Abstract：
:We investigated the effects of the antiviral agent distamycin A and of a distamycin derivative (FCE 24517) which possesses antineoplastic activity on the binding of some regulatory proteins to DNA. Both compounds inhibited the binding to DNA of the ubiquitous octamer binding factor OTF 1 and of the erythroid specific GATAAG protein (NFE 1). This was shown using the electrophoretic mobility shift assay on a DNA fragment of human gamma-globin gene promoter (-156 to -201), on the same fragment with a point mutation (T to C mutation) known to have an increased affinity of binding for NFE 1, on a DNA fragment of human histone H2B promoter and on a DNA fragment of mouse alpha 1 globin promoter. The ability of distamycin or of FCE 24517 to inhibit the binding was specific for AT-rich sequences since neither drug inhibited the binding of nuclear protein factors to the sequence CCACACCC of the human beta globin gene. Binding to DNA was investigated by evaluating the drugs' ability to protect selected sequences from DNase I digestion (DNase footprinting). Distamycins binding was highly preferential for DNA sequences containing stretches of AT. These studies indicate that chemicals which have a high degree of DNA sequence-specific binding can selectively inhibit the binding of regulatory proteins to DNA. These effects might be responsible for modification of the transcription of specific genes and might to some extent account for these drugs' antiviral and antineoplastic activities. This approach offers potential for the investigation of new such drugs.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Broggini M,Ponti M,Ottolenghi S,D'Incalci M,Mongelli N,Mantovani Rdoi
10.1093/nar/17.3.1051subject
Has Abstractpub_date
1989-02-11 00:00:00pages
1051-9issue
3eissn
0305-1048issn
1362-4962journal_volume
17pub_type
杂志文章abstract：:We present MultiGO, a web-enabled tool for the identification of biologically relevant gene sets from hierarchically clustered gene expression trees (http://ekhidna.biocenter.helsinki.fi/poxo/multigo). High-throughput gene expression measuring techniques, such as microarrays, are nowadays often used to monitor the exp...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl694
更新日期：2006-01-01 00:00:00
abstract：:Diastereomeric dithymidine methanephosphonamidates (TnpmT) were synthesized by reaction of 3'-amino-3'-deoxythymidine with 3'- O -acetylthymidin-5-yl-methanephosphonochloridate. Separated dinucleotide TnpmT(fast) and TnpmT(slow) diastereomers were used as building blocks to prepare chimeric dodecathy-midylates, posses...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.11.2650
更新日期：1998-06-01 00:00:00
abstract：:During protein synthesis, ribosomes become stalled on polyproline-containing sequences, unless they are rescued in archaea and eukaryotes by the initiation factor 5A (a/eIF-5A) and in bacteria by the homologous protein EF-P. While a structure of EF-P bound to the 70S ribosome exists, structural insight into eIF-5A on ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv1517
更新日期：2016-02-29 00:00:00
abstract：:It is a central issue to elucidate the new type of molecular recognition accompanied by a global structural change of a molecule upon binding to its targets. Here we investigate the driving force for the binding of R12 (a ribonucleic acid aptamer) and P16 (a partial peptide of a prion protein) during which P16 exhibit...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku382
更新日期：2014-06-01 00:00:00
abstract：:Intrinsic energetic and solvation factors contributing to the unusual structural and biochemical properties of N3'-phosphoramidate DNA analogs have been re-examined using a combination of quantum mechanical and molecular dynamics methods. Evaluation of the impact of the N3'-H substitution was performed via comparison ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/29.15.3219
更新日期：2001-08-01 00:00:00
abstract：:Tomato golden mosaic geminivirus has a genome of two single-stranded (ss) DNA components, A and B. An almost identical 'common' region in DNA A and DNA B is thought to contain sequence elements controlling replication and transcription. Hence investigation of sequences important for DNA replication by in vitro mutagen...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.24.10213
更新日期：1989-12-25 00:00:00
abstract：:Mitochondrial DNA from human tissue culture cells contains heterogeneous sequences located within a previously identified, evolutionarily conserved region termed CSB-2. CSB-2 is located near the origin of heavy-strand mitochondrial DNA synthesis and the major transcriptional promoters for each strand of human mitochon...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/13.22.8093
更新日期：1985-11-25 00:00:00
