| | Survey and Summary Structural and mechanistic conservation in DNA ligases Aidan J. Doherty and Se Won Suh PMCID: PMC113121 Articles HIV-1 LTR as a target for synthetic ribozyme-mediated inhibition of gene expression: site selection and inhibition in cell culture Birgit Bramlage, Ettore Luzi, and Fritz Eckstein PMCID: PMC113160 Biochemical characterisation of cap–poly(A) synergy in rabbit reticulocyte lysates: the eIF4G–PABP interaction increases the functional affinity of eIF4E for the capped mRNA 5′-end Andrew M. Borman, Yanne M. Michel, and Katherine M. Kean PMCID: PMC113128 DNA binding properties of the Arabidopsis floral development protein AINTEGUMENTA Staci Nole-Wilson and Beth A. Krizek PMCID: PMC113152 Poly(dA·dT) sequences exist as rigid DNA structures in nucleosome-free yeast promoters in vivo Bernhard Suter, Georg Schnappauf, and Fritz Thoma PMCID: PMC113125 The yeast CDP1 gene encodes a triple-helical DNA-binding protein Marco Musso, Giovanna Bianchi-Scarrà, and Michael W. Van Dyke PMCID: PMC113150 Purification and cloning of cytotoxic ribonucleases from Rana catesbeiana (bullfrog) You-Di Liao, Huey-Chung Huang, Yin-Jen Leu, Chyou-Wei Wei, Pin-Chi Tang, and Sui-Chi Wang PMCID: PMC113159 A family of developmentally excised DNA elements in Tetrahymena is under selective pressure to maintain an open reading frame encoding an integrase-like protein Jill A. Gershan and Kathleen M. Karrer PMCID: PMC113129 Secondary structure prediction and in vitro accessibility of mRNA as tools in the selection of target sites for ribozymes Mohammed Amarzguioui, Gaute Brede, Eshrat Babaie, Morten Grøtli, Brian Sproat, and Hans Prydz PMCID: PMC113158 Conformation of oligodeoxynucleotides associated with anionic liposomes Siddhesh D. Patil and David G. Rhodes PMCID: PMC113130 Stabilization of the U5-leader stem in the HIV-1 RNA genome affects initiation and elongation of reverse transcription Nancy Beerens, Fedde Groot, and Ben Berkhout PMCID: PMC113157 Error-free and error-prone lesion bypass by human DNA polymerase κ in vitro Yanbin Zhang, Fenghua Yuan, Xiaohua Wu, Mu Wang, Olga Rechkoblit, John-Stephen Taylor, Nicholas E. Geacintov, and Zhigang Wang PMCID: PMC113145 Human DNA polymerase κ synthesizes DNA with extraordinarily low fidelity Yanbin Zhang, Fenghua Yuan, Hua Xin, Xiaohua Wu, Deepak K. Rajpal, Danzhou Yang, and Zhigang Wang PMCID: PMC113146 5-Methylcytosine DNA glycosylase activity is also present in the human MBD4 (G/T mismatch glycosylase) and in a related avian sequence Bing Zhu, Yong Zheng, Herbert Angliker, Steffen Schwarz, Stéphane Thiry, Michel Siegmann, and Jean-Pierre Jost PMCID: PMC113156 An imperfect inverted repeat is critical for DNA binding of the response regulator RegR of Bradyrhizobium japonicum Ralf Emmerich, Philipp Strehler, Hauke Hennecke, and Hans-Martin Fischer PMCID: PMC113139 Functional consequences of Rett syndrome mutations on human MeCP2 Timur M. Yusufzai and Alan P. Wolffe PMCID: PMC113135 Proteolysis of the human DNA polymerase ![[var epsilon]](corehtml/pmc/pmcents/epsiv.gif) catalytic subunit by caspase-3 and calpain specifically during apoptosis Wei Liu and Stuart Linn PMCID: PMC113151 Analysis of Groucho–histone interactions suggests mechanistic similarities between Groucho- and Tup1-mediated repression Rubén D. Flores-Saaib and Albert J. Courey PMCID: PMC113153 Quantitative studies of Mn2+-promoted specific and non-specific cleavages of a large RNA: Mn2+-GAAA ribozymes and the evolution of small ribozymes Tai-Chih Kuo and David L. Herrin PMCID: PMC113148 Pre-steady state kinetics of bacteriophage T4 Dam DNA-[N6-adenine] methyltransferase: interaction with native (GATC) or modified sites Ernst G. Malygin, William M. Lindstrom, Jr, Samuel L. Schlagman, Stanley Hattman, and Norbert O. Reich PMCID: PMC113137 A novel cytoplasmic GTPase XAB1 interacts with DNA repair protein XPA Masahiko Nitta, Masafumi Saijo, Naohiko Kodo, Toshiro Matsuda, Yoshimichi Nakatsu, Hiroshi Tamai, and Kiyoji Tanaka PMCID: PMC113144 Cloning of an interferon regulatory factor 2 isoform with different regulatory ability Sven A. Koenig Merediz, Manuel Schmidt, Georg J. Hoppe, Jens Alfken, David Meraro, Ben-Zion Levi, Andreas Neubauer, and Burghardt Wittig PMCID: PMC113119 Enhanced delivery of antisense oligonucleotides with fluorophore-conjugated PAMAM dendrimers Hoon Yoo and R. L. Juliano PMCID: PMC113155 Hyper-resistance of meiotic cells to radiation due to a strong expression of a single recA-like gene in Caenorhabditis elegans Takako Takanami, Akiyuki Mori, Hideyuki Takahashi, and Atsushi Higashitani