| | Articles SURVEY AND SUMMARY: Tracking EcoKI and DNA fifty years on: a golden story full of surprises Wil A. M. Loenen PMCID: PMC291878 In vitro characterization of a base pairing interaction between the primer binding site and the minimal packaging signal of avian leukosis virus genomic RNA Igor Kanevsky, Natalya Vasilenko, Hélène Dumay-Odelot, and Philippe Fossé PMCID: PMC291877 HMG-D and histone H1 alter the local accessibility of nucleosomal DNA Anan Ragab and Andrew Travers PMCID: PMC291865 Molecular genetic analysis of chloroplast gene promoters dependent on SIG2, a nucleus-encoded sigma factor for the plastid-encoded RNA polymerase, in Arabidopsis thaliana Mitsumasa Hanaoka, Kengo Kanamaru, Hideo Takahashi, and Kan Tanaka PMCID: PMC291874 Visualization and interpretation of protein networks in Mycobacterium tuberculosis based on hierarchical clustering of genome-wide functional linkage maps Michael Strong, Thomas G. Graeber, Morgan Beeby, Matteo Pellegrini, Michael J. Thompson, Todd O. Yeates, and David Eisenberg PMCID: PMC291866 Functional significance of intermediate cleavages in the 3′ETS of the pre-rRNA from Schizosaccharomyces pombe Evgueni Ivakine, Krasimir Spasov, David Frendewey, and Ross N. Nazar PMCID: PMC291872 Molecular model of SARS coronavirus polymerase: implications for biochemical functions and drug design Xiang Xu, Yunqing Liu, Susan Weiss, Eddy Arnold, Stefan G. Sarafianos, and Jianping Ding PMCID: PMC291860 Altered structural fluctuations in duplex RNA versus DNA: a conformational switch involving base pair opening Yongping Pan and Alexander D. MacKerell, Jr PMCID: PMC291876 A novel allele of fission yeast rad11 that causes defects in DNA repair and telomere length regulation Yuuki Ono, Kazunori Tomita, Akira Matsuura, Takuro Nakagawa, Hisao Masukata, Masahiro Uritani, Takashi Ushimaru, and Masaru Ueno PMCID: PMC291861 The base pairing properties of 8-aza-7-deaza-2′-deoxyisoguanosine and 7-halogenated derivatives in oligonucleotide duplexes with parallel and antiparallel chain orientation Frank Seela and Rita Kröschel PMCID: PMC291867 Effects of sequence on repeat expansion during DNA replication Brooke L. Heidenfelder and Michael D. Topal PMCID: PMC291863 Twist2, a novel ADD1/SREBP1c interacting protein, represses the transcriptional activity of ADD1/SREBP1c Yun Sok Lee, Hyoung Ho Lee, Jiyoung Park, Eung Jae Yoo, Carlotta A. Glackin, Young Il Choi, Sung Ho Jeon, Rho Hyun Seong, Sang Dai Park, and Jae Bum Kim PMCID: PMC291873 A new, but old, nucleoside analog: the first synthesis of 1-deaza-2′-deoxyguanosine and its properties as a nucleoside and as oligodeoxynucleotides Naoshi Kojima, Kaori Inoue, Rina Nakajima-Shibata, Shun-ichi Kawahara, and Eiko Ohtsuka PMCID: PMC291881 Using electrostatic potentials to predict DNA-binding sites on DNA-binding proteins Susan Jones, Hugh P. Shanahan, Helen M. Berman, and Janet M. Thornton PMCID: PMC291864 The linker histone homolog Hho1p from Saccharomyces cerevisiae represents a winged helix–turn–helix fold as determined by NMR spectroscopy Katsuki Ono, Osamu Kusano, Sakurako Shimotakahara, Mitsuhiro Shimizu, Toshimasa Yamazaki, and Heisaburo Shindo PMCID: PMC291871 A conserved chloramphenicol binding site at the entrance to the ribosomal peptide exit tunnel Katherine S. Long and Bo T. Porse PMCID: PMC291879 Substitutions at tyrosine 66 of Escherichia coli uracil DNA glycosylase lead to characterization of an efficient enzyme that is recalcitrant to product inhibition Narottam Acharya, Ramappa K. Talawar, K. Saikrishnan, M. Vijayan, and Umesh Varshney PMCID: PMC291862 Repair of a minimal DNA double-strand break by NHEJ requires DNA-PKcs and is controlled by the ATM/ATR checkpoint Christian Kühne, Marie-Louise Tjörnhammar, Sándor Pongor, Lawrence Banks, and András Simoncsits PMCID: PMC291875 The role of DNA dependent protein kinase in synapsis of DNA ends Eric Weterings, Nicole S. Verkaik, Hennie T. Brüggenwirth, Jan H. J. Hoeijmakers, and Dik C. van Gent PMCID: PMC291856 Discovery and characterization of a thermostable bacteriophage RNA ligase homologous to T4 RNA ligase 1 Thorarinn Blondal, Sigridur H. Hjorleifsdottir, Olafur F. Fridjonsson, Arnthor Ævarsson, Sigurlaug Skirnisdottir, Anna Gudny Hermannsdottir, Gudmundur O. Hreggvidsson, Albert Vernon Smith, and Jakob K. Kristjansson PMCID: PMC291858 Residues 190–210 of human topoisomerase I are required for enzyme activity in vivo but not in vitro Morten O. Christensen, Hans U. Barthelmes, Fritz Boege, and Christian Mielke PMCID: PMC291868 Transcription factor ZBP-89 is required for STAT1 constitutive expression Longchuan Bai and Juanita L. Merchant PMCID: PMC291869 Gene structure prediction in syntenic DNA segments Jonathan E. Moore and James A. Lake PMCID: PMC291857 A statistical sampling algorithm for RNA secondary structure prediction Ye Ding and Charles E. Lawrence PMCID: PMC297010 The poly(A) binding protein Hfq protects RNA from RNase E and exoribonucleolytic degradation Marc Folichon, Véronique Arluison, Olivier Pellegrini, Eric Huntzinger, Philippe Régnier, and Eliane Hajnsdorf PMCID: PMC291859 Effect of G-1 on histidine tRNA microhelix conformation Mahadevan Seetharaman, Caroline Williams, Christopher J. Cramer, and Karin Musier-Forsyth PMCID: PMC291870 NAR Methods Online A PCR primer bank for quantitative gene expression analysis Xiaowei Wang and Brian Seed PMCID: PMC291882 A novel MALDI–TOF based methodology for genotyping single nucleotide polymorphisms Thorarinn Blondal, Benedikt G. Waage, Sigurdur V. Smarason, Frosti Jonsson, Sigridur B. Fjalldal, Kari Stefansson, Jeffery Gulcher, and Albert V. Smith PMCID: PMC291883 Erratum Nucleic Acids Res. 2003 December 15; 31(24): 7322. doi: 10.1093/nar/gkg946.PMCID: PMC291880 Corrects: Kazuyuki Takai, et al. SURVEY AND SUMMARY: Roles of 5-substituents of tRNA wobble uridines in the recognition of purine-ending codons. Nucleic Acids Res. 2003 November 15; 31(22): 6383–6391. |
