Biomedical subjects
Publications and source records attributed to U Norinder.
An experimental design based 3-D QSAR analysis using a combination of principal component and PLS analysis is presented and applied to human corticosteroid-binding globulin complexes. The predictive capability of the created model is good. The technique can also be used as guidance when selecting new compounds to be investigated.
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The conformational characteristics of two series of 5-hydroxytryptamine (5-HT) receptor agonists, monophenolic N,N-dialkylated 2-aminotetralins and trans-2-phenylcyclopropylamines, have been studied by a combination of experimental (NMR spectroscopy) and theoretical (molecular mechanics and MNDO calculations) methods. In addition, molecular electrostatic potentials have been calculated for selected conformations and the absolute configuration of the potent 5-HT-receptor agonist (+)-cis-8-hydroxy-1-methyl-2-(di-n-propylamino)tetralin has been determined, by X-ray crystallography of the synthetic precursor, to be 1S,2R. Results obtained are discussed in terms of conformational, steric, and electronic requirements for 5-HT-receptor activation. It is suggested that different conformations of the 5-HT-receptor agonists (1R,2S)-2-(2-hydroxyphenyl)-N,N-di-n-propylcyclopropylamine [(1R,2S)-4] and its 3-hydroxy isomer (1R,2S)-5 are able to activate 5-HT receptors. The strongly increased stereoselectivity of 2, 4, and 5 as compared to that of 8-hydroxy-2-(di-n-propylamino)tetralin (8-OH-DPAT; 1) is rationalized on the basis of steric factors. Conformational factors appear to be responsible for the inability of the trans-C1-methyl-substituted derivative of 1 to activate 5-HT receptors.
The structure of the potent dopamine-D2 antagonist, raclopride, (S)-3,5-dichloro-N-[(1-ethyl-2-pyrrolidinyl)methyl]-6-methoxysalicylamid e (+)-tartrate, has been determined by X-ray crystallography. The benzamide moiety of raclopride is planar in accordance with other salicylamides (FLA 797 and eticlopride). The planar conformation is stabilized by two intramolecular hydrogen bonds, i.e. one between the amide hydrogen and the methoxy group and one between the phenol hydrogen and the carbonyl group. The side-chain of raclopride has an extended conformation in contrast to the solid state conformations of FLA 797 and eticlopride. The side-chain conformations were studied by rigid rotations followed by MM2PI relaxations of the eight local minima found. Small energy differences (less than 4.0 kcal mol-1) exist between the various extended and folded conformations. Based on modelling studies with piquindone as template, it is suggested that the salicylamides with N-ethyl-2-pyrrolidinylmethyl side-chains interact with the dopamine-D2 receptor in a folded or a half-folded conformation.
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A simple and computationally nonintensive technique based on principal component analysis of 3-dimensional fields to derive theoretical descriptors is presented. The descriptors are then applied to a quantitative structure-activity relationship study on bradykinin potentiating pentapeptides.
Modeling of the calculated polar surface area of drugs with rapidly derived descriptors (i.e., the number of hydrogen bonds accepting oxygen and nitrogen atoms and the number of hydrogen atoms bonded to these) using partial least squares projection to latent structures (PLS) analysis is described. The statistical analysis showed strong relationships between the hydrogen-bonding descriptors and the calculated polar surface area of five chemically diverse sets of drugs (R2>0.93 and Q2>0.69, n = 11, 20, 45, 70, and 74, respectively). The statistical models (using H-bonding descriptors and log P) of transport across Caco-2 cells (n = 11), brain-blood partitioning (two data sets, n = 45 and 70) and percent intestinal absorption (n = 20) showed R2 = 0.92, 0.72, 0.76, and 0.81 and Q2 = 0.74, 0.75, 0.71, and 0.73, respectively. The inclusion of log P improved two models, had no effect on one model, and had a slightly negative impact on one model. The combination of H-bonding descriptors with log P is similar to the Lipinski "rule-of-five" mnemonic. However, by using a multivariate statistical method (e.g., PLS), the prediction becomes quantitative instead of qualitative. Good statistical models were derived which permit fast computational screening and prioritization of virtual compound libraries.
This article represents a minireview of work published so far in the 21st century in the in silico ADMET field of research related to investigations in the areas of solubility, hERG and cytochrome P450 3A4. Various approaches including 2D- and 3D-QSARs and pharmacophore modelling are discussed. The pros and cons of the methods used and models derived are examined. More general remarks on model development and validation are also reported.