Wall clock time and date at job start Tue Mar 31 2020 23:04:12 AMSOL-version 7.1 by G. D. Hawkins, D. J. Giesen, G. C. Lynch, C. C. Chambers, I. Rossi, J. W. Storer, J. Li, J. D. Thompson, P. Winget, B. J. Lynch, D. Rinaldi, D. A. Liotard, C. J. Cramer, and D. G. Truhlar Copyright 2004 by Regents of the University of Minnesota. All rights reserved. Notice: recipients of this code are asked to comply with the user agreement in Section 1 of the documentation file. ******************************************************************************* * 1SCF - SCF CALCULATION WITHOUT GEOMETRY OPTIMIZATION * - USE EF ROUTINE FOR MINIMUM SEARCH (DEFAULT) * GEO-OK - OVERRIDE INTERATOMIC DISTANCE CHECK * TLIMIT= - A TIME OF 15. SECONDS REQUESTED * CHARGE - CHARGE ON SYSTEM= -1 * AM1 - THE AM1 HAMILTONIAN TO BE USED * SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED * - CHARGE MODEL 2 WILL BE USED (CM2A) * - THE SOLVENT IS WATER ******************************************************************************* Atom NO. Chemical Bond length Bond angle Dihedral angle number (k) symbol (angstroms) (degrees) (degrees) (I) NA:I NB:NA:I NC:NB:NA:I NA NB NC 1 1 C 2 2 C 1.52996 * 1 3 3 H 1.09003 * 109.87424 * 2 1 4 4 C 1.54318 * 109.88364 * 121.17843 * 2 1 3 5 5 C 1.55151 * 102.94375 * 97.22396 * 4 2 1 6 6 H 1.08998 * 111.00631 * 277.43091 * 5 4 2 7 7 N 1.46903 * 111.00535 * 153.57488 * 5 4 2 8 8 C 1.46901 * 111.00093 * 161.35191 * 7 5 4 9 9 C 1.50697 * 109.47384 * 179.97438 * 8 7 5 10 10 O 1.21298 * 119.99808 * 0.02562 * 9 8 7 11 11 N 1.34780 * 119.99942 * 179.97438 * 9 8 7 12 12 C 1.37099 * 119.99792 * 180.02562 * 11 9 8 13 13 H 1.08005 * 120.00054 * 0.02562 * 12 11 9 14 14 C 1.38951 * 120.00261 * 180.02562 * 12 11 9 15 15 N 1.31407 * 119.99440 * 0.02562 * 14 12 11 16 16 Si 1.86794 * 120.00327 * 179.97438 * 14 12 11 17 17 H 1.48505 * 109.46665 * 89.99892 * 16 14 12 18 18 H 1.48497 * 109.47394 * 210.00297 * 16 14 12 19 19 H 1.48502 * 109.46887 * 330.00423 * 16 14 12 20 20 C 1.54917 * 101.58025 * 35.50254 * 5 4 2 21 21 N 1.47017 * 109.88408 * 238.98980 * 2 1 3 22 22 C 1.34784 * 125.64909 * 59.48137 * 21 2 1 23 23 O 1.21618 * 119.99678 * 0.02562 * 22 21 2 24 24 C 1.47173 * 119.99711 * 180.02562 * 22 21 2 25 25 C 1.38241 * 128.47136 * 180.02562 * 24 22 21 26 26 N 1.31238 * 111.89000 * 180.02562 * 25 24 22 27 27 N 1.27337 * 120.03456 * 359.97438 * 26 25 24 28 28 S 1.56632 * 109.74216 * 359.69582 * 27 26 25 29 29 H 1.08998 * 109.47081 * 179.56008 * 1 2 3 30 30 H 1.09002 * 109.47307 * 299.55877 * 1 2 3 31 31 H 1.09005 * 109.47557 * 59.55545 * 1 2 3 32 32 H 1.08998 * 110.72193 * 338.86145 * 4 2 1 33 33 H 1.09005 * 110.72093 * 215.58945 * 4 2 1 34 34 H 1.00899 * 111.00063 * 285.30610 * 7 5 4 35 35 H 1.09001 * 109.47252 * 300.00580 * 8 7 5 36 36 H 1.09007 * 109.46826 * 60.00126 * 8 7 5 37 37 H 0.96988 * 120.00238 * 0.02562 * 11 9 8 38 38 H 0.97005 * 119.99952 * 180.02562 * 15 14 12 39 39 H 1.09001 * 110.36355 * 81.83037 * 20 5 4 40 40 H 1.09003 * 110.36286 * 204.14951 * 20 5 4 41 41 H 1.08005 * 124.06013 * 359.97438 * 25 24 22 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 1 1.9005 1.0251 0.0000 4 6 2.0548 -0.7513 1.2416 5 6 2.3518 -2.1704 0.6892 6 1 1.4452 -2.7745 0.6563 7 7 3.3966 -2.8351 1.4797 8 6 3.3757 -4.2880 1.2638 9 6 4.4591 -4.9340 2.0885 10 8 5.1775 -4.2512 2.7878 11 7 4.6289 -6.2705 2.0499 12 6 5.6141 -6.8582 2.8006 13 1 6.2539 -6.2503 3.4232 14 6 5.7897 -8.2360 2.7605 15 7 5.0116 -8.9756 2.0026 16 14 7.1325 -9.0367 3.7827 17 1 6.5909 -9.3941 5.1185 18 1 7.6107 -10.2643 3.0976 19 1 8.2634 -8.0879 3.9448 20 6 2.8568 -1.8486 -0.7395 21 7 2.0300 -0.7123 -1.1849 22 6 1.7741 -0.3816 -2.4663 23 8 1.0748 0.5811 -2.7178 24 6 2.3410 -1.1856 -3.5609 25 6 2.1948 -1.0073 -4.9240 26 7 2.8441 -1.9190 -5.6091 27 7 3.5046 -2.8225 -5.0018 28 16 3.3850 -2.6150 -3.4539 29 1 -0.3633 -1.0276 -0.0079 30 1 -0.3634 0.5070 0.8939 31 1 -0.3634 0.5207 -0.8860 32 1 1.2918 -0.7919 2.0189 33 1 2.9657 -0.2854 1.6178 34 1 4.3064 -2.4516 1.2716 35 1 2.4056 -4.6858 1.5619 36 1 3.5471 -4.5010 0.2086 37 1 4.0542 -6.8165 1.4911 38 1 5.1339 -9.9375 1.9748 39 1 3.9091 -1.5656 -0.7151 40 1 2.7088 -2.7060 -1.3962 41 1 1.6151 -0.2134 -5.3714 RHF calculation, no. of doubly occupied orbitals= 60 REFERENCES FOR PARAMETERS IN GAS-PHASE HAMILTONIAN: H: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) C: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) N: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) O: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) Si: (AM1): M.J.S.DEWAR, C. JIE, ORGANOMETALLICS, 6, 1486-1490 (1987). S: (AM1): M.J.S. DEWAR, Y.-C. YUAN, INORGANIC CHEM., 29, 589 (1990) REFERENCE FOR CHARGE MODEL 2: J. Li, J. Xing, C. J. Cramer, and D. G. Truhlar, J. Chem. Phys. 111 (1999) 885. REFERENCE FOR THE PARAMETERIZATION OF THE SM5.42R SOLVATION MODEL: J. Li, T. Zhu, G. D. Hawkins, P. Winget, D. A. Liotard, C. J. Cramer, and D. G. Truhlar, Theor. Chem. Acc. 103 (1999) 9-63 P. Winget, J. D. Thompson C. J. Cramer,and D. G. Truhlar, J. Phys. Chem. B. submitted. CHARGE=-1 AM1 1SCF TLIMIT=15 GEO-OK SM5.42R & SOLVNT=WATER ZINC001283946807.mol2 41 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Tue Mar 31 2020 23:04:12 Heat of formation + Delta-G solvation = -8.134955 kcal Electronic energy + Delta-G