Abstract
In this work the use of molecular electrostatic potential (MEP) maps for similarity studies is reviewed in light of the latest results. First, methods of obtaining MEP maps is overviewed. The methodology, reliability and the efficiency of calculations based on semi-empirical as well as ab initio methods are discussed in detail. Point-charge models and multipole expansion methods which provide MEP maps of satisfactory quality are evaluated critically. Later on, similarity indices of various kinds are analyzed, compared and examples of their use are shown. Finally, the last section lists and summarizes software packages capable of calculating MEP map based similarity indices.
This is a preview of subscription content, log in via an institution.
Preview
Unable to display preview. Download preview PDF.
6 References
Johnson MA, Maggiora GM (eds) (1990) Concepts and applications of molecular similarity. John Wiley and Sons, New York
Richards WG (1989) Computer-aided molecular design. IBC Technical Services, London
Náray-Szabó G (1989) J Mol Graphics 7: 76
Dean PM (1987) Molecular foundations of drug-receptor interaction. Cambridge University Press, Cambridge
Scrocco E, Tomasi J (1978) Adv Quantum Chem 11: 115
Westbrook JD, Levy RM, Krogh-Jespersen K (1992) J Comp Chem 13: 979
Weinstein H, Politzer P, Srebrenik S (1975) Theor Chim Acta 38: 159
Sen KD, Politzer P (1989) J Chem Phys 90: 4370
Pathak RK, Gadre SR (1990) J Chem Phys 93: 1770
Silberbach, H (1991) J Chem Phys 94: 8638
Shirsat RN, Bapat SV, Gadre SR (1992) Chem Phys Lett 200: 373
Scrocco E, Tomasi J (1973) Topics in Current Chemistry 42: 95
Politzer P, Daiker KC (1981) In: Deb BM (ed) The force concept in chemistry. Van Nostrand Reinhold Co., New York, p 294
Politzer P, Truhlar DG (eds) (1981) Chemical applications of atomic and molecular electrostatic potentials. Plenum Press, New York
Poltizer P, Murray JS (1991) In: Lipkowitz KB, Boyd DB (eds) Reviews in Computational Chemistry II. VCH, New York, p 273
Johnson BG, Gill PMW, Pople JA (1993) Chem Phys Lett 206: 239
Gadre SR, Bapat SV, Sundararajan K, Shrivastava IH (1990) Chem Phys Lett 175: 307
Gadre SR, Bapat S, Shrivastava I (1991) Comput Chem 15: 203
Frisch MJ, Trucks GW, Head-Gordon M, Gill PMW, Wong MW, Foresman JB, Johnson BG, Schlegel HB, Robb MA, Reploge ES, Gomperts R, Andres JL, Raghavachari K, Binkley JS, Gonzalez C, Martin RL, Fox DJ, DeFrees DJ, Baker J, Stewart JJP, Pople JA (1992) Gaussian 92, Gaussian, Inc., Pittsburg, PA
Pople JA, Santry DL, Segal GA (1965) J Chem Phys 43: S129; Pople JA, Segal GA (1965) J Chem Phys 43: S136; Pople JA, Segal GA (1966) J Chem Phys 44: 3289
Pople JA, Beveridge DL, Dobosh PA (1967) J Chem Phys 47: 2026
Giessner-Prettre C, Pullman A (1972) Theor Chim Acta 25: 83
Löwdin PO (1970) J Chem Phys 56: 365
Chung-Phillips A (1989) J Comp Chem 10: 17
Politzer P (1977) In: Rheingold AL (ed) Homoatomic rings, chains, and macromolecules of main-group elements, Elsevier, Amsterdam, p 95
Ridley JE, Zerner MC (1973) Theor Chim Acta 32: 111
Culberson JC, Zerner MC (1985) Chem Phys Lett 122: 436
Bonaccorsi R, Pullman A, Scrocco E, Tomasi J (1972) Theor Chim Acta 24: 51
Benoit RL, Fréchette M (1986) Can J Chem 64: 2348
Del Bene JE (1983) J Phys Chem 87: 367
Ford GP, Wang B (1993) J Comp Chem 14: 1101
