An error-prone family Y DNA polymerase (DinB homolog from Sulfolobus solfataricus) uses a 'steric gate' residue for discrimination against ribonucleotides.

abstract：:The Bovine Genome Database (BGD) (http://bovinegenome.org) has been the key community bovine genomics database for more than a decade. To accommodate the increasing amount and complexity of bovine genomics data, BGD continues to advance its practices in data acquisition, curation, integration and efficient data retrie...

journal_title：Nucleic acids research

authors： Shamimuzzaman M,Le Tourneau JJ,Unni DR,Diesh CM,Triant DA,Walsh AT,Tayal A,Conant GC,Hagen DE,Elsik CG

更新日期：2020-01-08 00:00:00

abstract：:Many, if not all, mRNAs in T.brucei start with the same sequence of 35 nucleotides, separately encoded in clustered so-called mini-exon repeats. From these mini-exon repeats a 141-nt precursor RNA with the 35-nt sequence at its 5' end is transcribed. Indirect evidence suggests that this RNA is linked in a second step ...

journal_title：Nucleic acids research

authors： Kooter JM,Borst P

更新日期：1984-12-21 00:00:00

abstract：:Strand Displacement Amplification (SDA) is an isothermal, in vitro method of amplifying a DNA target sequence prior to detection [Walker et al (1992) Nucleic Acids Res., 20, 1691-1693]. Here we describe a multiplex form of SDA that allows two target sequences and an internal amplification control to be co-amplified by...

journal_title：Nucleic acids research

authors： Walker GT,Nadeau JG,Spears PA,Schram JL,Nycz CM,Shank DD

更新日期：1994-07-11 00:00:00

abstract：:Identification of components essential to chromosome structure and behaviour remains a vibrant area of study. We have previously shown that invadolysin is essential in Drosophila, with roles in cell division and cell migration. Mitotic chromosomes are hypercondensed in length, but display an aberrant fuzzy appearance....

journal_title：Nucleic acids research

authors： Rao SG,Janiszewski MM,Duca E,Nelson B,Abhinav K,Panagakou I,Vass S,Heck MM

更新日期：2015-04-20 00:00:00

abstract：:DNA synthesis is a fundamental requirement for cell proliferation and DNA repair, but no single method can identify the location, direction and speed of replication forks with high resolution. Mammalian cells have the ability to incorporate thymidine analogs along with the natural A, T, G and C bases during DNA synthe...

journal_title：Nucleic acids research

authors： Georgieva D,Liu Q,Wang K,Egli D

更新日期：2020-09-04 00:00:00

abstract：:Improving the accuracy of prediction of gene starts is one of a few remaining open problems in computer prediction of prokaryotic genes. Its difficulty is caused by the absence of relatively strong sequence patterns identifying true translation initiation sites. In the current paper we show that the accuracy of gene s...

journal_title：Nucleic acids research

authors： Besemer J,Lomsadze A,Borodovsky M

更新日期：2001-06-15 00:00:00

abstract：:We examined the mechanism regulating the cellular levels of PNKP, the major kinase/phosphatase involved in the repair of oxidative DNA damage, and find that it is controlled by ATM phosphorylation and ubiquitylation-dependent proteasomal degradation. We discovered that ATM-dependent phosphorylation of PNKP at serines ...

journal_title：Nucleic acids research

authors： Parsons JL,Khoronenkova SV,Dianova II,Ternette N,Kessler BM,Datta PK,Dianov GL

更新日期：2012-12-01 00:00:00

abstract：:Fluorogenic RNAs that are based on the complex formed by 3,5-difluoro-4-hydroxybenzylidene imidazolinone (DFHBI) derivatives and the RNA aptamer named Spinach were used to engineer a new generation of in vitro and in vivo sensors for bioanalytics. With the resolved crystal structure of the RNA/small molecule complex, ...

journal_title：Nucleic acids research

authors： Ketterer S,Fuchs D,Weber W,Meier M

更新日期：2015-10-30 00:00:00

abstract：:Yeast tRNA Val 1 alkylation with 2', 3'-O-4-(N-2-chloroethyl-N-methylamino) benzylidene d(pC-G)-A proceeds at 20 degrees - 30 degrees C in the complementary complexes which are formed by d(pC-G)-A greater than RC1 binding to 3 sequences of tRNA Val 1 : psi-C-G58 in the T loop, C-G40 at the 3'-side of the anticodon loo...

journal_title：Nucleic acids research

authors： Grineva NI,Karpova GG,Kuznetsova LM,Venkstern TV,Bayev AA

更新日期：1977-01-01 00:00:00

abstract：:The Drosophila mophogenetic protein Bicoid (Bcd) can activate transcription in a concentration-dependent manner in embryos. It contains a self-inhibitory domain that can interact with the co-repressor Sin3A. In this report, we study a Bcd mutant, Bcd(A57-61), which has a strengthened self-inhibitory function and is un...