solvation = -26622.459682 eV Core-core repulsion = 22664.409666 eV Total energy + Delta-G solvation = -3958.050016 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.63 seconds Orbital eigenvalues (eV) -41.98160 -41.40995 -40.09673 -38.94324 -36.24241 -35.58079 -33.89498 -33.22213 -32.45261 -31.07186 -28.73415 -27.85196 -26.90148 -25.77801 -24.74534 -22.92674 -21.61070 -21.04280 -20.84476 -19.98268 -19.87120 -18.32848 -17.94325 -17.45968 -17.22516 -16.74831 -16.60339 -16.31733 -15.98950 -15.80618 -15.58397 -15.20135 -14.75637 -14.54841 -14.40374 -14.22519 -13.79333 -13.71988 -13.49736 -13.39714 -13.15919 -13.06457 -12.96813 -12.80573 -12.50302 -12.37613 -12.11636 -11.97993 -11.62993 -11.46881 -11.39417 -11.24575 -11.11688 -10.95234 -10.29390 -9.97102 -9.94645 -9.34749 -8.43489 -5.91138 -1.42174 -0.31269 0.35613 0.82563 1.40182 1.44738 1.54855 1.56541 1.75273 2.11054 2.31326 2.77572 2.93835 3.23687 3.24939 3.34963 3.57972 3.64472 3.69434 3.97966 4.05954 4.19522 4.26898 4.36838 4.47044 4.51555 4.57012 4.60640 4.69722 4.71923 4.97912 5.06072 5.14386 5.28366 5.40508 5.45165 5.89524 6.09228 6.13083 6.38637 6.51717 6.64370 6.74009 7.17328 7.62138 8.17141 8.73624 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.013432 B = 0.002752 C = 0.002356 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2084.140120 B =10172.530635 C =11881.287664 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.160 4.160 2 C 0.137 3.863 3 H 0.084 0.916 4 C -0.109 4.109 5 C 0.089 3.911 6 H 0.111 0.889 7 N -0.660 5.660 8 C 0.060 3.940 9 C 0.438 3.562 10 O -0.622 6.622 11 N -0.574 5.574 12 C -0.330 4.330 13 H 0.079 0.921 14 C -0.012 4.012 15 N -0.920 5.920 16 Si 0.987 3.013 17 H -0.273 1.273 18 H -0.274 1.274 19 H -0.272 1.272 20 C 0.050 3.950 21 N -0.598 5.598 22 C 0.618 3.382 23 O -0.544 6.544 24 C -0.300 4.300 25 C 0.077 3.923 26 N -0.274 5.274 27 N -0.302 5.302 28 S 0.487 5.513 29 H 0.060 0.940 30 H 0.087 0.913 31 H 0.051 0.949 32 H 0.104 0.896 33 H 0.086 0.914 34 H 0.352 0.648 35 H 0.109 0.891 36 H 0.076 0.924 37 H 0.397 0.603 38 H 0.276 0.724 39 H 0.094 0.906 40 H 0.081 0.919 41 H 0.235 0.765 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -9.674 15.190 -8.920 20.097 Note: The Mulliken population analysis charges presented below were not used in the solvation calculation but are provided for completeness. The chosen solvation model uses CM2 partial charges for calculating solvation energies. Net atomic charges, atomic populations, and dipole contributions using Mulliken population analysis Atom NO. Type Charge No. of electrons 1 C -0.218 4.218 2 C 0.035 3.965 3 H 0.102 0.898 4 C -0.147 4.147 5 