| Literature DB >> 28335484 |
Abstract
Intramolecular hydrogen bonding (HB) is one of the most studied noncovalent interactions of molecules. Many physical, spectral, and topological properties of compounds are under the influence of HB, and there are many parameters used to notice and to describe these changes. Hitherto, no general method of measurement of the energy of intramolecularEntities:
Keywords: HOMA; MTA; RAHB; intramolecular hydrogen bond
Mesh:
Substances:
Year: 2017 PMID: 28335484 PMCID: PMC6155192 DOI: 10.3390/molecules22030481
Source DB: PubMed Journal: Molecules ISSN: 1420-3049 Impact factor: 4.411
Harmonic Oscillator Model of Aromatic stabilization (HOMA) and quasiHOMA indices and energy of the hydrogen bond (kcal/mol), calculated for unsubstituted ortho-hydroxycarbonyl compounds, substituted ortho-hydroxyaldehydes, substituted hydroxyketones and acids.
| Unsubstituted | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| No | R1 | HOMA | quasiHOMA | EHB a | Ref. | ||||
| H | 0.953 | 0.332 | 7.9 | 8.37 [ | |||||
| Me | 0.940 | 0.180 | 8.6 | 16.4 [ | |||||
| Ph | 0.937 | 0.187 | 8.2 | 6.52, 5.64, 5.47 [ | |||||
| OH | 0.953 | 0.211 | 6.8 | 10.95 [ | |||||
| OMe | 0.954 | 0.160 | 7.1 | 12.28 [ | |||||
| OEt | 0.954 | 0.151 | 7.2 | ||||||
| OPh | 0.952 | 0.174 | 7.0 | 6.4 [ | |||||
| NH2 | 0.950 | 0.090 | 8.6 | 15.42 [ | |||||
| NHMe | 0.956 | 0.047 | 8.1 | 16.0 [ | |||||
| NHPh | 0.949 | 0.035 | 8.0 | ||||||
| N(Me)2 | 0.960 | 0.001 | 7.8 | ||||||
| SH | 0.947 | 0.200 | 7.0 | 11.34 [ | |||||
| SMe | 0.946 | 0.175 | 7.2 | 12.39 [ | |||||
| F | 0.952 | 0.204 | 5.7 | 10.13 [ | |||||
| Cl | 0.937 | 0.189 | 5.7 | 9.64 [ | |||||
| Br | 0.934 | 0.176 | 5.5 | ||||||
| CN | 0.935 | 0.369 | 6.6 | 10.97 [ | |||||
| NO2 | 0.942 | 0.347 | 5.4 | 9.68 [ | |||||
| H | H | Me | H | H | 0.948 | 0.339 | 7.9 | 15.00 [ | |
| H | H | OHtrans | H | H | 0.956 | 0.300 | 7.6 | 8.17 [ | |
| H | H | OHcis | H | H | 0.952 | 0.332 | 7.9 | 8.69 [ | |
| H | H | NH2 | H | H | 0.948 | 0.321 | 7.7 | 14.15 [ | |
| H | H | N(Me)2 | H | H | 0.929 | 0.323 | 7.7 | 14.85 [ | |
| H | H | F | H | H | 0.954 | 0.310 | 7.8 | 9.650 [ | |
| H | H | Cl | H | H | 0.959 | 0.314 | 7.8 | 15.23 [ | |
| H | H | Br | H | H | 0.959 | 0.402 | 7.8 | 15.31 [ | |
| H | H | C(O)H | H | H | 0.951 | 0.294 | 7.7 | ||
| H | H | H | C(O)H | H | 0.942 | 0.321 | 7.9 | ||
| H | H | NO2 | H | H | 0.960 | 0.302 | 8.0 | 8.28 [ | |
| H | H | H | Me | H | 0.948 | 0.352 | 8.1 | 10.679 [ | |
| H | H | H | OH | H | 0.953 | 0.399 | 8.7 | 8.55 [ | |
| H | H | H | OMe | H | 0.948 | 0.371 | 8.1 | ||
| H | H | H | NH2 | H | 0.938 | 0.412 | 8.7 | 11.276 [ | |