journal_title：Nucleic acids research

authors： Fu D,Ma J

更新日期：2005-07-19 00:00:00

abstract：:Transcriptionally non-co-linear (NCL) transcripts can originate from trans-splicing (trans-spliced RNA; 'tsRNA') or cis-backsplicing (circular RNA; 'circRNA'). While numerous circRNAs have been detected in various species, tsRNAs remain largely uninvestigated. Here, we utilize integrative transcriptome sequencing of p...

journal_title：Nucleic acids research

authors： Chuang TJ,Chen YJ,Chen CY,Mai TL,Wang YD,Yeh CS,Yang MY,Hsiao YT,Chang TH,Kuo TC,Cho HH,Shen CN,Kuo HC,Lu MY,Chen YH,Hsieh SC,Chiang TW

更新日期：2018-04-20 00:00:00

abstract：:Previous studies have established a critical role of both TFIIB and RNA polymerase II (RNAPII) in start site selection in the yeast Saccharomyces cerevisiae. However, it remains unclear how the TFIIB-RNAPII interaction impacts on this process since such an interaction can potentially influence both preinitiation compl...

journal_title：Nucleic acids research

authors： Zhang DY,Carson DJ,Ma J

更新日期：2002-07-15 00:00:00

abstract：:Translation initiation in eukaryotes is mediated by assembly of the eIF4F complex over the m(7)GTP cap structure at the 5'-end of mRNAs. This requires an interaction between eIF4E and eIF4G, two eIF4F subunits. The Leishmania orthologs of eIF4E are structurally diverged from their higher eukaryote counterparts, since ...

journal_title：Nucleic acids research

authors： Yoffe Y,Léger M,Zinoviev A,Zuberek J,Darzynkiewicz E,Wagner G,Shapira M

更新日期：2009-06-01 00:00:00

abstract：:At either end of the nopaline Ti-plasmid T-region resides a copy of a 25 bp repeated element. The normal T-DNA endpoint is 1 bp internal of the right copy, with the transcription initiation site of the nopaline synthase (nos) gene being approximately 300 bp away in the same direction. Here we describe results which de...

journal_title：Nucleic acids research

authors： Shaw CH,Watson MD,Carter GH,Shaw CH

更新日期：1984-08-10 00:00:00

abstract：:PDB-REPRDB is a database of representative protein chains from the Protein Data Bank (PDB). Started at the Real World Computing Partnership (RWCP) in August 1997, it developed to the present system of PDB-REPRDB. In April 2001, the system was moved to the Computational Biology Research Center (CBRC), National Institut...

journal_title：Nucleic acids research

authors： Noguchi T,Akiyama Y

更新日期：2003-01-01 00:00:00

abstract：:Key components of the translational apparatus, i.e. ribosomes, elongation factor EF-Tu and most aminoacyl-tRNA synthetases, are stereoselective and prevent incorporation of d-amino acids (d-aa) into polypeptides. The rare appearance of d-aa in natural polypeptides arises from post-translational modifications or non-ri...

journal_title：Nucleic acids research

authors： Achenbach J,Jahnz M,Bethge L,Paal K,Jung M,Schuster M,Albrecht R,Jarosch F,Nierhaus KH,Klussmann S

更新日期：2015-07-13 00:00:00

abstract：:Restriction-free cloning (RF-cloning) is a PCR-based technology that expands on the QuikChange™ mutagenesis process originally popularized by Stratagene in the mid-1990s, and allows the insertion of essentially any sequence into any plasmid at any location. While RF-cloning is a powerful tool for the design of custom ...

journal_title：Nucleic acids research

authors： Bond SR,Naus CC

更新日期：2012-07-01 00:00:00

abstract：:The identification and characterization of binding sites of DNA-binding molecules, including transcription factors (TFs), is a critical problem at the interface of chemistry, biology and molecular medicine. The Cognate Site Identification (CSI) array is a high-throughput microarray platform for measuring comprehensive...

journal_title：Nucleic acids research

authors： Keleş S,Warren CL,Carlson CD,Ansari AZ

更新日期：2008-06-01 00:00:00

abstract：:ATF4 is a pro-oncogenic transcription factor whose translation is activated by eIF2 phosphorylation through delayed re-initiation involving two uORFs in the mRNA leader. However, in yeast, the effect of eIF2 phosphorylation can be mimicked by eIF5 overexpression, which turns eIF5 into translational inhibitor, thereby ...

journal_title：Nucleic acids research

authors： Kozel C,Thompson B,Hustak S,Moore C,Nakashima A,Singh CR,Reid M,Cox C,Papadopoulos E,Luna RE,Anderson A,Tagami H,Hiraishi H,Slone EA,Yoshino KI,Asano M,Gillaspie S,Nietfeld J,Perchellet JP,Rothenburg S,Masai H,W

