Journal ArticleDOI
The locus of sequence-directed and protein-induced DNA bending
Hen-Ming Wu,Donald M. Crothers +1 more
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The bending locus of trypanosome kinetoplast DNA, identified by gel electrophoresis, has tracts of a simple repeat sequence symmetrically distributed about it, with a repeat interval of 10 base pairs.Abstract:
The bending locus of trypanosome kinetoplast DNA, identified by gel electrophoresis, has tracts of a simple repeat sequence (CA5–6 T) symmetrically distributed about it, with a repeat interval of 10 base pairs The analogous bending induced when catabolite gene activating protein binds to its recognition sequence near the promoter of the Escherichia coli lac operon is centred on a site about 5–7 base pairs away from the centre of the protein binding siteread more
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Effects of DNA sequence and conformation on nucleosome formation.
TL;DR: A calculation of the elastic free energy required to fold DNA on histone octamers yields quantitative results rationalizing the experimental findings provided that: (i) the average helical repeat of DNA on nucleosomes is greater than 10.2 bp per turn, and poly[dG.dC] adopts an A-type conformation.
Journal ArticleDOI
Analysis of centromere function in Saccharomyces cerevisiae using synthetic centromere mutants.
TL;DR: It is confirmed that CDE I, II, and III alone are sufficient for centromere function and that A+T-rich sequences in CDE II play important roles in mitosis and meiosis, and it is demonstrated that the wild-type orientation of the CDE III sequence, but not theCDE I sequence, is critical for wild- type mitotic segregation.
Journal ArticleDOI
Presence of female-specific bent-repetitive DNA sequences in the genomes of turkey and pheasant and their interactions with W-protein of chicken
TL;DR: W-protein, purified from chicken liver nuclei and shown to bind with high affinity to the XhoI family repetitive unit, also bound with the cloned repetitive units from turkey and pheasant and did not bind to the female-specific 0.4 kb BamHI repetitive unit from the Bobwhite quail.
Journal ArticleDOI
Characterization of the MetR binding sites for the glyA gene of Escherichia coli.
E Lorenz,George V. Stauffer +1 more
TL;DR: To verify that the MetR binding sites play a functional role in glyA expression, site-directed mutagenesis was used to alter the two binding sites in a lambda glyA-lacZ gene fusion phage.
Journal ArticleDOI
Straightening of bulged RNA by the double-stranded RNA-binding domain from the protein kinase PKR
TL;DR: It is found that RNAs containing bulges in the middle of a helix can bind to p20, a C-terminal truncated PKR containing the dsRNA-binding domain, which supports a model in which the helical junction flanking the bulge stacks on protein binding is supported.
References
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Journal ArticleDOI
A rapid boiling method for the preparation of bacterial plasmids
David S. Holmes,Michael Quigley +1 more
TL;DR: A simple and rapid method for preparing plasmids for restriction enzyme analysis has been developed and can be readily adapted for the preparation of plasmid from liter cultures with quantitative yields.
Journal ArticleDOI
Structure of catabolite gene activator protein at 2.9 Å resolution suggests binding to left-handed B-DNA
David B. McKay,Thomas A. Steitz +1 more
TL;DR: The 2.9 Å resolution crystal structure of Escherichia coli catabolite gene activator protein (CAP) completed with cyclic AMP reveals two distinct structural domains separated by a cleft, suggesting that the CAP conversion of right- to left-handed DNA in a closed supercoil, is what activates transcription by RNA polymerase.
Journal ArticleDOI
Bent helical structure in kinetoplast DNA.
TL;DR: It is proposed that this molecule contains a region of systematically bent B-DNA, which accounts for the fragment's difficulty in snaking through the pores of a polyacrylamide gel, its ease in diffusing into Sephacryl beads, and its smaller rotational relaxation time.
Journal ArticleDOI
Genetic regulation: the Lac control region.
TL;DR: Identification of mutant variants of the sequence combined with the in vitro biochemical studies of others has allowed us to tentatively identify the recognition site for each of these proteins, and to suggest how CAP might act at a distance to affect the interaction of RNA polymerase with the promoter.
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Empirical estimation of protein-induced DNA bending angles: applications to λ site-specific recombination complexes
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