H-bond acceptor

A fuzzier atom type participating in these descriptors has been defined that is pharmacologically relevant - the physicochemical type at near-neutral pH [24], which is one of the following seven binding property classes 1 = cation 2 = anion 3 = neutral hydrogen-bond donor 4 = neutral H-bond acceptor ... 

H-Bond Acceptor-Donor (HBAD) Phenols Aromatic acids Aromatic amines Alpha H nitriles Iniines Monocarboj hc acids Other monoacids Peracids Alpha H nitros Azines Primary amines Secondary amines n-alcohols Other alcohols Ether alcohols... 

H-Bond Acceptor (HBA) Acyl chlorides Acyl fluorides Hetero nitrogen aromatics Hetero oj gen aromatics Tertiary amides Tertiary amines Other nitriles Other nitros Isocyanates Peroxides Aldehydes Anhydrides Cyclo ketones Ahphatic ketones Esters Ethers Aromatic esters Aromatic nitriles Aromatic ethers Sulfones Sulfolanes... 

H-bond acceptor = H-bond donor = hydrogen atom = methyl group... 

H-bond acceptors carbonyls, ethers, esters, aromatic hydrocarbons, tertiary amines. 

The basic premise of Kamlet and Taft is that attractive solute—solvent interactions can be represented as a linear combination of a nonspecific dipolarity/polarizability effect and a specific H-bond formation effect, this latter being divisible into solute H-bond donor (HBD)-solvent H-bond acceptor (HB A) interactions and the converse possibility. To establish the dipolarity/polarizability scale, a solvent set was chosen with neither HBD nor HBA properties, and the spectral shifts of numerous solvatochromic dyes in these solvents were measured. These shifts, Av, were related to a dipolarity/polarizability parameter ir by Av = stt. The quantity ir was... 

Hydrogen bonds 12-30 0.3 Relative strength is proportional to the polarity of the H bond donor and H bond acceptor. More polar atoms form stronger H bonds. 

Hydrogen bonding in water is cooperative. That is, an H-bonded water molecule serving as an acceptor is a better H-bond donor than an unbonded molecule (and an HgO molecule serving as an H-bond donor becomes a better H-bond acceptor). Thus, participation in H bonding by HgO molecules is a phenomenon of mutual reinforcement. The H bonds between neighboring molecules are weak (23 kj/mol each) relative to the H—O covalent bonds (420 kj/mol). As a consequence, the hydrogen atoms are situated asymmetrically... 

However, an evaluation of the observed (overall) rate constants as a function of the water concentration (5 to 25 % in acetonitrile) does not yield constant values for ki and k2/k i. This result can be tentatively explained as due to changes in the water structure. Arnett et al. (1977) have found that bulk water has an H-bond acceptor capacity towards pyridinium ions about twice that of monomeric water and twice as strong an H-bond donor property towards pyridines. In the present case this should lead to an increase in the N — H stretching frequency in the o-complex (H-acceptor effect) and possibly to increased stabilization of the incipient triazene compound (H-donor effect). Water reduces the ion pairing of the diazonium salt and therefore increases its reactivity (Penton and Zollinger, 1971 Hashida et al., 1974 Juri and Bartsch, 1980), resulting in an increase in the rate of formation of the o-complex (ik ). 

Figure 20.2 Pharmacophore models for P-gp inhibition. A. P-gp inhibition pharmacophore aligned with the potent inhibitor LY335979. B. P-gp substrate pharmacophore aligned with verapamil. C. P-gp inhibition pharmacophore 2 aligned with LY335979. Green indicates H-bond acceptor feature, and cyan indicates hydrophobic feature. See color plate.

From an analysis of the key properties of compounds in the World Dmg Index the now well accepted Rule-of-5 has been derived [25, 26]. It was concluded that compounds are most Hkely to have poor absorption when MW>500, calculated octanol-water partition coefficient Clog P>5, number of H-bond donors >5 and number of H-bond acceptors >10. Computation of these properties is now available as a simple but efficient ADME screen in commercial software. The Rule-of-5 should be seen as a qualitative absorption/permeabiHty predictor [43], rather than a quantitative predictor [140]. The Rule-of-5 is not predictive for bioavail-abihty as sometimes mistakenly is assumed. An important factor for bioavailabihty in addition to absorption is liver first-pass effect (metaboHsm). The property distribution in drug-related chemical databases has been studied as another approach to understand drug-likeness [141, 142]. 

H-bond acceptor enthalpy and free energy thermodynamic Fa, Ca 27... 

Phenol and hexamethylphoshoramide (HMPA) were selected, respectively, as the standard H-bond donor and H-bond acceptor with their values fixed on free energy and enthalpy H-bond scales for phenol, -2.50 for the H-bond donor enthalpy factor (TJ and also for the H-bond donor free energy factor (Ca) for HMPA, 2.50 for the H-bond acceptor enthalpy factor ( J and 4.00 for the H-bond acceptor free energy factor (CJ. 

From 163 calculated H-bond donor and 195 calculated H-bond acceptor factors, one can get enthalpy and free energy values for 31785 reactions using Eqs. (3) and (4). Later, the number of H-bond factor values was significantly increased. A special program for calculating factor values was created and included in the HYBOT (Hydrogen Bond Thermodynamics) program [28, 29]. The current version, HYBOT-2006, has about 20000 values of H-bond acceptor factors and about 5000... 

The satisfactory correlations between Kamlet-Abraham s acidity parameters and H-bond donor free energy factors, and between Kamlet-Abraham s basicity parameters and H-bond acceptor free energy factors for many sets of compounds [26] deserve particular mentioning ... 

Surface area around a molecule where optimum enthalpy of interactions of donor atoms with H-bond acceptor probe is realized [38, 39[ Surface area around a molecule where optimum free energy of interactions of donor atoms with H-bond acceptor probe is realized [38, 39[ Sum of enthalpy values (kcalmof interactions between the acceptor atoms in a molecule and donor probe on OEASA [38, 39[ Sum of enthalpy values (kcalmof interactions between the donor atoms in a molecule and an acceptor probe on OEDSA [38, 39[... 

Since the beginning of the 1980s, two different approaches to quantify the H-bond contribution to properties at the 2D and 3D levels developed independently. The carefully parameterized methodology of HYBOT allows one to take into account the influence of substituents on H-bond acceptor and donor strengths. Modern procedures based on X-ray data of ligand-macro molecular complexes consider the... 

For 31 passively transported dmgs, excellent sigmoidal relationships were found between human intestinal absorption and their H-bond acceptor and donor factors [65] ... 

Usually aquatic toxicity of chemicals with general narcosis mechanism of action is described by the octanol/water partition coefficient [73]. However, log is a composite descriptor which has components of molecular volume and H-bond acceptor terms. Raevsky and Dearden [74] therefore used molecular polarizabihty (as a volume-related term) and the H-bond acceptor factor instead of log to model aquatic toxicity (log LC50) to the guppy for 90 chemicals with general narcosis mechanisms. This excellent correlation has statistical criteria better than that obtained for the same data using log Pofy, ... 

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