README for Figure3D_H_data.csv

*** This file contains the raw data obtained on DNA-HMfA and DNA-HMfB complexes using magnetic tweezers as represented in Figure 3D_H of

Article: Mechanical and structural properties of archaeal hypernucleosomes
Authors: Henneman, Brouwer, Erkelens, Kuijntjes, van Emmerik, van der Valk, Timmer, Kirolos, van Ingen, van Noort, Dame
Journal: Nucleic Acids Research
DOI: 10.1093/nar/gkaa1196
Corresponding authors: rtdame@chem.leidenuniv.nl and noort@physics.leidenuniv.nl

Legend Figure 3) Force spectroscopy experiments on the hypernucleosome reveal stronger stacking in HMfB tethers than in HMfA tethers. A) Force spectroscopy on a HMfB-DNA complex (blue dots) at 100 nM of HMfB reveals three levels of compaction. A bare DNA molecule is shown in yellow dots. We fitted different parts of the curve to a freely-jointed chain (FJC) (I), kinked worm-like chain (WLC) (II), and WLC (III). Fixed  parameters per stacked dimer in regime I: force independent length = 0.5 nm, FJC contour length = 4 nm, length of wrapped DNA = 30 bp.  Fixed parameters for DNA in regime III: contour length = 3646 bp, DNA persistence length = 50 nm, DNA stretch modulus = 900 pN. The release curves overlapped with the stretch curves, which indicates that HMfB-DNA the stretch-release cycle was in equilibrium. B) Comparison between HMfA hypernucleosomes (red dots) and HMfB hypernucleosomes (blue dots). Each curve shows a pulling trace in color and a refolding curve in grey, typically largely obscured by overlap with the pulling curve.  C) Structural models of three states of the HMfB-DNA complex corresponding to the model fit in A, illustrating a 7-fold compaction of the hypernucleosome compared to bare DNA. D-G ) Histogram of fit parameters to equation 10 for HMfA and HMfB complexes.

*** The data were obtained using Magnetic Tweezers as described in the associated article.

*** Data used for generating histograms of figure 3D-G

Column A shows Ndimer (positions of histogram bins)
Column B shows HMfA (number of HMfA dimers)
Column C shows HMfB (number of HMfB dimers)
Column D shows k (pN_nm) (stiffness in pN/nm)
Column E shows HMfA (value of k for DNA-HMfA complex)
Column F shows HMfB (value of k for DNA-HMfB complex)
Column G shows G1 (kT) (stacking energy in kT)
Column H shows HMfA (value of G1 for DNA-HMfA complex)
Column I shows HMfB (value of G1 for DNA-HMfB complex)
Column J shows G2 (kT) (wrapping energy in kT)
Column K shows HMfA (value of G1 for DNA-HMfA complex)
Column L shows HMfB (value of G1 for DNA-HMfB complex)
Column M shows angle (deg) (deflection angle in degrees)
Column N shows HMfA (value of the deflection angle for DNA-HMfA complex)
Column O shows HMfB (value of the deflection angle for DNA-HMfB complex)
