Nucleic Acids Research

Articles:

Antonio Parrado, Gilles Despouy, Radhia Kraïba, Carole Le Pogam, Stéphane Dupas, Maryline Choquette, Macarena Robledo, Jérôme Larghero, Hung Bui, Isabelle Le Gall, Cécile Rochette-Egly, Christine Chomienne, and Rose Ann Padua

Retinoic acid receptor 1 variants, RAR1B and RAR1BC, define a new class of nuclear receptor isoforms
Nucl. Acids Res. 2001 29: 4901-4908; doi:10.1093/nar/29.24.4901 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Olga N. Ozoline, Nobuyuki Fujita, and Akira Ishihama

Mode of DNA–protein interaction between the C-terminal domain of Escherichia coli RNA polymerase subunit and T7D promoter UP element
Nucl. Acids Res. 2001 29: 4909-4919; doi:10.1093/nar/29.24.4909 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Makoto Nagaoka, Yasuhisa Shiraishi, and Yukio Sugiura

Selected base sequence outside the target binding site of zinc finger protein Sp1
Nucl. Acids Res. 2001 29: 4920-4929; doi:10.1093/nar/29.24.4920 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Verl Sriskanda and Stewart Shuman

A second NAD⁺-dependent DNA ligase (LigB) in Escherichia coli
Nucl. Acids Res. 2001 29: 4930-4934; doi:10.1093/nar/29.24.4930 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Aditi Chatterjee and Keshav K. Singh

Uracil-DNA glycosylase-deficient yeast exhibit a mitochondrial mutator phenotype
Nucl. Acids Res. 2001 29: 4935-4940; doi:10.1093/nar/29.24.4935 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Birgit Verbeure, Eveline Lescrinier, Jing Wang, and Piet Herdewijn

RNase H mediated cleavage of RNA by cyclohexene nucleic acid (CeNA)
Nucl. Acids Res. 2001 29: 4941-4947; doi:10.1093/nar/29.24.4941 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Toshimi Mizukoshi, Takashi S. Kodama, Yoshie Fujiwara, Tadahide Furuno, Mamoru Nakanishi, and Shigenori Iwai

Structural study of DNA duplexes containing the (6–4) photoproduct by fluorescence resonance energy transfer
Nucl. Acids Res. 2001 29: 4948-4954; doi:10.1093/nar/29.24.4948 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Waldemar Adam, Markus A. Arnold, Werner M. Nau, Uwe Pischel, and Chantu R. Saha-Möller

Structure-dependent reactivity of oxyfunctionalized acetophenones in the photooxidation of DNA: base oxidation and strand breaks through photolytic radical formation (spin trapping, EPR spectroscopy, transient kinetics) versus photosensitization (electron transfer, hydrogen-atom abstraction)
Nucl. Acids Res. 2001 29: 4955-4962; doi:10.1093/nar/29.24.4955 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Mónica Gutiérrez-Rivas and Luis Menéndez-Arias

A mutation in the primer grip region of HIV-1 reverse transcriptase that confers reduced fidelity of DNA synthesis
Nucl. Acids Res. 2001 29: 4963-4972; doi:10.1093/nar/29.24.4963 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Georg Lipps, Pablo Ibanez, Thomas Stroessenreuther, Katya Hekimian, and Gerhard Krauss

The protein ORF80 from the acidophilic and thermophilic archaeon Sulfolobus islandicus binds highly site-specifically to double-stranded DNA and represents a novel type of basic leucine zipper protein
Nucl. Acids Res. 2001 29: 4973-4982; doi:10.1093/nar/29.24.4973 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Xiuqian Mu, Sheng Zhao, Rashmi Pershad, Tzung-Fu Hsieh, Ann Scarpa, Steven W. Wang, R. Allen White, Phillip D. Beremand, Terry L. Thomas, Lin Gan, and William H. Klein

Gene expression in the developing mouse retina by EST sequencing and microarray analysis
Nucl. Acids Res. 2001 29: 4983-4993; doi:10.1093/nar/29.24.4983 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Harald Braun, Ronald Koop, Alexa Ertmer, Silvina Nacht, and Guntram Suske

Transcription factor Sp3 is regulated by acetylation
Nucl. Acids Res. 2001 29: 4994-5000; doi:10.1093/nar/29.24.4994 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Catelijne A. van Beekvelt, Muriel de Graaff-Vincent, Alex W. Faber, Jan van ’t Riet, Jaap Venema, and Hendrik A. Raué

All three functional domains of the large ribosomal subunit protein L25 are required for both early and late pre-rRNA processing steps in Saccharomyces cerevisiae
Nucl. Acids Res. 2001 29: 5001-5008; doi:10.1093/nar/29.24.5001 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Yoon Ki Kim, Sung Hoon Back, Jungmin Rho, Song Hee Lee, and Sung Key Jang

