Analysis of local helix geometry in three B-DNA decamers and eight dodecamers. - Semantic Scholar
Nucleic acids research. *2014. Automatic workflow for the classification of local DNA conformations. *Petr Cech. , Jaromir ... Kinetic Recognition of Nucleic Acids Studies on the DNA Binding Selectivity of Threading Ruthenium Complexes. *pär n0rdell. , ... Balance of Attraction and Repulsion in Nucleic-Acid Base Stacking: CCSD(T)/Complete-Basis-Set-Limit Calculations on Uracil ... A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and ...https://www.semanticscholar.org/paper/Analysis-of-local-helix-geometry-in-three-B-DNA-de-Yanagi-Priv%C3%A9/701831e8dfa9ed234e96c1584371ccef47bd64e2
Difference between revisions of "Wikiomics:RNA secondary structure prediction" - OpenWetWare
A statistical sampling algorithm for RNA secondary structure prediction. Nucleic Acids Res. 2003 Dec 15;31(24):7280-301. PubMed ... Barriers Reads an energy sorted list of conformations of a landscape, and computes local minima and energy barriers of the ... Chiu DK and Kolodziejczak T. Inferring consensus structure from nucleic acid sequences. Comput Appl Biosci. 1991 Jul;7(3):347- ... Knudsen B and Hein J. Pfold: RNA secondary structure prediction using stochastic context-free grammars. Nucleic Acids Res. 2003 ...https://openwetware.org/wiki/?title=Wikiomics:RNA_secondary_structure_prediction&diff=205262&oldid=188243
Secondary structure formation of FRA16B DNA following d | Open-i
Burrow AA, Marullo A, Holder LR, Wang YH - Nucleic Acids Res. (2010) ... Burrow AA, Marullo A, Holder LR, Wang YH - Nucleic Acids Res. (2010) ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC2875025_gkp1245f1&req=4
In vivo restriction. Sequence and structure of endonuclease II-dependent cleavage sites in bacteriophage T4 DNA.
Nucleic Acid Conformation. Restriction Mapping. Substrate Specificity. T-Phages / enzymology*, genetics. Chemical. ...http://www.biomedsearch.com/nih/In-vivo-restriction-Sequence-structure/1744134.html
A faster algorithm for simultaneous alignment and folding of RNA.
Nucleic Acid Conformation. RNA / chemistry*. Sequence Alignment / economics, methods*. Chemical. Reg. No./Substance: 63231-63-0 ...http://www.biomedsearch.com/nih/Faster-Algorithm-Simultaneous-Alignment-Folding/20649420.html
A genetically encoded photocaged amino acid.
Nucleic Acid Conformation. Octanoic Acids / metabolism*. Photochemistry. Proteins / genetics. RNA, Transfer, Amino Acyl / ... alpha-aminocaprylic acid, and the photocaged amino acid, o-nitrobenzyl cysteine, allowing them to be inserted into proteins in ... 0/Methyltyrosines; 0/Octanoic Acids; 0/Proteins; 0/RNA, Transfer, Amino Acyl; 3308-72-3/O-methyltyrosine; 52-90-4/Cysteine; 71- ... we have identified a series of synthetase mutants that selectively charge the amber suppresor tRNA with the C8 amino acid, ...http://www.biomedsearch.com/nih/genetically-encoded-photocaged-amino-acid/15521721.html
Site-specific reverse splicing of a HEG-containing group I intron in ribosomal RNA.
Nucleic Acid Conformation. RNA / metabolism. RNA Splicing*. RNA, Catalytic / genetics*, metabolism. RNA, Ribosomal / chemistry ... Journal ID (nlm-ta): Nucleic Acids Res. Journal ID (publisher-id): Nucleic Acids Research. ISSN: 0305-1048. ISSN: 1362-4962. ... Title: Nucleic acids research Volume: 33 ISSN: 1362-4962 ISO Abbreviation: Nucleic Acids Res. Publication Date: 2005 ... Belfort M.,Roberts R.J.. Homing endonucleases: keeping the house in orderNucleic Acids Res. 1997;25:3379-3388. [pmid: 9254693] ...http://www.biomedsearch.com/nih/Site-specific-reverse-splicing-HEG/15817568.html
The Xist RNA A-repeat comprises a novel AUCG tetraloop fold and a platform for multimerization.
