Persistence length of DNA from hydrodynamic measurements

Triebel, Hans; Reinert, K.E.; Strassburger, John

doi:10.1002/bip.360101222

Cited by 32 publications

(14 citation statements)

References 12 publications

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“…It is interesting to note that the distance between the DR2 and core-type sites on attL is w150 bp, 23 which is near the persistence length of DNA (w142 bp). 63 The energetic cost associated with bridging these sites may therefore be sufficiently small that no apparent stabilization by the DNA-bending Tn916 Xis factor can be observed. We also probed the binding of fulllength Tn916 Int and Tn916 Xis to the right arm of the transposon, because it has been proposed that the low transfer frequencies of Tn916 (conjugal transfer occurs at frequencies of 10 K6 to 10 K4 per donor in Gram-positive hosts) may result from repressed excision caused by Tn916 Xis binding to attR.…”

Section: Tn916mentioning

confidence: 99%

The Structure of the Excisionase (Xis) Protein from Conjugative Transposon Tn916 Provides Insights into the Regulation of Heterobivalent Tyrosine Recombinases

Abbani¹,

Iwahara²,

Clubb³

2005

Journal of Molecular Biology

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Section: Tn916mentioning

confidence: 99%

The Structure of the Excisionase (Xis) Protein from Conjugative Transposon Tn916 Provides Insights into the Regulation of Heterobivalent Tyrosine Recombinases

Abbani¹,

Iwahara²,

Clubb³

2005

Journal of Molecular Biology

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“…The titration profiles obtained suggest that formation of protonated GC pairs in GC-rich domains is responsible for stable and pH-reversible acidic structures. By employing a method recently developed for the determination of the parameter as, [24][25] which, under certain conditions, is characteristic for the macromolecular shape, conformational changes of GC-rich DNA could be demonstrated at acidic pH.…”

Section: Introductionmentioning

confidence: 99%

Studies on conformational changes in the DNA structure induced by protonation: Reversible and irreversible acid titrations and sedimentation measurements

Zimmer¹,

Triebel²

1969

Biopolymers

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SynopsisReversible and irreversible conformational changes in the acid-induced denaturation of DNA were studied by spectrophotometric titration, sedimentation, and melting measurements. A GC-rich DNA (72 mole-%) shows complete or partial reversibility of the titration profiles within the pH region of transition from helix to coil, while AT-rich DNA (29 mole-%) is irreversible in its titration behavior a t each acid pH below the onset of the transition. The results for GC-rich DNA further indicate distinct differences in the titration behavior, which can be attributed to differences in the frequency of GC clusters along the UTA molecule. Plots of the sedimentation coefficient arid the parameter ua;p against pH lead to the conclusion that conformational changes occur before the onset of the acid-induced helix-coil transition. These alterations are more pronounced upon protonation of larger GC-rich domains than of smaller ones, as concluded from very marked differences observed in the sedimentation-pH behavior of two GC-rich DXA's. An acid denaturation scheme for a GC-rich DNA segment is suggested. Reversihility of the acid denaturation is explained by the existence of stable, protonated, single GC base pairs in nonprotonated stacked singlestranded domains formed in the acid-induced transition region.

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“…23 For evaluation from viscosity and sedimentation measurements, on the other hand, assumptions about the effective hydrodynamic diameter are required (ranging for DNA between 18 and 80 A). 20 The method of magnetic orientation described here (An/n s* 10" 9 -<*±)(Xn -xJ-PA)^l x10 " 25 erg/T 2 . The main advantage of this method is the possibility to detect small changes of the persistence length with external parameters like ionic strength, pK, and temperature independently from evaluation of An sat .…”

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confidence: 99%