| | Survey and Summary How do site-specific DNA-binding proteins find their targets? Stephen E. Halford and John F. Marko PMCID: PMC434431 Articles Nucleic Acids Res. 2004; 32(10): 2975–2976. Published online 2004 June 2. doi: 10.1093/nar/gkh647.PMCID: PMC434451 DnaG interacts with a linker region that joins the N- and C-domains of DnaB and induces the formation of 3-fold symmetric rings Jenny Thirlway, Ian J. Turner, Christopher T. Gibson, Laurence Gardiner, Kevin Brady, Stephanie Allen, Clive J. Roberts, and Panos Soultanas PMCID: PMC434434 3′-Box-dependent processing of human pre-U1 snRNA requires a combination of RNA and protein co-factors Patricia Uguen and Shona Murphy PMCID: PMC434428 The highly conserved region of the co-repressor Sin3A functionally interacts with the co-repressor Alien Udo Moehren, Uwe Dressel, Christina A. Reeb, Sami Väisänen, Thomas W. Dunlop, Carsten Carlberg, and Aria Baniahmad PMCID: PMC434429 The C-terminal zinc finger of the catalytic subunit of DNA polymerase δ is responsible for direct interaction with the B-subunit Javier Sanchez Garcia, Leonora F. Ciufo, Xiaowen Yang, Stephen E. Kearsey, and Stuart A. MacNeill PMCID: PMC434430 Definitions and analysis of DNA Holliday junction geometry Jeffrey Watson, Franklin A. Hays, and P. Shing Ho PMCID: PMC434437 Interaction of Escherichia coli DbpA with 23S rRNA in different functional states of the enzyme Fedor V. Karginov and Olke C. Uhlenbeck PMCID: PMC434445 Acetylation of the human DNA glycosylase NEIL2 and inhibition of its activity Kishor K. Bhakat, Tapas K. Hazra, and Sankar Mitra PMCID: PMC434438 Twinkle and POLG defects enhance age-dependent accumulation of mutations in the control region of mtDNA Sjoerd Wanrooij, Petri Luoma, Gert van Goethem, Christine van Broeckhoven, Anu Suomalainen, and Johannes N. Spelbrink PMCID: PMC434440 Inhibition of human breast carcinoma proliferation, migration, chemoinvasion and solid tumour growth by DNAzymes targeting the zinc finger transcription factor EGR-1 Ainslie Mitchell, Crispin R. Dass, Lun-Quan Sun, and Levon M. Khachigian PMCID: PMC434432 The Drosophila Bruno paralogue Bru-3 specifically binds the EDEN translational repression element Jérôme Delaunay, Gwenn Le Mée, Nader Ezzeddine, Gilles Labesse, Christophe Terzian, Michèle Capri, and Ounissa Aït-Ahmed PMCID: PMC434433 NMR solution structure of a parallel LNA quadruplex Antonio Randazzo, Veronica Esposito, Oliver Ohlenschläger, Ramadurai Ramachandran, and Luciano Mayol PMCID: PMC434435 Sequence-specific Rho–RNA interactions in transcription termination James E. Graham PMCID: PMC434436 LNA/DNA chimeric oligomers mimic RNA aptamers targeted to the TAR RNA element of HIV-1 Fabien Darfeuille, Jens Bo Hansen, Henrik Orum, Carmelo Di Primo, and Jean-Jacques Toulmé PMCID: PMC434442 Genome-wide identification of genes likely to be involved in human genetic disease Núria López-Bigas and Christos A. Ouzounis PMCID: PMC434425 Demonstration of a universal surface DNA computer Xingping Su and Lloyd M. Smith PMCID: PMC434441 PeerGAD: a peer-review-based and community-centric web application for viewing and annotating prokaryotic genome sequences Mark D. D’Ascenzo, Alan Collmer, and Gregory B. Martin PMCID: PMC434426 Recognition of DNA by ω protein from the broad-host range Streptococcus pyogenes plasmid pSM19035: analysis of binding to operator DNA with one to four heptad repeats Ana B. de la Hoz, Florencia Pratto, Rolf Misselwitz, Christian Speck, Wilhelm Weihofen, Karin Welfle, Wolfram Saenger, Heinz Welfle, and Juan C. Alonso PMCID: PMC434439 