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Overall, there are two possibilities; either the algorithm reaches the bottom level and finds that the new conformation is within the RMSD cutoff of an existing conformer, in which case it is discarded, or else it is of sufficient diversity to be stored at some level of the tree.
In the induced-fit model, substrate binding is believed to induce conformational alterations in the active site to cause a new conformation for the entire enzyme.
The Tokyo String Quartet in its new conformation with Martin Beaver as first violinist plays works by Smetana (Quartet No. 1), Janacek (Quartet No. 1) and Joan Tower ("In Memory").
The addition of zinc at high pH suggested that a new conformation was formed.
In turn, this deprotonation event can stabilize the new conformation of S3.39 relative to D2.50.
Compared to a previous study, one new conformation has been revealed.
Similar(8)
These constructs define a new conformation-sensitive site around residue 189 of GFP and show that GFP may be useful for design of protease-susceptible molecules for monitoring of specific proteolytic activities in vivo.
Starting with the input structure of the molecule of interest, new conformations are created in a continuous MC trajectory.
New conformations due to the rotation of diamine/diacid planes were evidenced by infrared reflection absorption spectroscopy (IRRAS) and polarization modulation IRRAS (PM-IRRAS).
New conformations starting from the X-ray native structure are generated by random perturbations along with a constraint to increase the radius of gyration.
Although the MCC changes induced by including new conformations to the ligand profiles seem to be negligible, the cumulative effect for VS experiments leads to a significant improvement of screening performance by up to 20% (Additional file 4: Figure S4).
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