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In fact, there is a direct correlation between patterns of hydrogen bonding and the geometry that arise out of them.
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The appearance of some of these elements arises from the periodicity in the patterns of hydrogen bonds between backbone nitrogen and carbonyl groups along the protein polypeptide chain.
The observed bursts could reflect fast conformational transitions that allow the sampling of different patterns of hydrogen bonds between the TtoA strands themselves and the contacting Omp85 strand.
Alpha helices (AH) are peptide fragments characterized by regular patterns of hydrogen bonding between the carbonyl oxygen and amino nitrogen of residues regularly spaced in sequence, resulting in spiral conformations.
The fascinating patterns of hydrogen orbitals that form at different energy levels are static objects, calculated by detailed computer modelling.
All other substructures have unspecified patterns of hydrogen and non-hydrogen atom substitution.
Finally, the presence of ordered water molecules buried within the substrate pocket leads us to conclude that the conserved pattern of hydrogen bonding between the DHFR protein and substrate or inhibitors is essentially preformed, with water molecules serving as placeholders in the "empty" pocket.
For instance, the differences between peptides restricted to H2-Db and H2-Kb can be partially explained based on the pattern of hydrogen bounds generated between the peptide and the MHC molecule in each allele [25] and the presence of a tryptophan residue (Trp73), in the Db molecule [26] (Figure 3).
Upon exchange, the pattern of hydrogen bonding (shown in green) with the adjacent water molecules changes.
As ammonia is allowed to evaporate, new hydrogen bonds are formed which results in a completely new pattern of hydrogen bond cross-linking [ 24].
Bi-dimensional H homonuclear correlation spectroscopy (COSY) was used to identify the pattern of hydrogen signal assignments [ 35].
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