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The fraction of native intramolecular (folding) contacts, Qf, was used to monitor the folding process, and the fraction of native intermolecular (binding) contacts, Qb, was used to monitor the binding process.
At neutral pH, lysozyme is positively charged and can thereby perturb and interfere with the native intermolecular amelogenin interactions.
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The yield was not improved when the yscN gene was optimized for E. coli expression and all of the three Cys residues were replaced by Ser to prevent aggregation due to non-native intermolecular disulfide bridge formation.
Structural models generated from the NMR data highlight the native dimer interface and the electrostatic loop as key motifs in forming non-native intermolecular contacts.
Second, there has been an assumption that in native cellulose, intermolecular hydrogen bonds are shorter and therefore have donor O H stretching frequencies lower than those of intramolecular hydrogen bonds.
Although the double-stranded antiparallel β-sheet structure it adopts suggests that the overall conformation of this region is native, the intermolecular contacts (one H-bond between the backbone carbonyl of Pro678 and the nitrogen amide of Met502 main chain, and a hydrophobic interaction between Pro678 and Val525) are both on the β-turn at the apex of the loop.
We considered an encounter complex occurred when the system evolved from an unbound state to a state with Qb>0 (usually had one intermolecular native contact).
By analyzing the Cα distance distribution of intermolecular native contact pairs (Figure 7), we found that a value of σhφ = 5.0 Å is positioned at the lower bound of the distribution.
The electrostatic and Zn-loops as well as strands β1 and β8 are key motifs in forming intermolecular interactions both native and aberrant, as illustrated by the lowest energy structures for the native (A ) and the two non-native dimers (B, C ).
At pH 7.0, the association rate computed for two independent native contacts at an intermolecular distance of 4 Å was 3.8×106 M−1s−1.
To minimize the possibility of disrupting intermolecular interactions within native αSyn multimers or inducing their formation, we avoided the use of detergents during our purification.
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