BseSI, a restriction endonuclease from Bacillus stearothermophilus Jo 10-553, which recognizes the novel hexanucleotide sequence 5'-G(G/T)GC(A/C)C-3'.

abstract：:Regulation of mRNA translation is an important mechanism determining the level of expression of proteins in eukaryotic cells. Translation is most commonly initiated by cap-dependent scanning, but many eukaryotic mRNAs contain internal ribosome entry segments (IRESs), providing an alternative means of initiation capabl...

journal_title：Nucleic acids research

authors： Spriggs KA,Cobbold LC,Ridley SH,Coldwell M,Bottley A,Bushell M,Willis AE,Siddle K

更新日期：2009-09-01 00:00:00

abstract：:Previously we identified Rrp1 and Rrp2 as two proteins required for the Sfr1/Swi5-dependent branch of homologous recombination (HR) in Schizosaccharomyces pombe. Here we use a yeast two-hybrid approach to demonstrate that Rrp1 and Rrp2 can interact with each other and with Swi5, an HR mediator protein. Rrp1 and Rrp2 f...

journal_title：Nucleic acids research

authors： Dziadkowiec D,Kramarz K,Kanik K,Wisniewski P,Carr AM

更新日期：2013-09-01 00:00:00

abstract：:The Ensembl project (https://www.ensembl.org) annotates genomes and disseminates genomic data for vertebrate species. We create detailed and comprehensive annotation of gene structures, regulatory elements and variants, and enable comparative genomics by inferring the evolutionary history of genes and genomes. Our int...

journal_title：Nucleic acids research

authors： Howe KL,Achuthan P,Allen J,Allen J,Alvarez-Jarreta J,Amode MR,Armean IM,Azov AG,Bennett R,Bhai J,Billis K,Boddu S,Charkhchi M,Cummins C,Da Rin Fioretto L,Davidson C,Dodiya K,El Houdaigui B,Fatima R,Gall A,Garcia G

更新日期：2021-01-08 00:00:00

abstract：:In human cells DNA damage caused by UV light is mainly repaired by the nucleotide excision repair pathway. This mechanism involves dual incisions on both sides of the damage catalyzed by two nucleases. In mammalian cells XPG cleaves 3' of the DNA lesion while the ERCC1-XPF complex makes the 5' incision. The amino acid...

journal_title：Nucleic acids research

authors： Rödel C,Jupitz T,Schmidt H

更新日期：1997-07-15 00:00:00

abstract：:Efficient strategies for precise genome editing in human-induced pluripotent cells (hiPSCs) will enable sophisticated genome engineering for research and clinical purposes. The development of programmable sequence-specific nucleases such as Transcription Activator-Like Effectors Nucleases (TALENs) and Cas9-gRNA allows...

journal_title：Nucleic acids research

authors： Yang L,Guell M,Byrne S,Yang JL,De Los Angeles A,Mali P,Aach J,Kim-Kiselak C,Briggs AW,Rios X,Huang PY,Daley G,Church G

更新日期：2013-10-01 00:00:00

abstract：:Selenoproteins contain the amino acid selenocysteine which is encoded by a UGA Sec codon. Recoding UGA Sec requires a complex mechanism, comprising the cis-acting SECIS RNA hairpin in the 3'UTR of selenoprotein mRNAs, and trans-acting factors. Among these, the SECIS Binding Protein 2 (SBP2) is central to the mechanism...

journal_title：Nucleic acids research

authors： Takeuchi A,Schmitt D,Chapple C,Babaylova E,Karpova G,Guigo R,Krol A,Allmang C

更新日期：2009-04-01 00:00:00

abstract：:Eukaryotic tRNAs are transcribed as precursors. A 5'-end leader and 3'-end trailer are endonucleolytically removed by RNase P and 3'-tRNase before 3'-end CCA addition, aminoacylation, nuclear export and translation. 3'-End -CC can be a 3'-tRNase anti-determinant with the ability to prevent mature tRNA from recycling t...

journal_title：Nucleic acids research

authors： Levinger L,Jacobs O,James M

更新日期：2001-11-01 00:00:00

abstract：:Linked-atom molecular modelling was employed to determine the steric and torsional requirements for intercalation of proflavine into a double-stranded region of DNA compatible with adjacent regions of cohelical A-DNA. The optimum intercalation conformation is characterized by the dihedral angles xi and psi becoming tr...

journal_title：Nucleic acids research

authors： Alden CJ,Arnott S

更新日期：1977-11-01 00:00:00

abstract：:The Genomes Online Database (GOLD) (https://gold.jgi.doe.gov) is a manually curated data management system that catalogs sequencing projects with associated metadata from around the world. In the current version of GOLD (v.6), all projects are organized based on a four level classification system in the form of a Stud...

journal_title：Nucleic acids research

authors： Mukherjee S,Stamatis D,Bertsch J,Ovchinnikova G,Verezemska O,Isbandi M,Thomas AD,Ali R,Sharma K,Kyrpides NC,Reddy TB