KpnI restriction endonuclease and methyltransferase exhibit contrasting mode of sequence recognition Siddamadappa Chandrashekaran, U. H. Manjunatha, and Valakunja Nagaraja PMCID: PMC434444 Analysis of the LAGLIDADG interface of the monomeric homing endonuclease I-DmoI George H. Silva and Marlene Belfort PMCID: PMC434427 Altered DNA binding specificity of Arnt by selection of partner bHLH–PAS proteins Koshi Kinoshita, Yasuo Kikuchi, Yukie Sasakura, Masashi Suzuki, Yoshiaki Fujii-Kuriyama, and Kazuhiro Sogawa PMCID: PMC434443 Direct interaction of NRSF with TBP: chromatin reorganization and core promoter repression for neuron-specific gene transcription Kiyohito Murai, Yoshihisa Naruse, Yosef Shaul, Yasutoshi Agata, and Nozomu Mori PMCID: PMC434424 Structure-specific DNA binding and bipolar helicase activities of PcrA Syam P. Anand and Saleem A. Khan PMCID: PMC434446 MUTYH prevents OGG1 or APEX1 from inappropriately processing its substrate or reaction product with its C-terminal domain Yohei Tominaga, Yasuhiro Ushijima, Daisuke Tsuchimoto, Masaki Mishima, Masahiro Shirakawa, Seiki Hirano, Kunihiko Sakumi, and Yusaku Nakabeppu PMCID: PMC434447 Sensing complex regulatory networks by conformationally controlled hairpin ribozymes S. Hani Najafi-Shoushtari, Günter Mayer, and Michael Famulok PMCID: PMC434448 Thiostrepton-resistant mutants of Thermus thermophilus Dale M. Cameron, Jill Thompson, Steven T. Gregory, Paul E. March, and Albert E. Dahlberg PMCID: PMC434449 Global structure of a DNA three-way junction by solution NMR: towards prediction of 3H fold Bin Wu, Frederic Girard, Bernd van Buuren, Jürgen Schleucher, Marco Tessari, and Sybren Wijmenga PMCID: PMC434450 Endonuclease III and endonuclease VIII conditionally targeted into mitochondria enhance mitochondrial DNA repair and cell survival following oxidative stress Lyudmila I. Rachek, Valentina I. Grishko, Mikhail F. Alexeyev, Viktoriya V. Pastukh, Susan P. LeDoux, and Glenn L. Wilson PMCID: PMC434452 A Rad50-dependent pathway of DNA repair is deficient in Fanconi anemia fibroblasts Sarah L. Donahue and Colin Campbell PMCID: PMC434453 RNAProfile: an algorithm for finding conserved secondary structure motifs in unaligned RNA sequences Giulio Pavesi, Giancarlo Mauri, Marco Stefani, and Graziano Pesole PMCID: PMC434454 NAR Methods Online High-throughput polyribosome fractionation Yipeng Wang, Steven Ringquist, Ann H. Cho, Gaelle Rondeau, and John Welsh PMCID: PMC434456 Construction of oligonucleotide arrays on a glass surface using a heterobifunctional reagent, N-(2-trifluoroethanesulfonatoethyl)-N-(methyl)-triethoxysilylpropyl-3-amine (NTMTA) P. Kumar, Jyoti Choithani, and K. C. Gupta PMCID: PMC434455 Genomic DNA as a cohybridization standard for mammalian microarray measurements Brian A. Williams, Richele M. Gwirtz, and Barbara J. Wold PMCID: PMC434457 The recognition and modification sites for the bacterial type I restriction systems KpnAI, StySEAI, StySENI and StySGI Julie K. A. Kasarjian, Masumi Hidaka, Takashi Horiuchi, Masatake Iida, and Junichi Ryu PMCID: PMC434458 A high-throughput assay for Tn5 Tnp-induced DNA cleavage Brandon Ason and William S. Reznikoff PMCID: PMC434459 Rapid preparation of RNA samples for NMR spectroscopy and X-ray crystallography Hae-Kap Cheong, Eunha Hwang, Chulhyun Lee, Byong-Seok Choi, and Chaejoon Cheong PMCID: PMC434460 Inducible suppression of Fgfr2 and Survivin in ES cells using a combination of the RNA interference (RNAi) and the Cre–LoxP system Xavier Coumoul, Wenmei Li, Rui-Hong Wang, and Chuxia Deng PMCID: PMC434461 |
