Wall clock time and date at job start Tue Mar 31 2020 16:54:52 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 O 1.45195 * 1 3 3 C 1.34231 * 117.00481 * 2 1 4 4 O 1.20824 * 119.99662 * 0.02562 * 3 2 1 5 5 C 1.50692 * 120.00240 * 180.02562 * 3 2 1 6 6 C 1.53000 * 109.47143 * 180.02562 * 5 3 2 7 7 N 1.46506 * 109.47332 * 178.42682 * 6 5 3 8 8 C 1.36937 * 119.99996 * 305.19937 * 7 6 5 9 9 H 1.08003 * 119.99402 * 312.67286 * 8 7 6 10 10 C 1.38813 * 120.00392 * 132.66931 * 8 7 6 11 11 N 1.31622 * 119.99443 * 3.01973 * 10 8 7 12 12 Si 1.86798 * 120.00068 * 183.01759 * 10 8 7 13 13 H 1.48497 * 109.47198 * 359.97438 * 12 10 8 14 14 H 1.48500 * 109.46999 * 120.00603 * 12 10 8 15 15 H 1.48504 * 109.46812 * 240.00344 * 12 10 8 16 16 S 1.65599 * 120.00099 * 125.19677 * 7 6 5 17 17 O 1.42091 * 104.27775 * 163.06842 * 16 7 6 18 18 O 1.42098 * 104.27669 * 35.20565 * 16 7 6 19 19 C 1.81410 * 104.44748 * 279.13692 * 16 7 6 20 20 C 1.53012 * 109.33618 * 72.98511 * 19 16 7 21 21 C 1.53228 * 109.37438 * 183.47022 * 20 19 16 22 22 C 1.51257 * 108.70022 * 305.66256 * 21 20 19 23 23 O 1.20762 * 120.85094 * 231.22879 * 22 21 20 24 24 C 1.51266 * 118.30176 * 51.25141 * 22 21 20 25 25 C 1.52957 * 109.41010 * 193.49267 * 19 16 7 26 26 H 1.09007 * 109.46731 * 299.99665 * 1 2 3 27 27 H 1.09001 * 109.47065 * 59.99107 * 1 2 3 28 28 H 1.08998 * 109.47462 * 179.97438 * 1 2 3 29 29 H 1.09004 * 109.47605 * 60.00527 * 5 3 2 30 30 H 1.09003 * 109.47423 * 300.00214 * 5 3 2 31 31 H 1.08999 * 109.47158 * 58.43044 * 6 5 3 32 32 H 1.09001 * 109.47097 * 298.42430 * 6 5 3 33 33 H 0.97000 * 119.99257 * 179.97438 * 11 10 8 34 34 H 1.08997 * 109.41113 * 313.35400 * 19 16 7 35 35 H 1.09001 * 109.33324 * 63.60147 * 20 19 16 36 36 H 1.08993 * 109.65055 * 303.54479 * 20 19 16 37 37 H 1.09001 * 109.62117 * 185.84780 * 21 20 19 38 38 H 1.09004 * 109.62381 * 65.47742 * 21 20 19 39 39 H 1.09000 * 109.62723 * 68.37126 * 24 22 21 40 40 H 1.09004 * 109.62995 * 188.74331 * 24 22 21 41 41 H 1.08999 * 109.48383 * 56.38760 * 25 19 16 42 42 H 1.09001 * 109.49725 * 296.35320 * 25 19 16 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 8 1.4519 0.0000 0.0000 3 6 2.0614 1.1960 0.0000 4 8 1.4034 2.2093 0.0005 5 6 3.5663 1.2748 -0.0006 6 6 4.0002 2.7420 0.0002 7 7 5.4628 2.8187 0.0375 8 6 6.1569 2.1789 1.0295 9 1 5.8456 2.2813 2.0586 10 6 7.2604 1.3988 0.7124 11 7 7.6753 1.3217 -0.5343 12 14 8.1563 0.4585 2.0550 13 1 7.4967 0.7115 3.3611 14 1 8.1161 -0.9948 1.7526 15 1 9.5690 0.9120 2.1184 16 16 6.2766 3.6792 -1.1199 17 8 7.5704 3.8747 -0.5661 18 8 5.4252 4.7819 -1.4000 19 6 6.3565 2.5587 -2.5443 20 6 4.9720 2.4581 -3.1880 21 6 5.0182 1.4459 -4.3375 22 6 6.1249 1.8429 -5.2890 23 8 5.9153 1.9471 -6.4738 24 6 7.5012 2.1055 -4.7189 25 6 7.3667 3.0973 -3.5587 26 1 -0.3633 0.5138 0.8901 27 1 -0.3633 0.5140 -0.8899 28 1 -0.3634 -1.0276 -0.0005 29 1 3.9558 0.7809 -0.8909 30 1 3.9564 0.7804 0.8891 31 1 3.5877 3.2424 0.8762 32 1 3.6337 3.2297 -0.9031 33 1 8.4467 0.7769 -0.7558 34 1 6.6705 1.5699 -2.2102 35 1 4.6823 3.4349 -3.5753 36 1 4.2450 2.1313 -2.4447 37 1 4.0642 1.4469 -4.8646 38 1 5.2162 0.4501 -3.9407 39 1 7.9308 1.1722 -4.3548 40 1 8.1436 2.5270 -5.4921 41 1 8.3352 3.2243 -3.0749 42 1 7.0221 4.0584 -3.9402 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 ZINC001213456372.mol2 42 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 16:54:52 Heat of formation + Delta-G solvation = -217.775961 kcal Electronic energy + Delta-G solvation = -28885.117298 eV Core-core repulsion = 24763.849674 eV Total energy + Delta-G solvation = -4121.267624 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 333.117 amu Computer time = 1.29 seconds Orbital eigenvalues (eV) -41.41170 -40.81313 -38.02456 -37.69781 -37.41057 -37.08300 -36.29513 -33.93508 -32.22997 -31.55115 -29.96197 -28.52163 -26.78787 -24.33675 -24.21478 -22.90984 -21.51808 -20.66010 -20.10497 -18.80356 -18.68686 -17.87043 -17.57297 -17.42639 -17.03527 -16.87159 -16.44585 -16.25620 -15.96337 -15.68632 -15.39460 -15.02898 -14.78404 -14.55522 -14.33687 -14.00398 -13.68834 -13.53170 -13.35639 -13.23985 -13.09595 -12.89536 -12.86067 -12.71143 -12.58387 -12.47012 -12.37900 -12.15065 -12.09707 -12.07716 -11.77801 -11.71101 -11.53429 -11.43542 -11.00983 -10.54807 -10.40895 -9.46463 -8.26385 -6.00440 0.00224 0.93366 1.25004 1.55974 1.61670 1.69487 1.81271 2.36697 2.66927 3.06335 3.16255 3.44223 3.55063 3.68749 3.90907 3.97143 4.12883 4.14439 4.21153 4.28073 4.29656 4.37815 4.39169 4.40010 4.54238 4.59825 4.65957 4.77177 4.81470 4.87400 4.96595 4.98285 5.01310 5.14786 5.22423 5.39397 5.46089 5.61180 5.79689 6.46594 6.53778 6.80833 7.13759 7.57555 8.83754 Molecular weight = 333.12amu Principal moments of inertia in cm(-1) A = 0.008333 B = 0.006693 C = 0.004650 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 3359.178418 B = 4182.617382 C = 6020.180757 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C 0.026 3.974 2 O -0.362 6.362 3 C 0.470 3.530 4 O -0.541 6.541 5 C -0.112 4.112 6 C 0.141 3.859 7 N -0.868 