Words similar to docking

Example sentences for: docking

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The adaptor protein Cas has several domains that are important for its function, an SH3 domain, a central substrate domain with up to 15 tyrosines that can serve as tyrosine kinase substrates for upstream kinases such as Src and Abl [ 19 42 43 ] , and a C-terminal Src binding domain with PXXP motifs for binding to the SH3 domain of Src, and two tyrosines providing docking sites for the Src SH2 domain upon phosphorylation [ 6 ] . The substrate domain of Cas has two major types of tyrosine motifs that can be phosphorylated and bind downstream effectors, YQXP (4 copies) and YDXP motifs (9 copies), suggesting that at least two classes of downstream effectors, one capable of binding to YDXP motifs and the other capable of binding to YQXP motifs, are assembled by this adaptor protein.
Protein-ligand docking methods aim to predict the binding energy of the protein-ligand complex given the atomic coordinates.
Docking solutions with ligand all-atom RMSDs within 1.0 Å of each other were clustered together and ranked by the lowest energy representative.
Both CTAP and the gp41 core structure were kept rigid during docking.
5 [ 4 ] . Three binding energy terms were taken into account in the docking step: the van der Waals interaction represented as a Lennard-Jones 12-6 dispersion/repulsion term, the hydrogen bonding represented as a directional 12-10 term, and the Coulombic electrostatic potential.