abstract：:We present evidence that the splice sites in mammalian pre-mRNAs are brought together via a three dimensional diffusion mechanism. We tested two mechanisms for splice site pairing: a lateral diffusion ('scanning') model and the currently favored three dimensional diffusion ('jumping') model. Two lines of evidence that...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/24.9.1638
更新日期：1996-05-01 00:00:00
abstract：:Cellular liquid-liquid phase separation (LLPS) results in the formation of dynamic granules that play an important role in many biological processes. On a molecular level, the clustering of proteins into a confined space results from an indefinite network of intermolecular interactions. Here, we introduce and exploit ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx353
更新日期：2017-06-20 00:00:00
abstract：:Investigation of biological processes using selective chemical interventions is generally applied in biomedical research and drug discovery. Many studies of this kind make use of gene expression experiments to explore cellular responses to chemical interventions. Recently, some research groups constructed libraries of...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkn610
更新日期：2008-11-01 00:00:00
abstract：:The initial genomic response to serum growth factors is the transcriptional activation of a set of immediate-early genes. Serum-induced transcriptional activation of several of these genes involves the formation of a ternary complex that includes the serum response factor (SRF), a 62 kDa ternary complex factor (TCF) a...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/24.7.1345
更新日期：1996-04-01 00:00:00
abstract：:The oncogenic transformation of normal cells into malignant, rapidly proliferating cells requires major alterations in cell physiology. For example, the transformed cells remodel their metabolic processes to supply the additional demand for cellular building blocks. We have recently demonstrated essential metabolic pr...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv1337
更新日期：2016-01-04 00:00:00
abstract：:EpoDB is a database of genes expressed in vertebrate red blood cells. It is also a prototype for the creation of cell and tissue-specific databases from multiple external sources. The information in EpoDB obtained from GenBank, SWISS-PROT, Transfac, TRRD and GERD is curated to provide high quality data for sequence an...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/27.1.200
更新日期：1999-01-01 00:00:00
abstract：:We have developed a new COFACTOR webserver for automated structure-based protein function annotation. Starting from a structural model, given by either experimental determination or computational modeling, COFACTOR first identifies template proteins of similar folds and functional sites by threading the target structu...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gks372
更新日期：2012-07-01 00:00:00
abstract：:Various environmental oxidative stresses are sensed by redox-sensitive regulators through cysteine thiol oxidation or modification. A few zinc-containing anti-sigma (ZAS) factors in actinomycetes have been reported to respond sensitively to thiol oxidation, among which RsrA from Streptomyces coelicolor is best charact...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkr477
更新日期：2011-09-01 00:00:00
abstract：:Mutant AraC proteins were selected for their ability to induce but not to repress, or their ability to repress but not to induce the araBAD operon. One such unusual mutant is able to bind to the araI site with an affinity only two to three-fold weaker than the wild type AraC protein, but the mutant protein was shown, ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/13.14.5019
更新日期：1985-07-25 00:00:00
abstract：:To investigate the mechanisms by which oligonucleotides hybridize to target molecules, the binding of two oligodeoxynucleotide probes to RNA targets was measured over a broad range of temperatures. Mutations were then scanned across each DNA/RNA hybrid to map, at single base resolution, sequences important for hybridi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkn134
更新日期：2008-05-01 00:00:00
abstract：:The DNA-Actinomycin D interaction has been studied by resonance Raman effect using DNA as chromophore. First, the resonance Raman spectra of DNA obtained with a U.V. excitation at wavelengths of 300 nm and 280 nm are presented. The main Raman hands are assigned to the convenient nucleic bases by comparison with the sp...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/5.8.2969
更新日期：1978-08-01 00:00:00
abstract：:Phosphorylation of the cellular single-stranded DNA-binding protein, replication protein A (RPA), occurs during normal mitotic cell cycle progression and also in response to genotoxic stress. In budding yeast, these reactions require the ATM homolog Mec1, a central regulator of the DNA replication and DNA damage check...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/29.23.4808