Nucleic Acid Conformation. RNA Folding*. RNA, Long Noncoding. RNA, Untranslated / chemistry*, metabolism. Repetitive Sequences ...http://www.biomedsearch.com/nih/Xist-RNA-repeat-comprises-novel/21947263.html
BioJava: an open-source framework for bioinformatics.
Nucleic Acid Conformation. Programming Languages*. Protein Conformation. Sequence Analysis. Grant Support. ID/Acronym/Agency: ... The Protein Data BankNucleic Acids Res.Year: 20002823524210592235. Pocock M. Computational analysis of genomesPhD thesis.Year: ... The 10 most frequently used are: (1) nucleotide and amino acid alphabets, (2) BLAST parser, (3) sequence I/O, (4) dynamic ... Gapped BLAST and PSI-BLAST: a new generation of protein database search programsNucleic Acids Res.Year: 199725338934029254694. ...http://www.biomedsearch.com/nih/BioJava-open-source-framework-bioinformatics/18689808.html
RAP1 stimulates single- to double-strand association of yeast telomeric DNA: implications for telomere-telomere interactions -...
Nucleic Acid Conformation. DOI:. 10.1093/nar/22.24.5310. Laboratories: PTBIOP. Record appears in:. Scientific production and ...https://infoscience.epfl.ch/record/134289
Synthesis of peptide ribonucleic acid consisting of D- and L-gamma-glutamic acid as a backbone structure.
... which contains 5-amino-5-deoxyribonucleoside as a recognition site for nucleic acids and consists D-glutamic acid (D-PRNA) ... instead of L-glutamic acid (L-PRNA) as a backbone structure, ... A novel nucleic acid model using peptide ribonucleic acid (PRNA ... Glutamic Acid / chemistry*. Hydrogen-Ion Concentration. Nucleic Acid Conformation*. Peptide Nucleic Acids / chemical synthesis ... Title: Nucleic acids symposium series (2004) Volume: - ISSN: 1746-8272 ISO Abbreviation: Nucleic Acids Symp Ser (Oxf) ...http://www.biomedsearch.com/nih/Synthesis-peptide-ribonucleic-acid-consisting/17150461.html
Zinc finger polypeptides capable of binding DNA quadruplexes - Patent # 6492117 - PatentGenius
A G-quartet is therefore any segment of nucleic acid or combination of nucleic acids which is in a four-stranded conformation. ... be transfected with a sufficient amount of the nucleic acid binding protein-encoding nucleic acid to form the nucleic acid ... As used herein, "nucleic acid" refers to both RNA and DNA, constructed from natural nucleic acid bases or synthetic bases, or ... Telomeric nucleic acid refers to nucleic acid comprised in or derived from telomeres of eukaryotic cells. The term therefore ...http://www.patentgenius.com/patent/6492117.html
Protein expression results for the APE2 gene containing | Open-i
Nucleic Acid Conformation. *RNA, Fungal/genetics. *Ribosomal Proteins/genetics. *Saccharomyces cerevisiae Proteins/genetics ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC2536676_1471-2164-9-355-8&req=4
Cell and Cell Constituent Freeze-Drying: Fundamentals and Principles | SpringerLink
Sundaralingam M, Rao St (eds). Structure and conformation of nucleic acids and protein-nucleic acid interactions. Baltimore, ... Effect of water activity on the viability of freeze-dried bifidobacteria and lactic acid bacteria. In: IIR Commission Cl ...https://link.springer.com/chapter/10.1007/978-1-4613-1515-5_3
Comparison of box C/D snoRNA expression patterns in nor | Open-i
Nucleic Acids Res. (2014) ... Nucleic Acid Conformation. *Ovarian Neoplasms/genetics/ ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC4150776_gku664fig1&req=4
Formation of a cis WC/WC G9-A20 base pair in the A730 l | Open-i
