PRince: a web server for structural and physicochemical analysis of protein-RNA interface.

abstract：:Loop-loop tertiary interactions play a key role in the folding and catalytic activity of natural hammerhead ribozymes. Using a combination of NMR spectroscopy, site-directed mutagenesis and kinetic and infectivity analyses, we have examined the structure and function of loops 1 and 2 of the (+) and (-) hammerheads of ...

journal_title：Nucleic acids research

authors： Dufour D,de la Peña M,Gago S,Flores R,Gallego J

更新日期：2009-02-01 00:00:00

abstract：:The role of thymine dimerization for previously reported U.V. induced conformational changes has been proved using acetophenone as sensitizer for the specific thymine dimerization upon irradiation at 313 nm. CD results demonstrate that formation of pyrimidine dimers cause typical conformational changes of the DNA B he...

journal_title：Nucleic acids research

authors： Lang H

更新日期：1975-02-01 00:00:00

abstract：:The National Center for Biotechnology Information (NCBI) Clone DB (http://www.ncbi.nlm.nih.gov/clone/) is an integrated resource providing information about and facilitating access to clones, which serve as valuable research reagents in many fields, including genome sequencing and variation analysis. Clone DB represen...

journal_title：Nucleic acids research

authors： Schneider VA,Chen HC,Clausen C,Meric PA,Zhou Z,Bouk N,Husain N,Maglott DR,Church DM

更新日期：2013-01-01 00:00:00

abstract：:Calf lens messenger fractions have been purified on poly(dT)-cellulose. The purified RNA's have been analyzed as nucleosides by a method which can be used on a micro-scale with highly reproduceble results. Both the 10S and 14S lens mRNA contain poly A sequences. The poly A content found in 14S mRNA cannot account for ...

journal_title：Nucleic acids research

authors： Piperno G,Bertazzoni U,Berns AJ,Bloemendal H

更新日期：1974-02-01 00:00:00

abstract：:PROtein Domain Organization and Comparison (PRODOC) comprises several programs that enable convenient comparison of proteins as a sequence of domains. The in-built dataset currently consists of approximately 698 000 proteins from 192 organisms with complete genomic data, and all the SWISSPROT proteins obtained from th...

journal_title：Nucleic acids research

authors： Krishnadev O,Rekha N,Pandit SB,Abhiman S,Mohanty S,Swapna LS,Gore S,Srinivasan N

更新日期：2005-07-01 00:00:00

abstract：:DNA intercalators are found to recognize a DNA lesion as a high affinity receptor site. This lesion-specific binding is observed when one strand of a DNA double helix contains an extra, unpaired nucleotide. Our assay for binding controls for the effects of sequence with a series of oligodeoxynucleotide duplexes which ...

journal_title：Nucleic acids research

authors： Williams LD,Thivierge J,Goldberg IH

更新日期：1988-12-23 00:00:00

abstract：:Observation and tracking of fluorescently labeled molecules and particles in living cells reveals detailed information about intracellular processes on the molecular level. Whereas light microscopic particle observation is usually limited to two-dimensional projections of short trajectory segments, we report here imag...

journal_title：Nucleic acids research

authors： Spille JH,Kaminski TP,Scherer K,Rinne JS,Heckel A,Kubitscheck U

更新日期：2015-01-01 00:00:00

abstract：:A cDNA that encodes a transcription factor able to recognize the thyroglobulin gene promoter in vitro was isolated from a dog thyroid cDNA expression library in lambda gt11. The library was screened with a multimerized 20 bp-oligonucleotide probe corresponding to the -126 to -107 bp region of the bovine thyroglobulin ...

journal_title：Nucleic acids research

authors： Javaux F,Donda A,Vassart G,Christophe D

更新日期：1991-03-11 00:00:00

abstract：:Recent studies indicate that controlling the nuclear decondensation and intra-nuclear localization of plasmid DNA (pDNA) would result in an increased transfection efficiency. In the present study, we established a technology for imaging the nuclear condensation/decondensation status of pDNA in nuclear subdomains using...

journal_title：Nucleic acids research

authors： Shaheen SM,Akita H,Yamashita A,Katoono R,Yui N,Biju V,Ishikawa M,Harashima H

更新日期：2011-04-01 00:00:00

abstract：:Molecular mechanisms that regulate gene expression can occur either before or after transcription. The information for post-transcriptional regulation can lie within the sequence or structure of the RNA transcript and it has been proposed that G-quadruplex nucleic acid sequence motifs may regulate translation as well ...