更新日期：2016-10-14 00:00:00

abstract：:Phenotype analysis is commonly recognized to be of great importance for gaining insight into genetic interaction underlying inherited diseases. However, few computational contributions have been proposed for this purpose, mainly owing to lack of controlled clinical information easily accessible and structured for comp...

journal_title：Nucleic acids research

authors： Masseroli M,Galati O,Pinciroli F

更新日期：2005-07-01 00:00:00

abstract：:Mismatch uracil DNA glycosylase (Mug) from Escherichia coli is an initiating enzyme in the base-excision repair pathway. As with other DNA glycosylases, the abasic product is potentially more harmful than the initial lesion. Since Mug is known to bind its product tightly, inhibiting enzyme turnover, understanding how ...

journal_title：Nucleic acids research

authors： Grippon S,Zhao Q,Robinson T,Marshall JJ,O'Neill RJ,Manning H,Kennedy G,Dunsby C,Neil M,Halford SE,French PM,Baldwin GS

更新日期：2011-04-01 00:00:00

abstract：:Scanning force microscopy was used to examine DNA condensates prepared with varying stoichiometries of lipospermine or polyethylenimine in physiological solution. For the first time, individual DNA strands were clearly visualized in incomplete condensates without drying. Using lipospermine at sub-saturating concentrat...

journal_title：Nucleic acids research

authors： Dunlap DD,Maggi A,Soria MR,Monaco L

更新日期：1997-08-01 00:00:00

abstract：:The presence of a homing endonuclease gene (HEG) within a microbial intron or intein empowers the entire element with the ability to invade genomic targets. The persistence of a homing endonuclease lineage depends in part on conservation of its DNA target site. One such rDNA sequence has been invaded both in archaea a...

journal_title：Nucleic acids research

authors： Nomura N,Nomura Y,Sussman D,Klein D,Stoddard BL

更新日期：2008-12-01 00:00:00

abstract：:A number of meiosis-specific transcripts are selectively eliminated during the mitotic cell cycle in fission yeast. Mmi1, an RNA-binding protein, plays a crucial role in this selective elimination. Mmi1 recognizes a specific region, namely, the determinant of selective removal (DSR) on meiotic transcripts and induces ...

journal_title：Nucleic acids research

authors： Yamashita A,Takayama T,Iwata R,Yamamoto M

更新日期：2013-11-01 00:00:00

abstract：:A 200 bp sequence including a stretch of 54 base pairs of alternating guanosine and adenosine nucleotide residues [(dG-dA)27.(dT-dC)27] was cloned in the simian virus 40 (SV40) genome between the KpnI and HpaII sites. This sequence was discovered earlier as part of a region limiting the amplification of sequences adja...

journal_title：Nucleic acids research

authors： Rao BS,Manor H,Martin RG

更新日期：1988-08-25 00:00:00

abstract：:Proteins are highly dynamic molecules, whose function is intrinsically linked to their molecular motions. Despite the pivotal role of protein dynamics, their computational simulation cost has led to most structure-based approaches for assessing the impact of mutations on protein structure and function relying upon sta...

journal_title：Nucleic acids research

authors： Rodrigues CH,Pires DE,Ascher DB

更新日期：2018-07-02 00:00:00

abstract：:Variable regions within ribosomal RNAs frequently vary in length as a result of incorporating products of slippage. This makes constructing secondary structure models problematic because base homology is difficult or impossible to establish between species. Here, we model such a region by comparing the results of the ...

journal_title：Nucleic acids research

authors： Hancock JM,Vogler AP

更新日期：1998-04-01 00:00:00

abstract：:The Gene Expression Database (GXD) is a community resource of gene expression information for the laboratory mouse. By combining the different types of expression data, GXD aims to provide increasingly complete information about the expression profiles of genes in different mouse strains and mutants, thus enabling val...

journal_title：Nucleic acids research

authors： Ringwald M,Eppig JT,Begley DA,Corradi JP,McCright IJ,Hayamizu TF,Hill DP,Kadin JA,Richardson JE

更新日期：2001-01-01 00:00:00

abstract：:The thyroid hormone receptor alpha (THRA or c-erbA-1) gene belongs to a family of genes which encode nuclear receptors for various hydrophobic ligands such as steroids, vitamin D, retinoic acid and thyroid hormones. These receptors are composed of several domains important for hormone-binding, DNA-binding, dimerizatio...

journal_title：Nucleic acids research

authors： Laudet V,Begue A,Henry-Duthoit C,Joubel A,Martin P,Stehelin D,Saule S

更新日期：1991-03-11 00:00:00

abstract：:Characterization of the epigenetic status of individual cells remains a challenge. Current sequencing approaches have limited coverage, and it is difficult to assign an epigenetic status to the transcription state of individual gene alleles in the same cell. To address these limitations, a targeted microscopy-based ep...

journal_title：Nucleic acids research

authors： Kint S,Van Criekinge W,Vandekerckhove L,De Vos WH,Bomsztyk K,Krause DS,Denisenko O

更新日期：2021-01-28 00:00:00