Abstract
This Chapter reviews a recent advance in the quantitative estimation of quantum molecular similarity. In this new approach, molecular similarity and dissimilarity indices are obtained from numerical comparisons of momentum-space electron densities. Many of the problems associated with more conventional position-space procedures are avoided and particular emphasis is placed on the variation of the long-range position-space electron density. The momentum-space approach is particularly suited to problems for which the molecular activity depends less on the details of the bonding topology than on features of the long-range slowly-varying valence electron density.
Momentum-space concepts are not, in general, familiar to the chemist and so we outline first the calculation of momentum-space electron densities, ρ(p), from ab initio wavefunctions. The form of ρ(p) for different molecules is discussed, using as examples (i) the ground state of H2, (ii) bond formation in BH+, and (iii) the π-orbitals in large conjugated polyenes.
The construction and the evaluation of similarity and dissimilarity indices based on ρ(p) are described in some detail. Examples are presented involving the comparison of (i) the total or total valence electron densities of two molecules, (ii) the densities associated with particular molecular fragments or localised molecular orbitals, and (iii) the densities of two molecular orbitals in the same molecule. Results are reported for the model series (a) CH3CH2CH3, CH3OCH3 and CH3SCH3, and (b) C-H and C-F bonds in hydrofluoromethanes. Finally, two studies involving larger systems are presented. In the first, momentum-space similarity indices are used to rationalise anti-HIV1 virology data for a group of phospholipids. The technique proves to have predictive value for such systems. In the second application, a structure-activity relationship is generated for the hyper-polarisabilities of a range of non-centrosymmetric 1,4-substituted benzene derivatives.
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8 References
Williams BG (ed) (1977) Compton scattering. McGraw-Hill, New York
See for example: Brion CE (1986) Int J Quantum Chem 29: 1397
Coulson CA, Duncanson WE (1941) Proc Camb Philos Soc 37: 55, 67, 74, 397, 406
See for example: Epstein IR, Tanner AC (1977) In: Williams, New York; Rawlings DC, Davidson ER (1985) J Phys Chem 89: 969 and references therein
Johnson MA, Maggiora GM (eds) (1990) Concepts and applications of molecular similarity. Wiley, New York
Proceedings from the 1992 Beilstein symposium on similarity in organic chemistry (1992) J Chem Inf Comput Sci 32, no 6
Carbó R, Mezey PG (eds) Molecular similarity and reactivity: From quantum chemical to phenomenological approaches. Kluwer (in press)
See for example: Carbó R, Leyda L and Arnau M (1980) Int J Quant Chem 17: 1185; Carbó R, Domingo L1 (1987) Int J Quant Chem 32: 517; Carbó R, Calabuig B (1992) Int J Quant Chem 42: 1681, 1695
Ponec R, Strnad M (1991) J Phys Org Chem 4: 701; (1992) Int J Quant Chem 42: 501
Hodgkin EE, Richards WG (1987) Int J Quantum Chem Quantum Biology Symp 14: 105; Richards WG, Hodgkin EE (1988) Chem Br 24: 1141; see also Burt C, Richards WG (1990) J Comput-Aided Mol Design 4: 23
Duane-Walker P, Artera GA, Mezey PG (1991) J Comput Chem 12: 220
Cooper DL, Allan NL (1989) J Comput-Aided Mol Des 3: 253
Cooper DL, Allan NL (1992) J Am Chem Soc 114: 4774
Allan NL, Cooper DL (1992) in Ref 6, p 587
Guest MF, Sherwood P (1992) GAMESS-UK User's guide and reference manual, revision B.0; SERC Daresbury Laboratory, UK
Stewart JJP (1990) J Comput-Aided Mol Des 4: 1
Kaijser P, Smith VH Jr (1977) Adv Quant Chem 10: 37
See for example: Allan NL, Cooper DL (1986) J Chem Phys 84: 5594
Cooper DL, Allan NL (1987) J Chem Soc, Faraday Trans 2, 83: 449
Allan NL, Cooper DL (1987) J Chem Soc, Faraday Trans 2, 83: 1675
Cooper DL, Loades SD, Allan NL (1991) J Mol Struct (THEOCHEM), 229: 189
See, for example: Cooper DL, Gerratt J, Raimondi M (1991) Chem Revs 91: 929
Cooper DL, Allan NL, Grout PJ (1989) J Chem Soc, Faraday Trans 2, 85: 1519
Sag TW, Szekeres G (1964) Math Comput 18: 24553
Cioslowski J, Nanayakkara A (1993) J Am Chem Soc 115: 11213
Bader RFW (1987) Atoms in a molecule: A quantum theory. Oxford University Press, Oxford
Dewar MJS, Rzepa HS (1978) J Am Chem Soc 100: 58
Pipek J, Mezey PG (1989) J Chem Phys 90: 4916
Cooper DL, Allan NL, Powell RL (1990) J Fluorine Chem 46: 317; 49: 421
Derwent RG, Volz-Thomas A, Prather MJ (1989) UNEP/WMO Scientific assessment of stratospheric ozone: Appendix, AFEAS Report, AFEAS, ch. 5, p 123
Hampson RF, Kurylo MJ, Sander SP (1989) UNEP/WMO Scientific assessment of stratospheric ozone: Appendix, AFEAS Report, AFEAS, ch 3, p 47
Cooper DL, Allan NL, McCulloch A (1990) Atoms Environ 24A: 2417, 2703; Cooper DL, Cunningham TP, Allan NL, McCulloch A (1990) Atmos Environ 26A: 1331
Cooper DL, Mort KA, Allan NL, Kinchington D, McGuigan C (1993) J Am Chem Soc 115: 12615
McGuigan C, O'Connor TJ, Swords B, Kinchington D (1991) AIDS 5: 1536
Kinchington D, McGuigan C (submitted for publication)
Cheng L, Tam W, Stevenson SH, Meredith GR, Rikken G, Marder SR (1991) J Phys Chem 95: 10631
Matsuzawa N, Dixon DA (1992) Int J Quantum Chem 44: 497
Cooper DL, Mort KA, Allan NL, Measures PT, manuscript in preparation
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© 1995 Springer-Verlag
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Allan, N.L., Cooper, D.L. (1995). Momentum-space electron densities and quantum molecular similarity. In: Sen, K. (eds) Molecular Similarity I. Topics in Current Chemistry, vol 173. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-58671-7_8
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DOI: https://doi.org/10.1007/3-540-58671-7_8
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