C -0.023 4.023 6 H 0.129 0.871 7 N -0.292 5.292 8 C -0.072 4.072 9 C 0.226 3.774 10 O -0.509 6.509 11 N -0.212 5.212 12 C -0.460 4.460 13 H 0.097 0.903 14 C -0.212 4.212 15 N -0.561 5.561 16 Si 0.812 3.188 17 H -0.198 1.198 18 H -0.199 1.199 19 H -0.197 1.197 20 C -0.077 4.077 21 N -0.331 5.331 22 C 0.404 3.596 23 O -0.423 6.423 24 C -0.441 4.441 25 C -0.091 4.091 26 N -0.137 5.137 27 N -0.282 5.282 28 S 0.623 5.377 29 H 0.079 0.921 30 H 0.105 0.895 31 H 0.070 0.930 32 H 0.123 0.877 33 H 0.105 0.895 34 H 0.172 0.828 35 H 0.127 0.873 36 H 0.094 0.906 37 H 0.231 0.769 38 H 0.086 0.914 39 H 0.112 0.888 40 H 0.099 0.901 41 H 0.251 0.749 Dipole moment (debyes) X Y Z Total from point charges -8.803 14.343 -8.536 18.870 hybrid contribution -0.004 0.173 -0.913 0.930 sum -8.808 14.516 -9.449 19.431 Atomic orbital electron populations 1.22136 0.93772 1.02724 1.03188 1.21802 0.95397 0.96515 0.82810 0.89800 1.22732 1.03230 0.92919 0.95813 1.22815 0.95738 0.96379 0.87353 0.87130 1.60115 1.09248 1.02013 1.57810 1.21661 0.98310 0.89052 0.98226 1.20906 0.87851 0.82352 0.86287 1.90513 1.50689 1.63366 1.46304 1.41932 1.31590 1.06194 1.41435 1.19637 1.11752 0.91119 1.23483 0.90283 1.25955 1.00382 0.96337 0.98482 1.69659 1.39796 1.06884 1.39758 0.85001 0.78068 0.77640 0.78117 1.19843 1.19866 1.19707 1.23714 0.96643 0.88537 0.98761 1.48327 1.49789 1.30417 1.04581 1.16112 0.79991 0.83012 0.80439 1.90829 1.39428 1.28785 1.83228 1.28005 1.10930 1.06192 0.98980 1.24802 0.97469 0.98410 0.88417 1.70847 1.08615 1.01481 1.32780 1.78600 1.20283 1.21356 1.07992 1.82868 1.30700 1.14803 1.09304 0.92074 0.89456 0.92986 0.87718 0.89498 0.82784 0.87296 0.90648 0.76930 0.91435 0.88834 0.90111 0.74928 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 15. Note: The number of geometries may not correspond to the number of cycles due to rejected geometry changes. In the following table subtotal= G_P + SS G_CDS. Atom Chem. CM2 G_P Area Sigma k SS G_CDS Subtotal M number symbol chg. (kcal) (Ang**2) cal/(Ang**2) (kcal) (kcal) value 1 C -0.16 -2.20 9.06 71.98 0.65 -1.55 16 2 C 0.14 1.94 3.49 45.34 0.16 2.09 16 3 H 0.08 1.22 8.14 -2.39 -0.02 1.20 16 4 C -0.11 -1.42 6.19 31.78 0.20 -1.22 16 5 C 0.09 1.35 3.32 46.31 0.15 1.51 16 6 H 0.11 1.51 7.92 -2.39 -0.02 1.49 16 7 N -0.66 -15.23 6.00 -488.39 -2.93 -18.16 16 8 C 0.06 1.60 6.04 85.56 0.52 2.12 16 9 C 0.44 18.50 7.82 87.66 0.69 19.18 16 10 O -0.62 -31.36 15.78 -3.09 -0.05 -31.41 16 11 N -0.57 -27.13 5.29 -306.97 -1.62 -28.75 16 12 C -0.33 -17.80 9.68 84.04 0.81 -16.98 16 13 H 0.08 4.56 7.16 -2.91 -0.02 4.54 16 14 C -0.01 -0.60 5.50 84.93 0.47 -0.14 16 15 N -0.92 -47.76 13.05 21.66 