ライフサイエンスコーパス: linking number

1 as the decline of binding stoichiometry with linking number.

2 experiments as a function of temperature and linking number.

3 trand passage then takes place to change the linking number.

4 of the protein for the DNA as a function of linking number.

5 ons, where the coils intertwine with various linking numbers.

6 or link types, disclination lengths and self-linking numbers.

7 l forces and torques, including their global linking numbers.

8 of circular plasmid topoisomers of different linking numbers.

9 alogy with knot theory, that it exhibits the linking number (2, 2, 2), providing a direct determinati

10 the method can provide accurate data on drug linking numbers and positions on each chain, it will be

11 Model predictions for linking numbers and sizes of LacI-DNA loops can be teste

12 on of its length and base-pair sequence, its linking number, and the end conditions imposed by the La

13 From analysis using a sensitive linking number assay, several tryptanthrins, especially

14 We demonstrate that the change in linking number associated with excisive inversion with r

15 ates that the topological constraint of zero linking number between the loops effectively prevents co

16 easuring the equilibrium distribution of the linking number between the strands of circular DNA at di

17 g and wrapping, which in many cases induce a linking number change (Delta Lk) to the DNA-binding site

18 As part of this measurement, the linking number change due to the in vivo-initiated RNA p

19 transcription complex chromatin to yield the linking number change for the complex.

20 Finally, the magnitude of linking number change increases progressively when the 3

21 Several lines of evidence indicate that the linking number change induced by open complex formation

22 The linking number change introduced by the Flp-mediated inv

23 Accordingly, the linking number change of -1.17 measured for the lac UV5

24 The linking number change of the native non-transcribed SV40

25 um ion had little effect on the value of the linking number change, a result that resolves the uncert

26 chromosome was analyzed to determine its DNA linking number change, i.e. the difference between the l

27 ges, we found that temperature-shift-induced linking number changes are not reversible for isolated m

28 iled pUC19 DNA molecules, >50% of which have linking number changes ranging from+8 to+17, is demonstr

29 termined for constrained and non-constrained linking number contributions from the native transcripti

30 n the linker DNA twisting (change in the DNA linking number, DeltaLk = 1), and another caused by over

31 tand the course of extrusion with changes in linking number, DeltaLk, we present a rigorous semiempir

32 ree conformations at subpicoNewton force and linking number densities approximately -0.06.

33 Thus, linking number determinations confirm that sticky DNA ha

34 DNA, each condensin complex constrains a DNA linking number difference (DeltaLk) of -0.4.

35 l ensemble of DNA minicircles with specified linking number difference deltaLk and number N of base p

36 nded DNA: the knot type, K, and DeltaLk, the linking number difference from relaxed DNA.

37 duplex during replication causes a positive linking number difference, or superhelical strain, to bu

38 DNA is defined by the knot type $K$ and the linking-number difference $\Delta Lk$ relative to unknot

39 resonance energy transfer measurements, the linking number distribution known from cyclization assay

40 coupled with the chemical properties of low-linking number DNA and B-DNA respectively, suggest that

41 Low linking number DNA is methylated at the internal purines

42 ling between ADPNP binding and the change in linking number either of positively or negatively superc

43 t manner, as revealed by a change in the DNA linking number in a topoisomerase I-linked reaction.

44 king number, it can increase or decrease the linking number in the presence of a nonhydrolyzable ATP

45 Linking number investigations were performed on a family

46 double-helix structure of DNA and where the linking number is conserved by continuously preventing t

47 orms strand passage always toward increasing linking number, it can increase or decrease the linking

48 Here we report an unusual linking-number (knot theory) invariant associated with l

49 strand of a DNA duplex upon itself fixes its linking number L.

50 lical repeat h(0)b of the bound DNA, and the linking number Lk of the minicircle.

51 herichia coli plasmid pUC19 is comparable in linking number (Lk(0) = 258) and superhelical density (s

52 nce of cascading reductions in the supercoil linking number (Lk), twist (Tw), and writhe (Wr) that fo

53 d assay measured Smc2/4-dependent changes in linking number (Lk).

54 atenanes and determining their topology (the linking number, Lk) through the electrophoretic analysis

55 s (Wr) by exploiting the conservation of the linking number, Lk=Tw+Wr, which reflects topological con

56 iance of the equilibrium distribution of DNA linking number,<(DeltaLk)2>.

57 I, we report here that Nae I-43K changes the linking number of a single negatively supercoiled topois

58 een examined by monitoring the change in the linking number of circular episomes.

59 fic binding site in circular DNA changes the linking number of DNA and unwinds the double helix.

60 e to in vivo temperature changes than is the linking number of DNA in bulk minichromosomes.

61 For example, the linking number of DNA in newly replicated minichromosome

62 ificity of reverse gyrase for increasing the linking number of DNA.

63 purified by this method and the topological linking number of its DNA was compared directly to that

64 showed diminished capacity for reducing the linking number of mini-F and for destabilizing a plasmid

65 a possibility, we looked for changes in the linking number of plasmid pBR322 caused by H1 binding, u

66 on is detected as a reduction in topological linking number of the DNA circle, and the precision of t

67 his non-covalent binding does not change the linking number of the DNA.

68 mber change, i.e. the difference between the linking number of the minichromosomal DNA and that of re

69 cture resulting in a decrease in the average linking number of the plasmid DNA in the cell.

70 y of Topo III, as revealed by changes in the linking number of uncatenated DNA.

71 used phenyl rings identified structures with linking number of zero (ring, saddle, and ribbon shapes)

72 Examples of fused phenyl molecules with linking numbers of 3, 4, 5, and 6 are shown, indicating

73 te degree of intra- and intermolecular cross-linking, number of dNCOs bound, number of different spec

74 arge increase in the linking number (over 10 linking number) of a small fraction (5-15%) of the episo

75 nity dependence on the topology (topological linking number) of supercoiled DNA.

76 Within minutes, a large increase in the linking number (over 10 linking number) of a small fract

77 alues of the chromatin twist modulus and the linking number per stacked nucleosome that were in good

78 In addition, the linking number profiles of both isolated and intracellul

79 Second, the rate of linking number relaxation depends upon its initial parti

80 easure of supercoil relaxation; in fact, the linking number relaxes so fast that it cannot have much

81 The large increase in the plasmid linking number suggests major chromatin structural reorg

82 initiation of duplication is in a stable low linking number supercoiled conformation.

83 characterized by different values of the DNA linking number-that is, they are topologically different

84 guanine methylation is essential for the low-linking number to B-DNA transition and hence for the dea

85 zymes also yielded a tighter distribution of linking number topoisomers than at equilibrium.

86 similar CPT-induced increase in plasmid DNA linking number was observed in Saccharomyces cerevisae e

87 ntally monitored by observing the changes of linking number with sequences and conditions.