La autoantigen enhances translation of BiP mRNA
Nucl. Acids Res. 2001 29: 5009-5016; doi:10.1093/nar/29.24.5009 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Jan Wuyts, Yves Van de Peer, and Rupert De Wachter

Distribution of substitution rates and location of insertion sites in the tertiary structure of ribosomal RNA
Nucl. Acids Res. 2001 29: 5017-5028; doi:10.1093/nar/29.24.5017 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Sabina Hudakova, Wolfgang Michalek, Gernot G. Presting, Rogier ten Hoopen, Karla dos Santos, Zuzana Jasencakova, and Ingo Schubert

Sequence organization of barley centromeres
Nucl. Acids Res. 2001 29: 5029-5035; doi:10.1093/nar/29.24.5029 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Bernd Wellenzohn, Wolfgang Flader, Rudolf H. Winger, Andreas Hallbrucker, Erwin Mayer, and Klaus R. Liedl

Exocyclic groups in the minor groove influence the backbone conformation of DNA
Nucl. Acids Res. 2001 29: 5036-5043; doi:10.1093/nar/29.24.5036 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Christopher R. Sclimenti, Bhaskar Thyagarajan, and Michele P. Calos

Directed evolution of a recombinase for improved genomic integration at a native human sequence
Nucl. Acids Res. 2001 29: 5044-5051; doi:10.1093/nar/29.24.5044 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Victor F. Holmes, Kirsten R. Benjamin, Nancy J. Crisona, and Nicholas R. Cozzarelli

Bypass of heterology during strand transfer by Saccharomyces cerevisiae Rad51 protein
Nucl. Acids Res. 2001 29: 5052-5057; doi:10.1093/nar/29.24.5052 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Hai Xu, Günter Ziegelin, Werner Schröder, Joachim Frank, Sylvia Ayora, Juan Carlos Alonso, Erich Lanka, and Wolfram Saenger

Flavones inhibit the hexameric replicative helicase RepA
Nucl. Acids Res. 2001 29: 5058-5066; doi:10.1093/nar/29.24.5058 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Andriy V. Kubarenko, Petr V. Sergiev, Alexey A. Bogdanov, Richard Brimacombe, and Olga A. Dontsova

A protonated base pair participating in rRNA tertiary structural interactions
Nucl. Acids Res. 2001 29: 5067-5070; doi:10.1093/nar/29.24.5067 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Phong Trang, Jarone Lee, Ahmed F. Kilani, Joe Kim, and Fenyong Liu

Effective inhibition of herpes simplex virus 1 gene expression and growth by engineered RNase P ribozyme
Nucl. Acids Res. 2001 29: 5071-5078; doi:10.1093/nar/29.24.5071 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Christina Witwer, Susanne Rauscher, Ivo L. Hofacker, and Peter F. Stadler

Conserved RNA secondary structures in Picornaviridae genomes
Nucl. Acids Res. 2001 29: 5079-5089; doi:10.1093/nar/29.24.5079 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Mikhail A. Podyminogin, Eugeny A. Lukhtanov, and Michael W. Reed

Attachment of benzaldehyde-modified oligodeoxynucleotide probes to semicarbazide-coated glass
Nucl. Acids Res. 2001 29: 5090-5098; doi:10.1093/nar/29.24.5090 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Neerja Kaushik, Tanaji T. Talele, Raymond Monel, Paul Palumbo, and Virendra N. Pandey

Destabilization of tRNA₃^Lys from the primer-binding site of HIV-1 genome by anti-A loop polyamide nucleotide analog
Nucl. Acids Res. 2001 29: 5099-5106; doi:10.1093/nar/29.24.5099 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Robert Schneider, Rudolf Lurz, Gerhild Lüder, Carolin Tolksdorf, Andrew Travers, and Georgi Muskhelishvili

An architectural role of the Escherichia coli chromatin protein FIS in organising DNA
Nucl. Acids Res. 2001 29: 5107-5114; doi:10.1093/nar/29.24.5107 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Fatima D. Jones, Sean P. Ryder, and Scott A. Strobel

An efficient ligation reaction promoted by a Varkud Satellite ribozyme with extended 5'- and 3'-termini
Nucl. Acids Res. 2001 29: 5115-5120; doi:10.1093/nar/29.24.5115 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Ming-Hon Hou, Shwu-Bin Lin, Jeu-Ming P. Yuann, Wei-Chen Lin, Andrew H.-J. Wang, and Lou-sing Kan

Effects of polyamines on the thermal stability and formation kinetics of DNA duplexes with abnormal structure
Nucl. Acids Res. 2001 29: 5121-5128; doi:10.1093/nar/29.24.5121 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Uma Nagaswamy, Xiaolian Gao, Susan A. Martinis, and George E. Fox