0.28 -47.48 16 16 Si 0.99 41.51 29.55 68.60 2.03 43.54 16 17 H -0.27 -11.20 7.11 99.48 0.71 -10.50 16 18 H -0.27 -10.99 7.11 99.48 0.71 -10.29 16 19 H -0.27 -11.47 7.11 99.48 0.71 -10.76 16 20 C 0.05 0.70 5.33 86.86 0.46 1.17 16 21 N -0.60 -9.64 3.08 -792.19 -2.44 -12.08 16 22 C 0.62 12.20 7.62 86.59 0.66 12.86 16 23 O -0.54 -13.54 15.87 -4.09 -0.06 -13.61 16 24 C -0.30 -5.38 6.66 24.62 0.16 -5.22 16 25 C 0.08 1.38 11.55 84.78 0.98 2.36 16 26 N -0.27 -6.13 11.54 -57.87 -0.67 -6.80 16 27 N -0.30 -6.88 12.51 37.02 0.46 -6.41 16 28 S 0.49 8.14 19.60 -56.49 -1.11 7.04 16 29 H 0.06 0.82 8.14 -2.39 -0.02 0.80 16 30 H 0.09 0.90 8.14 -2.39 -0.02 0.88 16 31 H 0.05 0.94 6.74 -2.38 -0.02 0.93 16 32 H 0.10 1.20 7.83 -2.39 -0.02 1.18 16 33 H 0.09 1.19 8.14 -2.38 -0.02 1.17 16 34 H 0.35 8.52 8.00 -89.69 -0.72 7.80 16 35 H 0.11 2.59 8.09 -2.39 -0.02 2.57 16 36 H 0.08 1.62 8.14 -2.38 -0.02 1.60 16 37 H 0.40 17.72 7.90 -92.72 -0.73 16.98 16 38 H 0.28 13.53 8.31 -92.70 -0.77 12.76 16 39 H 0.09 1.21 7.80 -2.39 -0.02 1.19 16 40 H 0.08 1.03 5.17 -13.79 -0.07 0.96 16 41 H 0.23 2.99 8.06 -2.91 -0.02 2.96 16 Total: -1.00 -69.88 359.54 -0.60 -70.49 By element: Atomic # 1 Polarization: 27.87 SS G_CDS: -0.40 Total: 27.47 kcal Atomic # 6 Polarization: 10.26 SS G_CDS: 5.91 Total: 16.17 kcal Atomic # 7 Polarization: -112.77 SS G_CDS: -6.92 Total: -119.68 kcal Atomic # 8 Polarization: -44.90 SS G_CDS: -0.11 Total: -45.02 kcal Atomic # 14 Polarization: 41.51 SS G_CDS: 2.03 Total: 43.54 kcal Atomic # 16 Polarization: 8.14 SS G_CDS: -1.11 Total: 7.04 kcal Total: -69.88 -0.60 -70.49 kcal The number of atoms in the molecule is 41 The average number of expansion shells was 16.00 The maximum number of expansion shells was 16 The minimum number of expansion shells was 16 **** NOTA BENE **** This is the net solvation energy for this exact molecular structure (nuclear and electronic)! The standard-state solvation energy should be obtained as the difference between the heat of formation plus delta-G solvation for the relaxed solvated system and that for the relaxed gas-phase system. ZINC001283946807.mol2 41 1SCF run This is a breakdown of the solvation energy calculated without geometric relaxation in solution: (1) E-EN(sol) electronic-nuclear energy of solute 62.353 kcal (2) G-P(sol) polarization free energy of solvation -69.883 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -7.530 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.605 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -70.488 kcal (6) G-S(sol) free energy of system = (1) + (5) -8.135 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.64 seconds