| H | H | H | N(Me)2 | H | 0.897 | 0.427 | 8.8 | 11.13 [ | |
| H | H | H | F | H | 0.958 | 0.365 | 8.3 | 9.93 [ | |
| H | H | H | Cl | H | 0.957 | 0.359 | 8.1 | 10.722 [ | |
| H | H | H | Br | H | 0.957 | 0.357 | 8.0 | 10.685 [ | |
| H | H | H | NO2 | H | 0.953 | 0.330 | 7.9 | 7.91 [ | |
| H | H | F | H | F | 0.953 | 0.334 | 7.8 | 6.38 [ | |
| H | F | H | F | H | 0.950 | 0.369 | 8.9 | 10.47 [ | |
| H | OH | H | OH | 0.944 | 0.418 | 9.4 | |||
| H | OH trans | H | H | H | 0.945 | 0.339 | 8.6 | 12.57 [ | |
| H | -O-(CO)-CH=CH- | H | H | 0.929 | 0.339 | 8.9 | |||
| H | OH | C(O)H | OH | C(O)H | 0.884 | 0.494 | 11.3 | triformylphloroglucinol | |
| H | H | H | NH3+ | H | 0.954 | 0.224 | 8.1 | ||
| H | H | NH3+ | H | H | 0.946 | 0.257 | 8.1 | 16.88 [ | |
| H | H | H | O- | H | 0.504 | 0.081 | 10.5 | ||
| H | H | O- | H | H | 0.696 | 0.263 | 7.7 | 12.36 [ | |
| H | enolic tautomer of | -0.022 | 0.631 | 18.3 | |||||
| Me | OHcis | H | H | H | 0.881 | 0.128 | 8.4 | ||
| Me | OHtrans | H | H | H | 0.906 | 0.086 | 9.3 | ||
| Me | OMetrans | H | H | H | 0.887 | 0.099 | 9.4 | ||
| Me | OH | H | Me | H | 0.909 | 0.130 | 9.6 | ||
| Me | H | H | OHtrans | H | 0.942 | 0.267 | 9.4 | ||
| Me | H | H | OMecis | H | 0.938 | 0.234 | 8.8 | ||
| Me | H | H | -CH2CH=CHCH2- | 0.928 | 0.215 | 9.2 | |||
| Ph | H | H | OMecis | H | 0.933 | 0.250 | 8.5 | 7.19, 7.8, 8.5 [ | |
| Ph | H | Cl | Me | H | 0.942 | 0.194 | 8.3 | ||
| CH=CH-Ph | H | H | H | H | 0.927 | 0.164 | 9.2 | ||
| CH=CH-Ph | OMe | H | OMe | H | 0.891 | 0.256 | 9.9 | chalcone | |
| CH=C(OH)Ph | H | H | H | H | 0.931 | 0.184 | 8.0 | ||
| ( | H | H | H | H | 0.939 | 0.176 | 6.4 | ||
| -CH2-CH2- | H | H | H | 0.978 | 0.314 | 7.2 | |||
| -CH2-CH(OH)-CH2‑ | H | H | H | 0.929 | 0.220 | 8.8 | vermelone c | ||
| -CH=CH-O- | H | H | H | 0.948 | 0.328 | 9.0 | |||
| -CH2-CH(OH)-CH2- | H | OH | H | 0.935 | 0.345 | 9.4 | scytalone c | ||
| -CH2-CH(OH)-CH2- | H | OH | H | 0.932 | 0.312 | 9.6 | scytalone c | ||
| -CH2-CH2-C=O | OH | H | H | 0.875 | 0.327 | 9.6 | |||
| -(CH=CH)-C=CH2 | OH | H | H | 0.920 | 0.239 | 8.8 | |||
| Me | OH | H | OH | H | 0.906 | 0.192 | acetylphloroglucinol | ||
| Me | OH | C(O)Me | OH | C(O)Me | 0.774 | 0.303 | 13.1 | triacetylphloroglucinol | |
| OH | H | F | H | H | 0.955 | 0.196 | 7.0 | 10.89 [ | |
| OH | H | Cl | H | H | 0.959 | 0.197 | 6.9 | 10.76 [ | |
| OH | H | Br | H | H | 0.959 | 0.198 | 6.9 | 10.94 [ | |
| enolic tautomer of | −0.044 | 0.635 | 21.9 | ||||||
a all EHB were given as positive values; b described in [25] as compound 170; c scytalone isomers OH 60deg and 175deg; vermelone [35]; d described in [25] as compound 171.