更新日期：2017-01-04 00:00:00

abstract：:Two residues are invariant in all bZip basic regions: asparagine -18 and arginine -10 (we define the first leucine of the leucine zipper of GCN4 as +1). X-ray structures of two specific GCN4-DNA complexes (Ellenberger et al., Cell, 71, 1223-1237, 1992; König & Richmond, J. Mol. Biol., 233, 139-154, 1993) demonstrate t...

journal_title：Nucleic acids research

authors： Suckow M,Schwamborn K,Kisters-Woike B,von Wilcken-Bergmann B,Müller-Hill B

更新日期：1994-10-25 00:00:00

abstract：:Many infectious diseases are caused by viral infections, and in particular by RNA viruses such as MERS, Ebola and Zika. To understand viral disease, detection and identification of these viruses are essential. Although PCR is widely used for rapid virus identification due to its low cost and high sensitivity and speci...

journal_title：Nucleic acids research

authors： Kim H,Kang N,An K,Kim D,Koo J,Kim MS

更新日期：2017-01-04 00:00:00

abstract：:The Arabidopsis Information Resource (TAIR, http://arabidopsis.org) is the model organism database for the fully sequenced and intensively studied model plant Arabidopsis thaliana. Data in TAIR is derived in large part from manual curation of the Arabidopsis research literature and direct submissions from the research...

journal_title：Nucleic acids research

authors： Swarbreck D,Wilks C,Lamesch P,Berardini TZ,Garcia-Hernandez M,Foerster H,Li D,Meyer T,Muller R,Ploetz L,Radenbaugh A,Singh S,Swing V,Tissier C,Zhang P,Huala E

更新日期：2008-01-01 00:00:00

abstract：:The sequence of a DNA fragment about 1 Kbp long located at the 3' boundary of the chicken alpha globin gene domain, including the 3'-side matrix attachment point and the site of transcription termination, was determined. It contains a repetitive DNA element and the AT-rich (easily denaturable) DNA segment conserved at...

journal_title：Nucleic acids research

authors： Farache G,Razin SV,Targa FR,Scherrer K

更新日期：1990-02-11 00:00:00

abstract：:Pairing of a given E3 ubiquitin ligase with different E2s allows synthesis of ubiquitin conjugates of different topologies. While this phenomenon contributes to functional diversity, it remains largely unknown how a single E3 ubiquitin ligase recognizes multiple E2s, and whether identical structural requirements deter...

journal_title：Nucleic acids research

authors： Lok GT,Sy SM,Dong SS,Ching YP,Tsao SW,Thomson TM,Huen MS

更新日期：2012-01-01 00:00:00

abstract：:Several proteins that have substantially diverged during evolution retain similar three-dimensional structures and biological function inspite of poor sequence identity. The database on Genomic Distribution of protein structural domain Superfamilies (GenDiS) provides record for the distribution of 4001 protein domains...

journal_title：Nucleic acids research

authors： Pugalenthi G,Bhaduri A,Sowdhamini R

更新日期：2005-01-01 00:00:00

abstract：:The development of biosensors based on DNA hybridization requires a more precise knowledge of the thermodynamics of the hybridization at a solid interface. In particular, the selectivity of hybridization can be affected by a lot of parameters such as the single-strand (ss)DNA density, the pH, the ionic strength or the...

journal_title：Nucleic acids research

authors： Meunier-Prest R,Raveau S,Finot E,Legay G,Cherkaoui-Malki M,Latruffe N

更新日期：2003-12-01 00:00:00

abstract：:Recent studies have shown that homologous recombination (HR) requires chromatin repression as well as relaxation at DNA double strand breaks (DSBs). HP1 and SUV39H1/2 are repressive factors essential for HR. Here, we identify SETDB1 as an additional compacting factor promoting HR. Depletion of HP1, SUV39, SETDB1 or BR...

journal_title：Nucleic acids research

authors： Alagoz M,Katsuki Y,Ogiwara H,Ogi T,Shibata A,Kakarougkas A,Jeggo P

更新日期：2015-09-18 00:00:00

abstract：:With recent advancements in techniques for cellular data acquisition, information on cellular processes has been increasing at a dramatic rate. Visualization is critical to analyzing and interpreting complex information; representing cellular processes or pathways is no exception. VISIBIOweb is a free, open-source, we...

journal_title：Nucleic acids research

authors： Dilek A,Belviranli ME,Dogrusoz U

更新日期：2010-07-01 00:00:00

abstract：:Interferon regulatory factors IRF-3 and IRF-7 are transcription factors essential in the activation of interferon-β (IFN-β) gene in response to viral infections. Although, both proteins recognize the same consensus IRF binding site AANNGAAA, they have distinct DNA binding preferences for sites in vivo. The X-ray struc...

journal_title：Nucleic acids research

authors： De Ioannes P,Escalante CR,Aggarwal AK

更新日期：2011-09-01 00:00:00

abstract：:The RESID Database is a comprehensive collection of annotations and structures for protein post-translational modifications including N-terminal, C-terminal and peptide chain cross-link modifications. The RESID Database includes systematic and frequently observed alternate names, Chemical Abstracts Service registry nu...