Dewar MJS, Thiel W (1977) J Am Chem Soc 99: 4899
Dewar MJS, Zoebisch EG, Healy EF, Stewart JJP (1985) J Am Chem Soc 107: 3902
Stewart JJP (1989) J Comp Chem 10: 209, 221
Pople JA, Beveridge DL (1970) Approximate molecular orbital theory, McGraw-Hill, New York
Hehre WJ, Radom L, Schleyer PR, Pople JA (1986) Ab initio molecular orbital theory, Wiley, New York
Luque FJ, Illas F, Orozco M (1990) J Comp Chem 11: 416
Luque FJ, Orozco M (1990) Chem Phys Lett 168: 269
Alemán C, Luque FJ, Orozco M (1993) J Comp Chem 14: 799
Ferenczy GG, Reynolds CA, Richards WG (1990) J Comp Chem 11: 159
Reynolds CA, Ferenczy GG, Richards WG (1992) J Mol Struct (Theochem) 256: 249
Tasi G, Kiricsi I, Förster H (1991) Magy Kém Foly 97: 441
Tasi G, Kiricsi I, Förster H (1992) J Comp Chem 13: 371
Tasi G, Pálinkó I, Nyerges L, Fejes P, Förster H (1993) J Chem Inf Comput Sci 33: 296
Bingham RC, Dewar MJS, Lo H (1975) J Am Chem Soc 97: 1285
Tasi G, Pálinkó I, Halász J Náray-Szabó G (1992) Semiempirical quantum chemical calculations on microcomputers. CheMicro Ltd, Budapest
Nelder JA, Mead R (1965) Comput J 7: 308
Cummins PL, Gready JE (1990) Chem Phys Lett 174: 355
Parr RG, Yang W (1989) Density functional theory of atoms and molecules. Oxford University Press, New York
Murray JS, Seminario JM, Concha MC, Politzer P (1992) Int J Qunatum Chem 44: 113
Fliszár S (1983) Charge distributions and chemical effects. Springer-Verlag, Berlin
Bowen JP, Allinger NL (1991) In: Lipkowitz KB, Boyd DB (eds) Reviews in Computational Chemistry II. VCH, New York, p 81
McCammon JA, Harvey SC (1987) Dynamics of proteins and nucleic acids. Cambridge University Press, Cambridge
Montagnani R, Tomasi J (1993) J Mol Struct (Theochem) 279: 131; Kozaki T, Morihashi K, Kikuchi O (1988) J Mol Struct 168: 265
Hall GG (1985) Adv Atomic Mol Phys 20: 41
Williams DE, Yan Y-M (1988) Adv Atomic Mol Phys 23: 87
Williams DE (1991) In: Lipkowitz KB, Boyd DB (eds) Reviews in Computational Chemistry II. VCH, New York, p 219
Momany FA (1978) J Phys Chem 83: 592
Cox SR, Williams DE (1981) J Comp Chem 2: 304
Singh UC, Kollman PA (1984) J Comp Chem 5: 129
Chirlian LE, Francl MM (1987) J Comp Chem 8: 894
Woods RJ, Khalil M, Pell W, Moffat SH, Smith VH, Jr. (1990) J Comp Chem 11: 297
Besler BH, Merz, KM, Jr., Kollman PA (1990) J Comp Chem 11: 431
Orozco M, Luque FJ (1990) J Comp Chem 11: 909
Chipot C, Maigret B, Rivail J-L, Scheraga HA (1992) J Phys Chem 96: 10276
Merz KM, Jr. (1992) J Comp Chem 13: 749
Bertsekas DP (1982) Constrained optimization and Lagrange multiplier methods. Academic Press, New York
Williams DE, Weller RR (1983) J Am Chem Soc 105: 4143
Breneman CM, Wiberg KB (1990) J Comp Chem 11: 361
Connolly M (1982) QCPE Program 429
Richard AM (1991) J Comp Chem 12: 959
Lee J-G. Friesner RA (1993) J Phys Chem 97: 3515
Orozco M, Luque FJ (1990) J Comput-Aided Mol Des 4: 441
Náray-Szabó G, Ferenczy GG (1992) J Mol Struct (Theochem) 261: 55; Ferenczy GG, Rivail J-L, Surján P, Náray-Szabó G (1992) J Comp Chem 13: 830
Su Z (1993) J Comp Chem 14: 1036
Coppens P (1992) Annu Rev Phys Chem 43: 663
RATTLER, Oxford Molecular Ltd, The Magdalen Centre, Oxford Science Park, Sandford-on-Thames, Oxford OX4 4GA, United Kingdom
Merz KM, Besler BH (1990) MOPAC-ESP, QCPE program 589
Mulliken RS (1955) J Chem Phys 23: 1833