journal_title：Nucleic acids research

authors： Huppert JL,Bugaut A,Kumari S,Balasubramanian S

更新日期：2008-11-01 00:00:00

abstract：:Holliday junction (HJ) resolving enzyme RecU is involved in DNA repair and recombination. We have determined the crystal structure of inactive mutant (D88N) of RecU from Bacillus subtilis in complex with a 12 base palindromic DNA fragment at a resolution of 3.2 Å. This structure shows the stalk region and the essentia...

journal_title：Nucleic acids research

authors： Khavnekar S,Dantu SC,Sedelnikova S,Ayora S,Rafferty J,Kale A

更新日期：2017-01-25 00:00:00

abstract：:Bacterial genomics has revolutionized our understanding of the microbial tree of life; however, mapping and visualizing the distribution of functional traits across bacteria remains a challenge. Here, we introduce AnnoTree-an interactive, functionally annotated bacterial tree of life that integrates taxonomic, phyloge...

journal_title：Nucleic acids research

authors： Mendler K,Chen H,Parks DH,Lobb B,Hug LA,Doxey AC

更新日期：2019-05-21 00:00:00

abstract：:Cationic aromatic tricyclic compounds including triphenylmethane dyes, phenazines, phenoxazines, acridines, phenothiazines, phenanthridinium compounds, anthracenes and xanthene dyes, which amplify cell killing in phleomycin-treated Escherichia coli B cells also modified phleomycin-induced breakdown of DNA to acid-solu...

journal_title：Nucleic acids research

authors： Grigg GW,Gero AM,Sasse WH,Sleigh MJ

更新日期：1984-12-11 00:00:00

abstract：:The widespread applications of various 'omics' technologies in biomedical research together with the emergence of public data repositories have resulted in a plethora of data sets for almost any given physiological state or disease condition. Properly combining or integrating these data sets with similar basic hypothe...

journal_title：Nucleic acids research

authors： Xia J,Fjell CD,Mayer ML,Pena OM,Wishart DS,Hancock RE

更新日期：2013-07-01 00:00:00

abstract：:Despite much information as to the structure and function of the general transcription factors, little is known about the regulation of their expression. Transcription of the Saccharomyces cerevisiae SUA7 (TFIIB) gene results in the formation of two discrete transcripts. It was originally reported that the two transcr...

journal_title：Nucleic acids research

authors： Hoopes BC,Bowers GD,DiVisconte MJ

更新日期：2000-11-15 00:00:00

abstract：:Human apolipoprotein (apo) B mRNA is edited in a tissue specific reaction, to convert glutamine codon 2153 (CAA) to a stop translation codon. The RNA editing product templates and hybridises as uridine, but the chemical nature of this reaction and the physical identity of the product are unknown. After editing in vitr...

journal_title：Nucleic acids research

authors： Hodges PE,Navaratnam N,Greeve JC,Scott J

更新日期：1991-03-25 00:00:00

abstract：:OMA (Orthologous MAtrix) is a database that identifies orthologs among publicly available, complete genomes. Initiated in 2004, the project is at its 11th release. It now includes 1000 genomes, making it one of the largest resources of its kind. Here, we describe recent developments in terms of species covered; the al...

journal_title：Nucleic acids research

authors： Altenhoff AM,Schneider A,Gonnet GH,Dessimoz C

更新日期：2011-01-01 00:00:00

abstract：:Sequencing by hybridization (SBH) approaches to DNA sequencing face two conflicting constraints. First, in order to ensure that the target DNA binds reliably, the oligonucleotide probes that are attached to the chip array must be >15 bp in length. Secondly, the total number of possible 15 bp oligonucleotides is too la...

journal_title：Nucleic acids research

authors： Fedrigo O,Naylor G

更新日期：2004-02-18 00:00:00

abstract：:Toscana virus is an emerging bunyavirus in Mediterranean Europe where it accounts for 80% of pediatric meningitis cases during the summer. The negative-strand ribonucleic acid (RNA) genome of the virus is wrapped around the virally encoded nucleoprotein N to form the ribonucleoprotein complex (RNP). We determined crys...

journal_title：Nucleic acids research

authors： Olal D,Dick A,Woods VL Jr,Liu T,Li S,Devignot S,Weber F,Saphire EO,Daumke O

更新日期：2014-05-01 00:00:00

abstract：:The primary rRNA transcript contains a large external transcribed spacer (ETS) approximately 4,000 nucleotides in length. We have used subcloned DNA probes derived from the 5' end of the ETS in conjunction with Northern blot analysis of murine nuclear RNA to examine processing of this region. In agreement with the res...

journal_title：Nucleic acids research

authors： Fetherston J,Werner E,Patterson R

更新日期：1984-09-25 00:00:00

abstract：:Members of the basic helix-loop-helix (bHLH) family of transcription factors regulate a wide array of developmental processes in many cell types, including cell fate specification, differentiation and morphogenesis. Our studies describe the cloning of a gene from the nematode Caenorhabditis elegans that is closely rel...