HOMA and quasiHOMA indices and energy of hydrogen bond (kcal/mol) calculated for hydrogen bonding (HB) ring in substituted hydroxynaphthoquinones structures; common names of some natural products and the cited energetic data were given in the last column.
| No | R1 | R2 | R3 | R4 | R5 | HOMA | quasiHOMA | EHB | Common Name and Ref. |
|---|---|---|---|---|---|---|---|---|---|
| H | H | H | H | H | 0.938 | 0.313 | 8.3 | juglone | |
| H | CH3 | H | H | H | 0.943 | 0.317 | 8.7 | plumbagin | |
| H | (CH2)3COOH | H | H | H | 0.942 | 0.322 | 8.5 | ||
| H | NH(CH2)2COOH | H | H | H | 0.946 | 0.207 | 9.9 a | juglonbutin | |
| CH2-COOH | OH | H | H | H | 0.944 | 0.290 | 8.5 b | grecoketide | |
| CH2-COOH | OH | H | H | H | 0.945 | 0.283 | 8.5 c | grecoketide | |
| CH2-COOH | OH | H | H | H | 0.936 | 0.253 | 8.8 d | grecoketide | |
| CH2CH=C(CH3)2 | OH | H | H | H | 0.943 | 0.226 | 9.3 e | hydroxylapachol | |
| CH2CH=C(CH3)2 | OH | H | H | H | 0.945 | 0.260 | 8.7 f | hydroxylapachol | |
| H | (1,3-diOH)Ph | H | H | H | 0.946 | 0.330 | 8.9 | juglone | |
| -O-C(CH3)2-(CH2)2- | H | H | H | 0.942 | 0.325 | 8.4 | caryopterone | ||
| H | H | OH | H | H | 0.885 | 0.429 | 10.5 | naphthazarin 13.0 [ | |
| CH2-CO-CH3 | CH3 | OH | H | OCH3 | 0.868 | 0.524 | 11.7 g | javanicin | |
| 0.868 | 0.543 | 11.8 | |||||||
| Cl | H | OH | H | H | 0.883 | 0.437 | 10.3 g | 13.5, 14.0 [ | |
| 0.883 | 0.450 | 10.7 | |||||||
| H | H | OH | Cl | H | 0.883 | 0.450 | 10.3 g | 13.9, 11.2 [ | |
| 0.883 | 0.441 | 10.7 | |||||||
| Cl | Cl | OH | H | H | 0.884 | 0.466 | 10.6 | 12.8 [ | |
| H | H | OH | Cl | Cl | 0.823 | 0.453 | 10.6 | 11.8 [ | |
| Cl | H | OH | H | Cl | 0.881 | 0.451 | 10.4 g | 10.6, 13.8 [ | |
| 0.881 | 0.474 | 10.6 | |||||||
| H | Cl | OH | H | Cl | 0.880 | 0.461 | 10.9 g | 13.3, 11.2 [ | |
| 0.880 | 0.464 | 10.2 | |||||||
| Cl | Cl | OH | Cl | H | 0.880 | 0.489 | 10.6 g | 10.7, 13.4 [ | |
| 0.880 | 0.481 | 11.0 | |||||||
| Cl | H | OH | Cl | Cl | 0.874 | 0.490 | 10.5 g | 10.6, 11.3 [ | |
| 0.874 | 0.497 | 10.8 | |||||||
| Cl | Cl | OH | Cl | Cl | 0.874 | 0.513 | 10.7 | 11.2 [ | |
| 4,8-dihydroxynaphtho-1,5-quinone | 0.513 | 0.622 | 19.32 | ||||||
a additional EHB NH to =O4 5-membered 12.6 kcal/mol and NH to carboxylic =O 6-membered 0.5 kcal/mol; b additional EHB R2(O-H) to R1(OH) 7-membered 3.9 kcal/mol; c additional EHB R2(O-H) to R1(C=O) 7-membered 6.7 kcal/mol; d additional EHB R1 (carboxylic OH) to R2 8-membered 4.7 kcal/mol; e additional EHB R2(OH) to O4 5-membered 8.41; f additional EHB R2(OH) to C=C in R1 substituent 4.5 kcal/mol; g two HB, not identical because of Cl position.
