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Since the same intermolecular interaction modes, which govern fluid phase thermodynamics, are also responsible for binding of ligands to receptors, it is most plausible that a σ-based description of of ligand-ligand similarity or of ligand-receptor interactions should be very promising.
The details of the intermolecular contacts in the complex are shown in Figure S4D, with the same intermolecular hydrogen-bonding interaction network as observed in the hSTINGgroup2-DMXAA and hSTINGG230I-DMXAA complexes.
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At the same time, intermolecular interactions seem to be required to have httNT form stable α-helical structure.
In this model, the RNP1 motif initiates the spreading of the immune response to the whole protein (intramolecular spreading), then proceeds in an ordered manner to other proteins containing the RNP1 motif, and finally, to proteins that do not contain any RNP1 motif but are colocalized in the same particle (intermolecular spreading).
In fact, scattering bands at the high frequency range relative to CH stretching modes are not superimposable in the Raman spectra of 1 and 5, even though these crystal forms are assembled with the same molecular conformation and intermolecular packing.
Our structure-based coarse graining ensures that the original and coarse-grained (CG) systems have the same intra- and intermolecular pair correlation functions involving the CG segments (each representing the center-of-mass of a group of consecutive monomers on the same chain in the original system).
When the same residue made both intermolecular contacts, the redundancy was eliminated.
Using the same stringent criteria described above, intermolecular cross-links for the two complexes are also presented in Table 1, and the corresponding MS2 spectra are shown in Figs. S4 and S5.
This suggests that the FNA technique is capable of analyzing multiple intermolecular interactions in the same molecular complex.
Since the filler particles and matrix chains are constructed from the same repeat unit, all of the intermolecular energetic interactions in the system (filler filler, filler matrix, matrix matrix) are identical.
It is interesting to note that the atoms involved in intermolecular hydrogen bonding are the same as those forming similar types of hydrogen bonds with amino acids in protein FimH docking studies as will be shown later.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com