• genetics
  • Wild type and mutant stocks of Aspergillus nidulans, (with R.W. Barratt and W.N. Ogata), 1965, Genetics 52: 233-234 Purification and characterization of glutamic acid dehydrogenase from Escherichia coli strain K-12. (wikipedia.org)
  • structures
  • The superposition of the 20 lowest-energy structures show that this G-A base pair is well defined by the NMR data, although two conformations with different propeller twists and buckles are observed in the ensemble of structure (Figure 4B). (nih.gov)
  • These two alternative conformations observed in the NMR structures may reflect insufficient NMR restraints and/or conformational dynamics for this base pair. (nih.gov)
  • Nucleic acid design has similar goals to protein design: in both, the sequence of monomers is rationally designed to favor the desired folded or associated structure and to disfavor alternate structures. (wikipedia.org)
  • One of the greatest concerns in nucleic acid design is ensuring that the target structure has the lowest free energy (i.e. is the most thermodynamically favorable) whereas misformed structures have higher values of free energy and are thus unfavored. (wikipedia.org)
  • Sequence symmetry minimization is the oldest approach to nucleic acid design and was first used to design immobile versions of branched DNA structures. (wikipedia.org)
  • amino acid
  • A genetically encoded photocaged amino acid. (biomedsearch.com)
  • This structured region was first discovered in a bioinformatics survey of influenza A based on thermodynamic folding free energy and amino acid codon suppression. (wikipedia.org)
  • Although these oligonucleotides have a different backbone sugar or, in the case of PNA, an amino acid residue in place of the ribose phosphate, they still bind to RNA or DNA according to Watson and Crick pairing, but are immune to nuclease activity. (wikipedia.org)
  • bases
  • Most often, H-phosphonate building blocks are protected at the 5'-hydroxy group and at the amino group of nucleic bases A, C, and G in the same manner as phosphoramidite building blocks (see below). (wikipedia.org)
  • structural
  • Physico-chemical Properties of Nucleic Acids, Volume II basically deals with the structural studies on nucleic acids and other biopolymers. (elsevier.com)
  • However, due to the shifted pKa values that causes the acid-base catalysis, there is a likelihood that it may be caused form the structural environment within the nucleoside. (wikipedia.org)
  • Each conformation places important splicing regulatory sites in different structural environments, which has implications for the modulation of splicing of the segment 7 transcript. (wikipedia.org)
  • The amino acids of these peptides only differ by one (β), two (γ) or three (δ) methylene carbons, yet the structural changes were profound. (wikipedia.org)
  • Investigation of the structural features of nucleic acids. (wikipedia.org)
  • ribozyme
  • Similar to the hairpin ribozyme, the HDV ribozyme functions by acid-base catalysis. (wikipedia.org)
  • The Alt1 disrupts the stem P2 in the active conformation wherein P2 is proposed to have an activating role for both genomic and antigenomic ribozyme. (wikipedia.org)
  • cytosine
  • With support data, the current model of cytosine acting as a general acid within the reaction to donate a proton to the 5'-bridging oxygen. (wikipedia.org)
  • methods
  • However, nucleic acid design has the advantage of being a much computationally simpler problem, since the simplicity of Watson-Crick base pairing rules leads to simple heuristic methods which yield experimentally robust designs. (wikipedia.org)
  • hairpin
  • The hairpin conformation was predicted using RNAalifold, while the pseudoknot was predicted with DotKnot. (wikipedia.org)
  • For example, the splice site, polypyrimidine tract, branch point, and ASF/SF2 exonic enhancer binding sites are expected to be more accessible in the hairpin conformation and less accessible in the pseudoknot (Figure 1). (wikipedia.org)
  • volume
  • Volume II begins with Chapter 10 as continuation of Volume I and discusses the infrared and Raman spectroscopy of nucleic acids and polynucleotides. (elsevier.com)
  • design
  • Almost all nucleic acid design tasks are aided by computers, and a number of software packages are available for many of these tasks. (wikipedia.org)
  • length
  • Sequence symmetry minimization divides the nucleic acid sequence into overlapping subsequences of a fixed length, called the criterion length. (wikipedia.org)