HOMA and quasiHOMA indices and energy of hydrogen bond (kcal/mol) calculated for HB rings in substituted hydroxyanthraquinones.
| No | R1 | R2 | R3 | R4 | R5 | R6 | R7 | HOMA | quasiHOMA | EHB |
|---|---|---|---|---|---|---|---|---|---|---|
| H | H | H | H | H | H | H | 0.929 | 0.301 | 8.8 a | |
| H | H | H | H | H | H | OH | 0.939 | 0.310 | 10.0 | |
| H | H | H | OH | H | H | H | 0.933 | 0.316 | 9.1 b | |
| H | H | H | H | OH | H | H | 0.872 | 0.404 | 10.5 c | |
| OH | H | H | H | H | H | H | 0.927 | 0.344 | 7.6 | |
| OH | H | H | OH | OH | H | H | 0.870 | 0.448 | 9.9 | |
| OH | OH | H | H | OH | H | H | 0.740 | 0.366 | 9.3 d | |
| 0.870 | 0.458 | 9.5 d | ||||||||
| 0.870 | 0.388 | 11.5 d | ||||||||
| H | OH | COOH | CH3 | OH | H | OH | 0.871 | 0.518 | 11.6 e | |
| 0.871 | 0.448 | 10.9 e | ||||||||
| 0.881 | 0.024 | 5.6 e | ||||||||
| H | H | H | H | R5=O, R10=OH | H | H | 0.420 | 0.561 | 14.9 | |
| 0.132 | 0.671 | 22.1 | ||||||||
a EHB = 13.36 kcal/mol in [58]; b anthrarufin; c quinizarin; d quinalizarin; three HB: two chelated to O9 and one to O10, add. 5-membered ring R2(O-H) to R1(O-H) 2.6 kcal/mol in cooperation; e carmin acid without glicoside; two HB to O9 and O10; add. R2(O-H) to R3(C=O) 6-membered ring 5.6 kcal/mol.
Scheme 1General principles of molecular tailoring approach (MTA) fragmentation.
Figure 1The EHB (in red) and selected geometric parameters of salicylaldehyde 1, N,N-dimethylsalicylamide 11 and 2-hydroxy-4-hydrylidylbenzaldehyde 47 as well as their essential resonance structures; HOMA and quasiHOMA (in blue) values were given in relevant rings.
Figure 2The transfer of aromaticity in triformyloglucinol 44 and triacetylphloroglucinol 70 from the ipso-ring to the enolic system. Values of quasiHOMA (in blue) and EHB (in red) were given in the centre of the HB-ring, whereas the HOMA value was given in the ipso-ring.
Energy of hydrogen bond (kcal/mol) as well as HOMA and quasiHOMA indices calculated for HB rings for some biological active phenols.