journal_title：Nucleic acids research

authors： Garavelli JS,Hou Z,Pattabiraman N,Stephens RM

更新日期：2001-01-01 00:00:00

abstract：:Impaired DNA damage repair, especially deficient transcription-coupled nucleotide excision repair, leads to segmental progeroid syndromes in human patients as well as in rodent models. Furthermore, DNA double-strand break signalling has been pinpointed as a key inducer of cellular senescence. Several recent findings s...

journal_title：Nucleic acids research

authors： Grillari J,Katinger H,Voglauer R

更新日期：2007-01-01 00:00:00

abstract：:5-methylcytosine (m5C) modifications of RNA are ubiquitous in nature and play important roles in many biological processes such as protein translational regulation, RNA processing and stress response. Aberrant expressions of RNA:m5C methyltransferases are closely associated with various human diseases including cancer...

journal_title：Nucleic acids research

authors： Liu RJ,Long T,Li J,Li H,Wang ED

更新日期：2017-06-20 00:00:00

abstract：:We describe a novel 3'-OH unblocked reversible terminator with the potential to improve accuracy and read-lengths in next-generation sequencing (NGS) technologies. This terminator is based on 5-hydroxymethyl-2'-deoxyuridine triphosphate (HOMedUTP), a hypermodified nucleotide found naturally in the genomes of numerous ...

journal_title：Nucleic acids research

authors： Litosh VA,Wu W,Stupi BP,Wang J,Morris SE,Hersh MN,Metzker ML

更新日期：2011-03-01 00:00:00

abstract：:Chicken conalbumin double-stranded cDNA (con-dscDNA) was synthesized from a laying hen oviduct mRNA preparation enriched for conalbumin mRNA (con-mRNA). The dscDNA was inserted by blunt-end ligation into the Sal I site of plasmid pBR322 which had been repaired with DNA polymerase I to create Taq I sites on each side o...

journal_title：Nucleic acids research

authors： Cochet M,Perrin F,Gannon F,Krust A,Chambon P,McKnight GS,Lee DC,Mayo KE,Palmiter R

更新日期：1979-06-11 00:00:00

abstract：:The functionalisation of oligodeoxynucleotides and oligoribonucleotides by incorporation of 2'-amido-2'-deoxyribonucleosides, possibly containing a reporter group via the 2'-amido bond, was examined. Therefore 2'-acetamido-ribonucleosides containing a small methyl group at the 2'-amido bond were synthesized as model c...

journal_title：Nucleic acids research

authors： Hendrix C,Devreese B,Rozenski J,van Aerschot A,De Bruyn A,Van Beeumen J,Herdewijn P

更新日期：1995-01-11 00:00:00

abstract：:With the development of High-Throughput Sequencing (HTS) thousands of human genomes have now been sequenced. Whenever different studies analyze the same genome they usually agree on the amount of single-nucleotide polymorphisms, but differ dramatically on the number of insertion and deletion variants (indels). Further...

journal_title：Nucleic acids research

authors： Jiang Y,Turinsky AL,Brudno M

更新日期：2015-09-03 00:00:00

abstract：:The crystal structure of d(CATGGGCCCATG)(2) shows unique stacking patterns of a stable B<-->A-DNA intermediate. We evaluated intrinsic base stacking energies in this crystal structure using an ab initio quantum mechanical method. We found that all crystal base pair steps have stacking energies close to their values in...

journal_title：Nucleic acids research

authors： Poner J,Florián J,Ng HL,Poner JE,Packová N

更新日期：2000-12-15 00:00:00

abstract：:The pathogen-host interactions database (PHI-base) is available at www.phi-base.org PHI-base contains expertly curated molecular and biological information on genes proven to affect the outcome of pathogen-host interactions reported in peer reviewed research articles. In addition, literature that indicates specific ge...

journal_title：Nucleic acids research

authors： Urban M,Cuzick A,Rutherford K,Irvine A,Pedro H,Pant R,Sadanadan V,Khamari L,Billal S,Mohanty S,Hammond-Kosack KE

更新日期：2017-01-04 00:00:00

abstract：:Here we describe a novel endonuclease IV (Endo IV) based assay utilizing a substrate that mimics the abasic lesions that normally occur in double-stranded DNA. The three component substrate is characterized by single-stranded DNA target, an oligonucleotide probe, separated from a helper oligonucleotide by a one base g...

journal_title：Nucleic acids research

authors： Kutyavin IV,Milesi D,Belousov Y,Podyminogin M,Vorobiev A,Gorn V,Lukhtanov EA,Vermeulen NM,Mahoney W

更新日期：2006-01-01 00:00:00

abstract：:The International Committee on Taxonomy of Viruses (ICTV) is charged with the task of developing, refining, and maintaining a universal virus taxonomy. This task encompasses the classification of virus species and higher-level taxa according to the genetic and biological properties of their members; naming virus taxa;...

journal_title：Nucleic acids research

authors： Lefkowitz EJ,Dempsey DM,Hendrickson RC,Orton RJ,Siddell SG,Smith DB

更新日期：2018-01-04 00:00:00