Exact(4)
Snicko, the other TV toy which registers the soundwaves created by fractional contact, was damning, but inadmissible evidence.
The friction model is based on a lubricant film thickness calculation using the Reynolds equation, and a calculation of the fractional contact area based on asperity flattening and roughening.
As seen from Figure 13, first a partial formation of H1 occurs (with fractional contact = 0.83).
An indication that unfolding of D2a might cause further unfolding of Df1 is shown in Fig. 4 B. However, D2b might have a larger influence on Df1 due to the seeming correlation in the fractional contact profiles, with those of the latter lagging behind the former (Fig. 4 E ).
Similar(56)
There were also increased distortions to Df1 helices with loss of regular secondary structures corresponding to the drop of native fractional contacts to a lower value of 0.2.
From our thermal unfolding simulations at 400 K, we found that in cases where the Df1 fractional contacts dropped to and stabilized at ∼0.4 (Fig. 4 E ), the maintenance of the native D2a-ND1 isterface is not common to all.
The unfolding as monitored by fractional contacts do indicate similar profiles for the two domains among 400 K trajectories (data not shown) but the similarity alone might not be a convincing indicator of unfolding cooperativity.
The sole use of fractional contacts to determine whether a (sub domain is denatured does not work well for D2b, as the value can remain >0.1 while loss of secondary structures continues (data not shown).
The further decrease of D2a fractional contacts after 6 ns during the first 400 K trajectory (Fig. 4 B ) could have destabilized Df1 by further extracting the D1-D2 linker from the hydrophobic core: an increase in SASA for L167 and L169 occurred at ∼6 ns but L159 remained buried throughout (data not shown).
The ability of the interface to support high pressure requires high asperity density and size, so it is in conflict with the requirement of low fractional solid liquid contact area for low CAH and slip length.
To capture both aspects of denaturation, we introduce a hybrid metric: the square-root of the product of fractional native contacts and fractional secondary structure content.
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Justyna Jupowicz-Kozak
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