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*  Chimeras between single-stranded DNA-binding proteins from Escherichia coli and Mycobacterium tuberculosis reveal that their C...
Uracil, a promutagenic base in DNA can arise by spontaneous deamination of cytosine or incorporation of dUMP by DNA polymerase. Uracil is removed from DNA by uracil DNA glycosylase (UDG), the first enzyme in the uracil excision repair pathway. We recently reported that the Escherichia coli single-stranded DNA binding protein (SSB) facilitated uracil excision from certain structured substrates by E. coli UDG (EcoUDG) and suggested the existence of interaction between SSB and UDG. In this study, we have made use of the chimeric proteins obtained by fusion of N- and C-terminal domains of SSBs from E. coli and Mycobacterium tuberculosis to investigate interactions between SSBs and UDGs. The EcoSSB or a chimera containing its C-terminal domain interacts with EcoUDG in a binary (SSB-UDG) or a ternary (DNA-SSB-UDG) complex. However, the chimera containing the N-terminal domain from ...
  http://eprints.iisc.ernet.in/12055/
*  A novel pairing process promoted by Escherichia coli RecA protein: inverse DNA and RNA strand exchange. - Semantic Scholar
Traditionally, recombination reactions promoted by RecA-like proteins initiate by forming a nucleoprotein filament on a single-stranded DNA (ssDNA), which then pairs with homologous double-stranded DNA (dsDNA). In this paper, we describe a novel pairing process that occurs in an unconventional manner: RecA protein polymerizes along dsDNA to form an active nucleoprotein filament that can pair and exchange strands with homologous ssDNA. Our results demonstrate that this 'inverse' reaction is a unique, highly efficient DNA strand exchange reaction that is not due to redistribution of RecA protein from dsDNA to the homologous ssDNA partner. Finally, we demonstrate that the RecA protein-dsDNA filament can also pair and promote strand exchange with ssRNA. This inverse RNA strand exchange reaction ...
  https://www.semanticscholar.org/paper/A-novel-pairing-process-promoted-by-Escherichia-co-Zaitsev-Kowalczykowski/7aefd1145f385d73c7a6507e0044d6b90f53c019
*  Method of targeting DNA - Patent # 5460941 - PatentGenius
The present invention relates to a method of forming a three-stranded DNA molecule wherein each strand of the three-stranded DNA molecule is hybridized (that is, non-covalently bound) to at least one other strand of the three-stranded DNA molecule. The method comprises:contacting a recombination protein with a double-stranded DNA molecule and with a single-stranded DNA molecule sufficiently complementary to one strand of the double-stranded DNA molecule to hybridize therewith, which contacting is effected under conditions such that the single-stranded DNA molecule hybridizes to the double-stranded molecule so that the three stranded DNA molecule is formed.
  http://www.patentgenius.com/patent/5460941.html
*  Jacobs:Protocol 10 bp DNA Ladder - OpenWetWare
The 10 bp DNA Ladder consists of thirty-three 10-bp repeats plus a fragment at 1668 bp and is suitable for sizing both double-stranded and single-stranded DNA fragments from 10 bp to 200 bp. The 100-bp band is approximately two to three times brighter than other ladder bands to provide internal orientation. In addition, because both DNA strands are of the same nucleotide composition, this product can be denatured to produce a set of single-stranded oligonucleotides increasing in length by 10-nucleotide increments. The double-stranded ladder can be visualized on 4% to 5% agarose gels after ethidium bromide staining. The single-stranded ladder can be visualized on an 8% urea-polyacrylamide gel after electrophoresis. This ladder can be easily radiolabeled using T4 polynucleotide kinase. ...
  https://openwetware.org/wiki/Jacobs:Protocol_10_bp_DNA_Ladder
*  RADX interacts with singlestranded DNA to promote replication fork stability | EMBO Reports
Singlestranded DNA (ssDNA) regions form as an intermediate in many DNA‐associated transactions. Multiple cellular proteins interact with ssDNA via the oligonucleotide/oligosaccharide‐binding (OB) fold domain. The heterotrimeric, multi‐OB fold domain‐containing Replication Protein A (RPA) complex has an essential genome maintenance role, protecting ssDNA regions from nucleolytic degradation and providing a recruitment platform for proteins involved in responses to replication stress and DNA damage. Here, we identify the uncharacterized protein RADX (CXorf57) as an ssDNA‐binding factor in human cells. RADX binds ssDNA via an N‐terminal OB fold cluster, which mediates its recruitment to sites of replication stress. Deregulation of RADX expression and ssDNA binding leads to enhanced replication fork stalling and degradation, ...
  http://embor.embopress.org/content/early/2017/10/11/embr.201744877.share
*  golden ratio and numbers in DNA- CODEX BIOGENESIS: les 13 codes de l'ADN (13 codes of DNA): October 2013: the first proof that...