journal_title：Nucleic acids research

authors： Nguyen L,Round J,O'Connell R,Geurts P,Funes-Duran M,Wong J,Jongeward G,Vierra CA

更新日期：2001-11-01 00:00:00

abstract：:In addition to the cap-dependent mechanism, eukaryotic initiation of translation can occur by a cap-independent mechanism which directs ribosomes to defined start codons enabled by internal ribosome entry site (IRES) elements. IRES elements from poliovirus and encephalomyocarditis virus are often used to construct bi-...

journal_title：Nucleic acids research

authors： Hennecke M,Kwissa M,Metzger K,Oumard A,Kröger A,Schirmbeck R,Reimann J,Hauser H

更新日期：2001-08-15 00:00:00

abstract：:The major surface antigen of procyclic and epimastigote forms of Trypanosoma congolense in the tsetse fly is GARP (glutamic acid/alanine-rich protein), which is thought to be the analogue of procyclin/PARP in Trypanosoma brucei. We have studied two T.congolense GARP loci (the 4.3 and 4.4 loci) whose transcription is a...

journal_title：Nucleic acids research

authors： Graham SV,Jefferies D,Barry JD

更新日期：1996-01-15 00:00:00

abstract：:Loading of the replicative ring helicase onto the origin of replication (oriC) is the final outcome of a well coordinated series of events that collectively constitute a primosomal cascade. Once the ring helicase is loaded, it recruits the primase and signals the switch to the polymerization mode. The transient nature...

journal_title：Nucleic acids research

authors： Thirlway J,Turner IJ,Gibson CT,Gardiner L,Brady K,Allen S,Roberts CJ,Soultanas P

更新日期：2004-06-01 00:00:00

abstract：:The prime mechanism by which p53 acts as a tumor suppressor is as a transcription factor regulating the expression of diverse downstream genes. The DNA-binding domain of p53 (p53DBD) interacts with defined DNA sites and is the main target for mutations in human primary tumors. Here, we show that the CWWG motif, found ...

journal_title：Nucleic acids research

authors： Beno I,Rosenthal K,Levitine M,Shaulov L,Haran TE

更新日期：2011-03-01 00:00:00

abstract：:Therapeutic small interfering RNAs (siRNAs) are composed of chemically modified nucleotides, which enhance RNA stability and increase affinity in Watson-Crick base pairing. However, the precise fate of such modified nucleotides once the siRNA is degraded within the cell is unknown. Previously, we demonstrated that deo...

journal_title：Nucleic acids research

authors： Wu SY,Chen TM,Gmeiner WH,Chu E,Schmitz JC

更新日期：2013-04-01 00:00:00

abstract：:The active and inactive state of transcription factors in growing cells is usually directed by allosteric physicochemical signals or metabolites, which are in turn either produced in the cell or obtained from the environment by the activity of the products of effector genes. To understand the regulatory dynamics and t...

journal_title：Nucleic acids research

authors： Janga SC,Salgado H,Martínez-Antonio A,Collado-Vides J

更新日期：2007-01-01 00:00:00

abstract：:Molecules of single-stranded ribosomal RNA and double-stranded replicative form of phage f2 RNA (dsRNA) adopt a compact form in solutions, containing sufficiently high concentrations of salt (NaCl) and polymer (PEG). However, only in the cases of native dsRNA molecules the compact particles are characterized by a regu...

journal_title：Nucleic acids research

authors： Evdokimov YM,Pyatigorskaya TL,Kadikov VA,Polyvtsev OF,Doskocil J,Koudelka J,Varshavsky YM

更新日期：1976-06-01 00:00:00

abstract：:Bacteria from the genus Streptomyces are very important for the production of natural bioactive compounds such as antibiotic, antitumour or immunosuppressant drugs. Around two-thirds of all known natural antibiotics are produced by these bacteria. An enormous quantity of crucial data related to this genus has been gen...

journal_title：Nucleic acids research

authors： Lucas X,Senger C,Erxleben A,Grüning BA,Döring K,Mosch J,Flemming S,Günther S

更新日期：2013-01-01 00:00:00

abstract：:The cDNA of human DNA polymerase delta was cloned. The cDNA had a length of 3.5 kb and encoded a protein of 1107 amino acid residues with a calculated molecular mass of 124 kDa. Northern blot analysis showed that the cDNA hybridized to a mRNA of 3.4 kb. Monoclonal and polyclonal antibodies to the C-terminal 20 residue...

journal_title：Nucleic acids research

authors： Yang CL,Chang LS,Zhang P,Hao H,Zhu L,Toomey NL,Lee MY

更新日期：1992-02-25 00:00:00