Desjardins G, Bonneau E, Girard N, Boisbouvier J, Legault P - Nucleic Acids Res. (2011) ... although two conformations with different propeller twists and buckles are observed in the ensemble of structure (Figure 4B). ... Desjardins G, Bonneau E, Girard N, Boisbouvier J, Legault P - Nucleic Acids Res. (2011) ... although two conformations with different propeller twists and buckles are observed in the ensemble of structure (Figure 4B). ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC3105416_gkq1244f4&req=4
Global DNA bending about HG bps (A) Definition of H1 an | Open-i
Zhou H, Hintze BJ, Kimsey IJ, Sathyamoorthy B, Yang S, Richardson JS, Al-Hashimi HM - Nucleic Acids Res. (2015) ... Zhou H, Hintze BJ, Kimsey IJ, Sathyamoorthy B, Yang S, Richardson JS, Al-Hashimi HM - Nucleic Acids Res. (2015) ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC4402545_gkv241fig5&req=4
Biology | Biochemistry | Amherst College
Additional topics may include: nucleic acid conformation, DNA/protein interactions, signal transduction and transport phenomena ... Protein conformation, enzymatic mechanisms and selected metabolic pathways will be analyzed. ...https://www.amherst.edu/academiclife/departments/courses/0708S/BIOL/BIOL-30-0708S
Courses | 2013 Spring | Amherst College
Additional topics may include: nucleic acid conformation, DNA/protein interactions, signal transduction and transport phenomena ... amino acids and proteins, advanced synthesis, and acid-base catalysis in nonenzymatic and enzymatic systems. The laboratory ... We will explore how bonding plays a central role in assembling simple biological building blocks such as sugars, amino acids, ... Protein conformation, enzymatic mechanisms and selected metabolic pathways will be analyzed. ...https://www.amherst.edu/academiclife/departments/chemistry/courses/1213S?display=curriculum
Characterization of the SeqAΔ(41-59)-A25R mutant. (a | Open-i
Chung YS, Brendler T, Austin S, Guarné A - Nucleic Acids Res. (2009) ... Chung YS, Brendler T, Austin S, Guarné A - Nucleic Acids Res. (2009) ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC2691817_gkp151f1&req=4
The most stable structure for a viroid from the genus C | Open-i
Nucleic Acid Conformation*. *RNA, Viral/chemistry*/genetics. *Viroids/classification*/genetics*. Minor. *Base Sequence ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC4045682_pone.0098655.g003&req=4
Co-adsorption of guanine and cytosine at the 1-octanol/ | Open-i
In this review article we will introduce the study of nucleic acid base self-assembly by scanning tunneling microscopy (STM) at ... In this review article we will introduce the study of nucleic acid base self-assembly by scanning tunneling microscopy (STM) at ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC3958828_ijms-15-01901f4&req=4
RNase I overdigestion of 5′- and 3′-end-labeled SLI | Open-i
Nucleic Acid Conformation. *RNA, Bacterial/chemistry/metabolism. *RNA, Messenger/chemistry/metabolism. *Ribonuclease, ... Arthur DC, Edwards RA, Tsutakawa S, Tainer JA, Frost LS, Glover JN - Nucleic Acids Res. (2011) ... Arthur DC, Edwards RA, Tsutakawa S, Tainer JA, Frost LS, Glover JN - Nucleic Acids Res. (2011) ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC3105414_gkr025f5&req=4
Secondary structure probing of the SR1/ahrC complex. (A | Open-i
Heidrich N, Moll I, Brantl S - Nucleic Acids Res. (2007) Bottom Line: The secondary structures of SR1 species of different ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC1935000_gkm439f3c&req=4
Single incorrect nt incorporation and K65R production r | Open-i
Nucleic Acid Conformation. Related in: MedlinePlus. © Copyright Policy Related In: Results - Collection ...https://openi.nlm.nih.gov/detailedresult.php?img=PMC3105016_pone.0020208.g005&req=4