| No | Name (Customary Name) | HOMA | quasiHOMA | EHB | Ref. |
|---|---|---|---|---|---|
| 2-hydroxy-6-methyl [(1 | 0.914 | 0.163 | 5.5 che | ||
| 5-hydroxy-2,2-dimethyl-8 | 0.990 | 0.205 | 5.6 | ||
| 1,8-dihydroxyfluoren-9-one | 0.954 | 0.218 | 5.8 che | ||
| 1-hydroxyfluoren-9-one | 0.960 | 0.169 | 6.7 | ||
| 1,8-dihydroxy-9,10-dihydroanthracen-9-one (dithranol) | 0.930 | 0.286 | 7.3 che | ||
| 1,8-dihydroxy-9 | 0.939 | 0.422 | 7.4 che | ||
| 8-hydroxy-2-(1-hydroxyethylene)-3,6-dimethyl-1(2 | 0.900 | 0.412 | 7.6 che | 9.5 [ | |
| 8-hydroxy-2-(1-hydroxyethylene)-1(2 | 0.885 | 0.397 | 7.7 che | ||
| 2,3-dihydro-2,5-dihydroxy-4 | 0.939 | 0.310 | 8.2 | ||
| 3,5,7-trihydroxy-2-(4-hydroxyphenyl)-3,5,7-trihydroxy-4 | 0.943 | 0.529 | 8.3 che | ||
| 2-(3,4-dihydroxyphenyl)-3,5,7-trihydroxy-4 | 0.944 | 0.528 | 8.4 | ||
| (1 | 0.937 | 0.385 | 8.7 che | ||
| 1-hydroxy-9 | 0.788 | 0.366 | 8.7 | ||
| 9(10 | 0.921 | 0.452 | 8.8 che | 4.97 [ | |
| 7-hydroxy-2,2-dimethyl-3,4-dihydro-2 | 0.933 | 0.363 | 9.3 | ||
| 5-hydroxy-4 | 0.952 | 0.347 | 9.3 | ||
| 2-(3,4-dihydroxyphenyl)-5,7-dihydroxy-4-chromenone (luteolin) | 0.944 | 0.398 | 9.8 | ||
| 7,8-dihydroxy-3-methyl-10-oxo-1 | 0.744 | -0.263 | 15.4 | ||
| 5,7-dihydroxy-3-(4-hydroxyphenyl)chromen-4-one (genistein) | 0.941 | 0.392 | 10.0 | ||
| 5-hydroxy-4-quinolon | 0.921 | 0.299 | 11.1 | 5.7 [ | |
| 2,3-dihydro-9,10-dihydroxy-1,4-anthracenedione (leucoquinizarin) | 0.692 | 0.434 | 11.2 | ||
| 2,6-diacetyl-7,9-dihydroxy-8,9b-dimethyl-1,3(2 | 0.902 | 0.204 | 9.9 | 20.1 [ |
che indicates a carbonyl chelated hydrogen bonding.
Figure 3The transfer of aromaticity from ipso-ring to the enolic system in naphthazarin. Values of quasiHOMA (in blue) and EHB (in red) were given in the centre of the hydrogen bonded ring, whereas the HOMA value was given in the ipso-ring.
Figure 4The transfer of aromaticity from ipso-ring to the enolic system. Values of quasiHOMA (in blue) and EHB (in red) were given in the centre of the hydrogen bonded ring, whereas the HOMA value was given in the ipso-ring.
Figure 5The energies, harmonic oscillator model of aromaticity HOMA and quasiHOMA indices for stable conformers of anhydrofulvic acid 119 (top) and usinic acid 123 (bottom). Values of quasiHOMA (in blue) and EHB (in red) were given in the centre of the hydrogen bonded ring, whereas the HOMA value was given in the ipso-ring.
Figure 6The relations between the calculated energy of intramolecular hydrogen bond EHB (kcal/mol) and some geometrical, spectral and topological parameters of one hundred twenty five investigated hydroxycarbonyl compounds : (A) length of H bonding rHB (Å); (B) angle of O-H∙∙∙O ØHB (deg); (C) length of O-H bond dOH (Å); (D) O∙∙∙O distance dO∙∙∙O (Å); (E) frequency of O-H νOH (cm-1); (F) chemical shift of O-H hydrogen δH (ppm), (G) electron density in hydrogen bond critical point ρBCP (au); (H) electron density in ring critical point ρRCP (au); (I) comparison of EHB values calculated in the framework of this study and EHB calculated based on Espinosas’ equation () [27] in relation to length of H bonding rHB (Å); (J) comparison of EHB values calculated in the framework of this study and EHB calculated based on Afonins’ equation ( ) [28] in relation to length of H bonding rHB (Å).