PMCID: PMC113154 Formation of cis-diamminedichloroplatinum(II) 1,2-intrastrand cross-links on DNA is flanking-sequence independent Judith N. Burstyn, Wendy J. Heiger-Bernays, Seth M. Cohen, and Stephen J. Lippard PMCID: PMC113142 A novel form of intercalation involving four DNA duplexes in an acridine-4-carboxamide complex of d(CGTACG)2 Adrienne Adams, J. Mitchell Guss, Charles A. Collyer, William A. Denny, and Laurence P. G. Wakelin PMCID: PMC113118 Synthesis and monitored selection of 5′-nucleobase-capped oligodeoxyribonucleotides Andriy A. Mokhir and Clemens Richert PMCID: PMC113132 In vitro selection of an RNA sequence that interacts with high affinity with thymidylate synthase Xiukun Lin, Nobuyuki Mizunuma, Tian-men Chen, Sitki M. Copur, Gladys F. Maley, Jun Liu, Frank Maley, and Edward Chu PMCID: PMC113123 Molecular characterisation of RecQ homologues in Arabidopsis thaliana Frank Hartung, Helena Plchová, and Holger Puchta PMCID: PMC113147 Blocking transcription of the human rhodopsin gene by triplex-mediated DNA photocrosslinking Zsofia Intody, Brian D. Perkins, John H. Wilson, and Theodore G. Wensel PMCID: PMC113126 The transcriptional co-activator P/CAF potentiates TGF-β/Smad signaling Susumu Itoh, Johan Ericsson, Jun-ichi Nishikawa, Carl-Henrik Heldin, and Peter ten Dijke PMCID: PMC113149 Archaeal RNA polymerase subunits F and P are bona fide homologs of eukaryotic RPB4 and RPB12 Finn Werner, Jyrki J. Eloranta, and Robert O. J. Weinzierl PMCID: PMC113124 Characterization of the interaction between αCP2 and the 3′-untranslated region of collagen α1(I) mRNA Jeffrey N. Lindquist, Stefan G. Kauschke, Branko Stefanovic, Elmar R. Burchardt, and David A. Brenner PMCID: PMC113122 Complete genome sequence of the alkaliphilic bacterium Bacillus halodurans and genomic sequence comparison with Bacillus subtilis Hideto Takami, Kaoru Nakasone, Yoshihiro Takaki, Go Maeno, Rumie Sasaki, Noriaki Masui, Fumie Fuji, Chie Hirama, Yuka Nakamura, Naotake Ogasawara, Satoru Kuhara, and Koki Horikoshi PMCID: PMC113120 The DNA strand of chimeric RNA/DNA oligonucleotides can direct gene repair/conversion activity in mammalian and plant cell-free extracts Howard B. Gamper, Hetal Parekh, Michael C. Rice, Michael Bruner, Heather Youkey, and Eric B. Kmiec PMCID: PMC113138 Mutant alleles of Schizosaccharomyces pombe rad9+ alter hydroxyurea resistance, radioresistance and checkpoint control Haiying Hang, Sarah J. Rauth, Kevin M. Hopkins, and Howard B. Lieberman PMCID: PMC113140 The age-related accumulation of a mitochondrial DNA control region mutation in muscle, but not brain, detected by a sensitive PNA-directed PCR clamping based method D. G. Murdock, N. C. Christacos, and D. C. Wallace PMCID: PMC113143 B-form to A-form conversion by a 3′-terminal ribose: crystal structure of the chimera d(CCACTAGTG)r(G) Markus C. Wahl and Muttaiya Sundaralingam PMCID: PMC113134 Analysis of canonical and non-canonical splice sites in mammalian genomes M. Burset, I. A. Seledtsov, and V. V. Solovyev PMCID: PMC113136 Synthesis and crystal structure of an octamer RNA r(guguuuac)/r(guaggcac) with G·G/U·U tandem wobble base pairs: comparison with other tandem G·U pairs Junpeng Deng and Muttaiya Sundaralingam PMCID: PMC113127 Two novel dATP analogs for DNA photoaffinity labeling Martin Zofall and Blaine Bartholomew PMCID: PMC113131 The Thy Pol-2 intein of Thermococcus hydrothermalis is an isoschizomer of PI-TliI and PI-TfuII endonucleases Isabelle Saves, Heïdy Eleaume, Jacques Dietrich, and Jean-Michel Masson PMCID: PMC113141 RecA-independent ectopic transposition in vivo of a bacterial group II intron Francisco Martínez-Abarca and Nicolás Toro PMCID: PMC113133 NAR Methods Online Cre-mediated germline mosaicism: a method allowing rapid generation of several alleles of a target gene Martin Holzenberger, Claudia Lenzner, Patricia Leneuve, Randa Zaoui, Ghislaine Hamard, Sophie Vaulont, and Yves Le Bouc PMCID: PMC113161 Interactions of Escherichia coli RNA with bacteriophage MS2 coat protein: genomic SELEX Timur Shtatland, Stanley C. Gill, Brenda E. Javornik, Hans E. Johansson, Britta S. Singer, Olke C. Uhlenbeck, Dominic A. Zichi, and Larry Gold PMCID: PMC113162 PCR hot start using primers with the structure of molecular beacons (hairpin-like structure) O. K. Kaboev, L. A. Luchkina, A. N. Tret’iakov, and A. R. Bahrmand PMCID: PMC113163 Efficient gene targeted random mutagenesis in genetically stable Escherichia coli strains Céline Fabret, Sandrine Poncet, Steffen Danielsen, Torben V. Borchert, S. Dusko Ehrlich, and Laurent Jannière PMCID: PMC113164 |