This article proves the existence of a hyper-precise global numerical meta-architecture unifying, structuring, binding and controlling the billion triplet codons comprising the sequence of single-stranded DNA of the entire human genome. Beyond the evolution and erratic mutations like transposons within the genome, it's as if the memory of a fossil genome with multiple symmetries persists. This recalls the "intermingling" of information characterizing the fractal universe of chaos theory. The result leads to a balanced and perfect tuning between the masses of the two strands of the huge DNA molecule that constitute our genome. We show here how codon populations forming the single-stranded DNA sequences can constitute a critical approach to the understanding of junk DNA function. Then, we suggest revisiting certain methods published in our 2009 book "Codex Biogenesis". In ...
  http://golden-ratio-in-dna.blogspot.ca/2013/08/october-2013-first-proof-that-complete.html
*  Sequence Similarity - 1FGU: SSDNA-BINDING DOMAIN OF THE LARGE SUBUNIT OF REPLICATION PROTEIN A Sequence Similarity...
1FGU: Structure of the major single-stranded DNA-binding domain of replication protein A suggests a dynamic mechanism for DNA binding.
  http://www.rcsb.org/pdb/explore/sequenceCluster.do?structureId=1FGU
*  Federal Circuit holds that claims directed to single-stranded DNA primers and screening methods using those DNA primers were...
The CAFC held that claims directed to single-stranded DNA primers and screening methods using those DNA primers were directed to ineligible subject…
  https://www.lexology.com/library/detail.aspx?g=eec5ffc3-64fb-4854-83f1-0b1d32ee9dbc
*  RCSB PDB - 1EQQ: SINGLE STRANDED DNA BINDING PROTEIN AND SSDNA COMPLEX Structure Summary Page
1EQQ: Roles of functional loops and the C-terminal segment of a single-stranded DNA binding protein elucidated by X-Ray structure analysis
  https://www.rcsb.org/pdb/explore/explore.do?structureId=1eqq
*  Characterization and application to the detection of single-stranded DNA binding protein of fluorescent DNA-templated copper...
A free platform for explaining your research in plain language, and managing how you communicate around it - so you can understand how best to increase its impact.
  https://www.growkudos.com/publications/10.1039%25252Fc1an15258k/reader
*  Processive and Unidirectional Translocation of Monomeric UvsW Helicase on Single-Stranded DNA
Close The Infona portal uses cookies, i.e. strings of text saved by a browser on the user's device. The portal can access those files and use them to remember the user's data, such as their chosen settings (screen view, interface language, etc.), or their login data. By using the Infona portal the user accepts automatic saving and using this information for portal operation purposes. More information on the subject can be found in the Privacy Policy and Terms of Service. By closing this window the user confirms that they have read the information on cookie usage, and they accept the privacy policy and the way cookies are used by the portal. You can change the cookie settings in your browser. ...
  https://www.infona.pl/resource/bwmeta1.element.acs-doi-10_1021_bi801792q
*  The effect of various DNA dyes and enhancers on ssDNA f | Open-i
The effect of various DNA dyes and enhancers on ssDNA fluorescence and dsDNA melting temperature. (A) TNF-1 oligonucleotide (ssDNA, 45.5% GC; 1 μM final concen
  https://openi.nlm.nih.gov/detailedresult.php?img=PMC3102612_1472-6750-11-41-6&req=4
*  Sequence Similarity - 1GVP: GENE V PROTEIN (SINGLE-STRANDED DNA BINDING PROTEIN) Sequence Similarity Report Page
1GVP: Analyses of the stability and function of three surface mutants (R82C, K69H, and L32R) of the gene V protein from Ff phage by X-ray crystallography.
  http://www.rcsb.org/pdb/explore/sequenceCluster.do?structureId=1GVP
*  RCSB PDB - 1GKH: MUTANT K69H OF GENE V PROTEIN (SINGLE-STRANDED DNA BINDING PROTEIN) Macromolecule Annotations Page
1GKH: Analyses of the stability and function of three surface mutants (R82C, K69H, and L32R) of the gene V protein from Ff phage by X-ray crystallography.
  http://www.rcsb.org/pdb/explore/derivedData.do?structureId=1GKH
*  messenger rna
... definition, a single-stranded molecule of RNA that is synthesized in the nucleus from a DNA template and then enters the cytoplasm, where its genetic code specifies the amino acid sequence for protein synthesis. See more.