更新日期：2001-12-01 00:00:00
abstract：:Termination of protein synthesis is promoted in ribosomes by proper stop codon discrimination by class 1 polypeptide release factors (RFs). A large set of prokaryotic RFs differing in stop codon specificity, RF1 for UAG and UAA, and RF2 for UGA and UAA, was analyzed by means of a recently developed computational metho...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gki841
更新日期：2005-09-14 00:00:00
abstract：:Four pseudorevertants of a -10 region lacP mutation were isolated. Three of these mutations were found to activate nascent promoters. These mutations were: a -2 G/C----A/T change (-2A) promoting transcription at position +11, a +1 A/T----T/A change (+1T) promoting transcription initiation at position +13, and a +10 C/...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.10.3927
更新日期：1989-05-25 00:00:00
abstract：:The secondary structure of an adenovirus associated low molecular weight RNA (VAI-RNA) has been studied by partial digestion with T1-RNase and S1-endonuclease followed by T1-fingerprint analysis. The empirical secondary structure has been compared with two computer generated models based on minimal free energy of the ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/9.17.4239
更新日期：1981-09-11 00:00:00
abstract：:The P. falciparum pPFrep20 repetitive element from the Palo Alto Uganda strain has been isolated and sequenced. The Palo Alto pPFrep20 repeat (pPFPArep20) has a clustered subtelomeric location and on chromosome 1 has been deleted from one end. Analysis of chromosome 1 from 5 other strains has revealed that pPFrep20 se...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/16.10.4331
更新日期：1988-05-25 00:00:00
abstract：:The number of known alternative human isoforms has been increasing steadily with the amount of available transcription data. To date, over 100 000 isoforms have been detected in EST libraries, and at least 75% of human genes have at least one alternative isoform. In this paper, we propose that most alternative splicin...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp471
更新日期：2009-08-01 00:00:00
abstract：:We describe a simple procedure for photolithographic patterning of streptavidin on silicon substrates. Long wavelength UV (365 nm) light was used to direct the covalent attachment of photoactivatable biotin onto silylated silicon wafers. Fluorescently labeled streptavidin was found to bind only in areas exposed to the...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/28.8.e33
更新日期：2000-04-15 00:00:00
abstract：:GenBank® (https://www.ncbi.nlm.nih.gov/genbank/) is a comprehensive, public database that contains 9.9 trillion base pairs from over 2.1 billion nucleotide sequences for 478 000 formally described species. Daily data exchange with the European Nucleotide Archive and the DNA Data Bank of Japan ensures worldwide coverag...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkaa1023
更新日期：2021-01-08 00:00:00
abstract：:Sequencing of the 3'-untranslated region of the CCT8 gene of the fungal pathogen Candida albicans revealed that the CCT8 coding region overlaps 13 bp with the coding region of the convergently orientated TRP1 gene. The same overlap was found in three strains with different genetic backgrounds. 3'-RACE was used to dete...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.22.5061
更新日期：1998-11-15 00:00:00
abstract：:Apolipoprotein B (apoB) mRNA editing is a nuclear event that minimally requires the RNA substrate, APOBEC-1 and APOBEC-1 Complementation Factor (ACF). The co-localization of these macro-molecules within the nucleus and the modulation of hepatic apoB mRNA editing activity have been described following a variety of meta...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl417
更新日期：2006-07-04 00:00:00
abstract：:The cause of 50S ribosomal subunit collapse reportedly triggered by hybridization of a 14-base cDNA probe to the alpha-sarcin region of 23S rRNA was investigated by physical measurement of probe-subunit complexes in varying buffer conditions. The results reported here show that this probe was unable to hybridize to it...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/16.22.10817
更新日期：1988-11-25 00:00:00
abstract：:Ribosome biogenesis in Saccharomyces cerevisiae involves a regulon of >200 genes (Ribi genes) coordinately regulated in response to nutrient availability and cellular growth rate. Two cis-acting elements called PAC and RRPE are known to mediate Ribi gene repression in response to nutritional downshift. Here, we show t...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx058
更新日期：2017-05-05 00:00:00
