Example sentences for: achbp

How can you use “achbp” in a sentence? Here are some example sentences to help you improve your vocabulary:

  • The sequences of AChBP, and of the alpha3, alpha4, alpha7, beta2 and beta4 nAChR monomers were aligned using the ICM multiple sequence alignment algorithm that includes the following steps [ 16 10 ] : 1) pairwise alignment using Needleman and Wunsch algorithm modified to use zero end gap penalties (so called ZEGA) [ 15 16 ] . 2) evolutionary tree construction with a "neighbor-joining algorithm" to determine the order of alignment and calculate relative weights of sequences and profiles from the branch lengths [ 17 ] . 3) traverse the tree from top to bottom, aligning the closest sequences or profiles.

  • The AChBP displays a large amount of homology to the amino terminal of LGIC receptors and thus may be similar in structure [ 20 24 ] . The crystal structure of this protein reveals a loose 3 residue turn incorporating the conserved glycine residue [ 24 ] . Homologous residues in other LGIC subunits have also been identified and are shown in Figure 1. The residues identified in this study as altering binding affinity of 5-HT 3 R ligands would also be present on the same surface if this structure is present in the 5-HT 3 R. While Y140 lies somewhat outside the region identified by Chiara in the nAChR (homologous to γN107), γL109 and γL119 are homologous to Y142 and Y152 of the 5-HT 3AS R. The ability of lerisetron to interact with both Y142 and Y152 also supports the hypothesis that these two amino acids are present in a loop structure since the eight intervening residues would position Y142 and Y152 too far apart to permit them both to interact with a single ligand even if they were interacting with functional groups on opposite ends of the molecule.

  • All nAChR residues within 7A of the putative AChBP binding pocket described by Brejc et al.

  • For each nAChR dimer, two monomer sequences were threaded onto two consecutive subunits of the AChBP crystal structure, based on the multiple sequence alignment, and the energy of the system was locally minimized by the ICM method [ 10 18 ] . The orientation of all polar hydrogens was systematically optimized through conformational space search combined with local minimization.

  • The calculated energies suggest a lower affinity of nicotine for alpha7-alpha7 than for alpha4-beta2, which is in agreement with experiments [ 3 ] . The ligands were also docked to the crystal structure of AChBP (the binding conformation was identical as with nAChRs), and the binding energies calculated.

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