  http://www.dictionary.com/browse/messenger-rna
*  Plus it
Human Rad52 (hRad52) is similar to ScRad52 structurally and biochemically. hRad52 exists in an oligomeric form, binds ssDNA, promotes ssDNA annealing, and under certain specialized conditions, simulates Rad51-mediated homologous DNA pairing (20). Like ScRad52, hRad52 has conserved the ability to directly interact with RPA (17).. Subsequent studies have examined the N-terminal portion of hRad52 to determine in detail its interaction with ssDNA. Investigation by X-ray crystallography revealed an undecameric (11-subunit) ring structure with a deep groove on the surface that is lined by a vast number of positively charged basic and aromatic residues (21, 22). These hRad52 residues have been shown to be important for ssDNA binding by mutational analysis (22, 23), and deletions of equivalent residues in ScRad52 show deficiencies in DNA repair and homologous recombination (24).. More recently, a second ...
  http://clincancerres.aacrjournals.org/content/18/23/6400
*  Reverse Transcriptases | NEB
Reverse transcriptases can synthesize a complementary DNA strand initiating from a primer using RNA (cDNA synthesis) or single-stranded DNA as a template.
  https://www.neb.com/products/rna-reagents/reverse-transcriptases-and-rt-pcr/reverse-transcriptases-and-rt-pcr/reverse-transcriptases
*  S1 - oi
S1 nuclease (EC 3.1.30.1, ~300 aa) is a fungal nuclease that degrades single-stranded nucleic acids and is preferentially active against DNA. Used experimentally to analyse the structure of DNA:RNA hybrids (S1 nuclease mapping, Berk-Sharp technique), and to remove single-stranded extensions from DNA to produce blunt ends (see restriction endonucleases). ...
  http://oxfordindex.oup.com/view/10.1093/oi/authority.20110803100435272
*  IDT Oligo Analyzer | ProgrammableWeb
Integrated DNA Technologies (IDT) is a company that manufactures and sells oligonucleotides (short, single-stranded DNA or RNA molecules). On their website, they provide the Oligo Analyzer service, which can be used to examine an oligonucleotide (oligo) in a variety of ways. This service is primarily available through a web interface, but the Analyze, Hetero-Dimer, and Self-Dimer functions are also available as SOAP functions. The Analyze service returns physical properties of a given oligo sequence. The Hetero-Dimer examines possible duplexes when one oligo is combined with another. The Self-Dimer reports possible duplexes and their stabilities when an oligo hybridizes with itself ...
  https://www.programmableweb.com/api/idt-oligo-analyzer/frameworks
*  Difference between revisions of "CH391L/S13/BioBricksAndRegistry" - OpenWetWare
For example, to join together two BioBricks, you would first cut both plasmids with restriction enzymes, turning one into an "insert" by getting rid of the rest of the plasmid, and turning the other into a "vector" by opening a space in the plasmid in front of the BioBrick. Because A's always pair with T's and G's always pair with C's, the overhanging edges of single-stranded DNA that your restriction enzymes left behind will match up to make double stranded DNA. You then mix together the insert and vector with a special enzyme called a "ligase" that can join together two broken pieces of DNA. The result is a composite plasmid that contains two BioBricks, now side by side[4][5] [6]. It is important to note that this new larger composite part has the same restriction sites as the smaller parts it was originally made from. This is what is meant by preserving "key structural elements" that allow one component ...
  https://openwetware.org/wiki/?title=CH391L/S13/BioBricksAndRegistry&diff=695950&oldid=695949
*  QuantiFluor® ssDNA System
The QuantiFluor® ssDNA System contains a fluorescent dye that enables sensitive quantitation of small amounts of single-stranded (ssDNA) in solution.
  https://www.promega.com/products/dna-purification-quantitation/dna-and-rna-quantitation/quantifluor-ssdna-system/
*  Order Single-strand DNA | Dharmacon
Use our simple online ordering tool to design and purchase custom oligos containing only deoxy-bases (A,C,T,G) Include various modifications, processing methods, and synthesis scales
  http://dharmacon.gelifesciences.com/custom-dna/
*  Chef'sChoice Trizor XV EdgeSelect Sharpener Gray 15 - Best Buy
CHEF'SCHOICE Trizor XV EdgeSelect Sharpener: 3-stage process; combines the power of the triple-bevel Trizor edge with 15-degree, EdgeSelect technology; converts 20-degree edges, as well as double- and single-bevel edges, into Trizor edges
  https://www.bestbuy.com/site/chefschoice-trizor-xv-edgeselect-sharpener-brushed-metal/4286414.p?skuId=4286414