Szabó A, Ostlung NS (1982) Modern quantum chemistry. Macmillan, New York
Huzinaga S, Sakai Y, Miyoshi E, Narita S (1990) J Chem Phys 93: 3319
Surján PR (1989) Second quantized approach to quantum chemistry. Springer-Verlag, Berlin
Mayer I (1983) Chem Phys Lett 97: 270
Rauhut G, Clark T (1993) J Comp Chem 14: 503
Foster JP, Weinhold F (1980) J Am Chem Soc 102: 7211
Ferenczy GG (1991) J Comp Chem 12: 913
Stone AJ (1981) Chem Phys Lett 83: 233; Stone AJ, Price SL (1988) J Phys Chem 92: 3325
Chipot C, Ángyán JG, Ferenczy GG, Scheraga HA (1993) J Phys Chem 97: 6628
Sawaryn A, Sokalski WA (1989) Comp Phys Comm 52: 397
Sokalski WA, Shibata M, Ornstein RL, Rein R (1993) Theor Chim Acta 85: 209
Sokalski WA, Hariharan PC, Kaufmann JJ (1987) Int J Quantum Chem, Quantum Biol Symp 14: 111
Sokalski WA, Maruszewski K, Hariharan PC, Kaufmann JJ (1989) Int J Quantum Chem, Quantum Biol Symp 16: 119
Sokalski WA, Poirier RA (1983) Chem Phys Lett 98: 86
Sokalski WA, Sawaryn A (1987) J Chem Phys 87: 526
Vigne-Maeder F, Claverie P (1988) J Chem Phys 88: 4934
Mezei M, Campbell ES (1977) Theor Chim Acta 43: 227
Spackman MA (1986) J Chem Phys 85: 6587
Sokalski WA, Sneddon SF (1991) J Mol Graphics 9: 74
Carbo R, Leyda L, Arnau M (1980) Int J Quantum Chem 17: 1185
Carbo R, Domingo L (1987) Int J Quantum Chem 32: 517
Carbo R, Calabuig B (1989) Comp Phys Comm 55: 117
Bowen-Jenkins PE, Cooper DL, Richards WG (1985) J Phys Chem 89: 2195
Hodgkin EE, Richards WG (1986) J Chem Soc, Chem Commun 1342
Hodgkin EE, Richards WG (1987) Int J Quantum Chem, Quantum Biol Symp 14: 105
Stewart JJP (1983) QCPE Bull 3: 43
Dewar MJS, McKee ML, Rzepa HS (1978) J Am Chem Soc 100: 3607
Dewar MJS, Reynolds CH (1986) J Comp Chem 7: 140
Burt C, Richards WG, Huxley P (1990) J Comp Chem 11: 1139
Burkert U, Allinger NL (1982) Molecular Mechanics. Am Chem Society, Washington, DC
Burt C, Richards WG (1990) J Comput-Aided Mol Des 4: 231
Reynolds CA, Essex JW, Richards WG (1992) J Am Chem Soc 114: 9075; Colonna F, Evleth EM (1993) Chem Phys Lett 212: 665
Sanz F, Manaut F, Sanchez JA, Lozoya E (1991) J Mol Struct. (Theochem) 230: 437
Good AC, Hodgkin EE, Richards WG (1992) J Chem Inf Comput Sci 32: 188
Namasivayam S, Dean PM (1986) J Mol Graphics 4: 46; Dean PM, Callow P, Chau P-L (1988) J Mol Graphics 6: 28
Manaut F, Sanz F, José J, Milesi M (1991) J Comput-Aided Mol Des 5: 371
Petke JD (1993) J Comp Chem 14: 928
Reynolds CA, Burt C, Richards WG (1992) Quant Struct-Activ Relat 11: 34
Good AC (1992) J Mol Graphics 10: 144
ASP (Automated Similarity Package), Oxford Molecular Ltd, The Magdalen Centre, Oxford Science, Park, Sandford-on-Thames, Oxford OX4 4GA, United Kingdom
Mezey PG (1986) Int J Quantum Chem, Quantum Biol Symp 12: 113
Author information
Authors and Affiliations
Editor information
Rights and permissions
Copyright information
© 1995 Springer-Verlag
About this chapter
Cite this chapter
Tasi, G., Pálinkó, I. (1995). Using molecular electrostatic potential maps for similarity studies. In: Sen, K.D. (eds) Molecular Similarity II. Topics in Current Chemistry, vol 174. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-58672-5_23
Download citation
DOI: https://doi.org/10.1007/3-540-58672-5_23
Published:
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-58672-2
Online ISBN: 978-3-540-49040-1
eBook Packages: Springer Book Archive