NMR structure of a ribosomal RNA hairpin containing a conserved CUCAA pentaloop
Nucl. Acids Res. 2001 29: 5129-5139; doi:10.1093/nar/29.24.5129 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Hirock J. Datta and Peter M. Glazer

Intracellular generation of single-stranded DNA for chromosomal triplex formation and induced recombination
Nucl. Acids Res. 2001 29: 5140-5147; doi:10.1093/nar/29.24.5140 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Joachim M. Weitzel, Christiane Radtke, and Hans J. Seitz

Two thyroid hormone-mediated gene expression patterns in vivo identified by cDNA expression arrays in rat
Nucl. Acids Res. 2001 29: 5148-5155; doi:10.1093/nar/29.24.5148 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Misa Gray and Saul M. Honigberg

Effect of chromosomal locus, GC content and length of homology on PCR-mediated targeted gene replacement in Saccharomyces
Nucl. Acids Res. 2001 29: 5156-5162; doi:10.1093/nar/29.24.5156 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Alexander W. Peterson, Richard J. Heaton, and Rosina M. Georgiadis

The effect of surface probe density on DNA hybridization
Nucl. Acids Res. 2001 29: 5163-5168; doi:10.1093/nar/29.24.5163 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Susanne Schneiker, Mathias Keller, Marcus Dröge, Erich Lanka, Alfred Pühler, and Werner Selbitschka

The genetic organization and evolution of the broad host range mercury resistance plasmid pSB102 isolated from a microbial population residing in the rhizosphere of alfalfa
Nucl. Acids Res. 2001 29: 5169-5181; doi:10.1093/nar/29.24.5169 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

J. Hanus, I. Barvík, K. Ruszová-Chmelová, J. Stepánek, P.-Y. Turpin, J. Bok, I. Rosenberg, and M. Petrová-Endová

-CH₂- lengthening of the internucleotide linkage in the ApA dimer can improve its conformational compatibility with its natural polynucleotide counterpart
Nucl. Acids Res. 2001 29: 5182-5194; doi:10.1093/nar/29.24.5182 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

E. M. Panina, A. A. Mironov, and M. S. Gelfand

Comparative analysis of FUR regulons in gamma-proteobacteria
Nucl. Acids Res. 2001 29: 5195-5206; doi:10.1093/nar/29.24.5195 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Michael Milyavsky, Avishai Mimran, Shai Senderovich, Irit Zurer, Neta Erez, Igor Shats, Naomi Goldfinger, Irun Cohen, and Varda Rotter

Activation of p53 protein by telomeric (TTAGGG)_n repeats
Nucl. Acids Res. 2001 29: 5207-5215; doi:10.1093/nar/29.24.5207 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Mark L. Hayman, Melissa M. Miller, Devin M. Chandler, Christopher C. Goulah, and Laurie K. Read

The trypanosome homolog of human p32 interacts with RBP16 and stimulates its gRNA binding activity
Nucl. Acids Res. 2001 29: 5216-5225; doi:10.1093/nar/29.24.5216 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Marilyn Kozak

Constraints on reinitiation of translation in mammals
Nucl. Acids Res. 2001 29: 5226-5232; doi:10.1093/nar/29.24.5226 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

NAR Methods Online:

A. Kesminiene, Z. Maneliene, J. Vitkute, M. Petrusyte, and A. Janulaitis

FspAI, a unique type II restriction endonuclease that recognizes the octanucleotide sequence 5'-RTGCGCAY-3'
Nucl. Acids Res. 2001 29: e120; doi:10.1093/nar/29.24.e120 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Afshin Ahmadian, Baback Gharizadeh, Deirdre O’Meara, Jacob Odeberg, and Joakim Lundeberg

Genotyping by apyrase-mediated allele-specific extension
Nucl. Acids Res. 2001 29: e121; doi:10.1093/nar/29.24.e121 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Arnon Henn, Jacob Halfon, Itai Kela, Itzhak Orion, and Irit Sagi

Nucleic acid fragmentation on the millisecond timescale using a conventional X-ray rotating anode source: application to protein–DNA footprinting
Nucl. Acids Res. 2001 29: e122; doi:10.1093/nar/29.24.e122 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

Graham J. R. Brock, Tim Hui-Ming Huang, Chuan-Mu Chen, and Keith J. Johnson

A novel technique for the identification of CpG islands exhibiting altered methylation patterns (ICEAMP)
Nucl. Acids Res. 2001 29: e123; doi:10.1093/nar/29.24.e123 [Abstract] [FREE Full Text] [Print PDF] [Request Permissions]  

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