyrimidine (TOP) mRNAs Valentina Iadevaia, Sara Caldarola, Elisa Tino, Francesco Amaldi, and Fabrizio Loreni PMCID: PMC2525946 Articles Human RNA 5′-kinase (hClp1) can function as a tRNA splicing enzyme in vivo Alejandro Ramirez, Stewart Shuman, and Beate Schwer PMCID: PMC2525948 Mechanistic characterization of the HDV genomic ribozyme: The cleavage site base pair plays a structural role in facilitating catalysis Andrea L. Cerrone-Szakal, Durga M. Chadalavada, Barbara L. Golden, and Philip C. Bevilacqua PMCID: PMC2525964 The highest affinity binding site of small protein B on transfer messenger RNA is outside the tRNA domain Laurent Metzinger, Marc Hallier, and Brice Felden PMCID: PMC2525949 On the mechanism of induction of heterochromatin by the RNA-binding protein vigilin Jing Zhou, Qiaoqiao Wang, Ling-Ling Chen, and Gordon G. Carmichael PMCID: PMC2525967 Trans-splicing versatility of the Ll.LtrB group II intron Kamila Belhocine, Anthony B. Mak, and Benoit Cousineau PMCID: PMC2525943 A complex RNA motif defined by three discontinuous 5-nucleotide-long strands is essential for Flavivirus RNA replication Byung-Hak Song, Sang-Im Yun, Yu-Jeong Choi, Jeong-Min Kim, Chan-Hee Lee, and Young-Min Lee PMCID: PMC2525960 DAZAP1, an hnRNP protein, is required for normal growth and spermatogenesis in mice Lea Chia-Ling Hsu, Hsiang-Ying Chen, Yi-Wen Lin, Wei-Chen Chu, Ming-Jyun Lin, Yu-Ting Yan, and Pauline H. Yen PMCID: PMC2525968 Functional and intracellular localization properties of U6 promoter-expressed siRNAs, shRNAs, and chimeric VA1 shRNAs in mammalian cells Nan Sook Lee, Daniel H. Kim, Jessica Alluin, Marjorie Robbins, Shuo Gu, Haitang Li, James Kim, Paul M. Salvaterra, and John J. Rossi PMCID: PMC2525953 Minimizing variables among hairpin-based RNAi vectors reveals the potency of shRNAs Ryan L. Boudreau, Alex Mas Monteys, and Beverly L. Davidson PMCID: PMC2525944 Noncanonical G(syn)–G(anti) base pairs stabilized by sulphate anions in two X-ray structures of the (GUGGUCUGAUGAGGCC) RNA duplex Wojciech Rypniewski, Dorota A. Adamiak, Jan Milecki, and Ryszard W. Adamiak PMCID: PMC2525959 Potent activation of FGF-2 IRES-dependent mechanism of translation during brain development Sylvie Audigier, Janique Guiramand, Leonel Prado-Lourenco, Caroline Conte, Irma Gabriela Gonzalez-Herrera, Catherine Cohen-Solal, Max Récasens, and Anne-Catherine Prats PMCID: PMC2525950 Transcripts synthesized by RNA polymerase III can be polyadenylated in an AAUAAA-dependent manner Olga R. Borodulina and Dmitri A. Kramerov PMCID: PMC2525947 Anticodon loop mutations perturb reading frame maintenance by the E site tRNA Christina L. Sanders, Kristin J. Lohr, Holly L. Gambill, Ryan B. Curran, and James F. Curran PMCID: PMC2525952 A new regulatory circuit in ribosomal protein operons: S2-mediated control of the rpsB-tsf expression in vivo Leonid V. Aseev, Alexandrina A. Levandovskaya, Ludmila S. Tchufistova, Nadezda V. Scaptsova, and Irina V. Boni PMCID: PMC2525966 Partial activity is seen with many substitutions of highly conserved active site residues in human Pseudouridine synthase 1 Bryan S. Sibert, Nathan Fischel-Ghodsian, and Jeffrey R. Patton PMCID: PMC2525951 The rpoS mRNA leader recruits Hfq to facilitate annealing with DsrA sRNA Toby J. Soper and Sarah A. Woodson PMCID: PMC2525945 The role of human ribosomal proteins in the maturation of rRNA and ribosome production Sara Robledo, Rachel A. Idol, Dan L. Crimmins, Jack H. Ladenson, Philip J. Mason, and Monica Bessler PMCID: PMC2525958 Sequence-specific binding of a chloroplast pentatricopeptide repeat protein to its native group II intron ligand Rosalind Williams-Carrier, Tiffany Kroeger, and Alice Barkan PMCID: PMC2525963 The ionic environment determines ribozyme cleavage rate by modulation of nucleobase pK
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M. Duane Smith, Reza Mehdizadeh, Joan E. Olive, and Richard A. Collins PMCID: PMC2525962 Upf1 potentially serves as a RING-related E3 ubiquitin ligase via its association with Upf3 in yeast Shinya Takahashi, Yasuhiro Araki, Yuriko Ohya, Takeshi Sakuno, Shin-Ichi Hoshino, Kenji Kontani, Hiroshi Nishina, and Toshiaki Katada PMCID: PMC2525956 Method High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay Lars Dölken, Zsolt Ruzsics, Bernd Rädle, Caroline C. Friedel, Ralf Zimmer, Jörg Mages, Reinhard Hoffmann, Paul Dickinson, Thorsten Forster, Peter Ghazal, and Ulrich H. Koszinowski PMCID: PMC2525961 |