5.868 8 C -0.296 4.296 9 H 0.078 0.922 10 C 0.014 3.986 11 N -0.899 5.899 12 Si 0.981 3.019 13 H -0.268 1.268 14 H -0.265 1.265 15 H -0.296 1.296 16 S 2.585 3.415 17 O -0.989 6.989 18 O -1.048 7.048 19 C -0.566 4.566 20 C -0.102 4.102 21 C -0.153 4.153 22 C 0.370 3.630 23 O -0.499 6.499 24 C -0.150 4.150 25 C -0.096 4.096 26 H 0.060 0.940 27 H 0.062 0.938 28 H 0.132 0.868 29 H 0.123 0.877 30 H 0.125 0.875 31 H 0.048 0.952 32 H 0.070 0.930 33 H 0.285 0.715 34 H 0.197 0.803 35 H 0.065 0.935 36 H 0.087 0.913 37 H 0.099 0.901 38 H 0.126 0.874 39 H 0.123 0.877 40 H 0.098 0.902 41 H 0.084 0.916 42 H 0.061 0.939 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -6.316 -8.356 -3.271 10.973 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 -0.067 4.067 2 O -0.279 6.279 3 C 0.314 3.686 4 O -0.431 6.431 5 C -0.151 4.151 6 C 0.014 3.986 7 N -0.698 5.698 8 C -0.430 4.430 9 H 0.096 0.904 10 C -0.189 4.189 11 N -0.541 5.541 12 Si 0.807 3.193 13 H -0.193 1.193 14 H -0.190 1.190 15 H -0.223 1.223 16 S 2.691 3.309 17 O -0.979 6.979 18 O -1.038 7.038 19 C -0.678 4.678 20 C -0.140 4.140 21 C -0.191 4.191 22 C 0.249 3.751 23 O -0.375 6.375 24 C -0.188 4.188 25 C -0.135 4.135 26 H 0.078 0.922 27 H 0.080 0.920 28 H 0.150 0.850 29 H 0.141 0.859 30 H 0.143 0.857 31 H 0.067 0.933 32 H 0.088 0.912 33 H 0.095 0.905 34 H 0.213 0.787 35 H 0.084 0.916 36 H 0.105 0.895 37 H 0.118 0.882 38 H 0.144 0.856 39 H 0.141 0.859 40 H 0.117 0.883 41 H 0.103 0.897 42 H 0.080 0.920 Dipole moment (debyes) X Y Z Total from point charges -6.206 -7.103 -3.875 10.197 hybrid contribution 0.328 -0.375 0.546 0.739 sum -5.878 -7.478 -3.329 10.077 Atomic orbital electron populations 1.23544 0.75074 1.05604 1.02462 1.86526 1.24841 1.32733 1.83760 1.24102 0.92435 0.81127 0.70946 1.90648 1.68024 1.37339 1.47064 1.21680 0.85380 0.99884 1.08159 1.20920 0.81611 0.94463 1.01644 1.52739 1.10471 1.64953 1.41638 1.19082 1.11778 1.23511 0.88640 0.90388 1.26041 0.98319 0.95737 0.98795 1.69114 1.26701 1.40328 1.17963 0.85034 0.77293 0.78248 0.78756 1.19269 1.18978 1.22282 1.06162 0.73066 0.74633 0.77049 1.93360 1.42561 1.85808 1.76187 1.93384 1.69172 1.53946 1.87339 1.30578 1.01706 1.21742 1.13805 1.21437 0.94253 1.00248 0.98096 1.22200 0.98951 1.01795 0.96180 1.25216 0.92567 0.69163 0.88170 1.90370 1.85573 1.41442 1.20134 1.22159 0.95753 1.02478 0.98435 1.21211 0.99291 0.98196 0.94784 0.92167 0.91953 0.85007 0.85926 0.85742 0.93322 0.91200 0.90460 0.78689 0.91619 0.89478 0.88208 0.85624 0.85906 0.88317 0.89729 0.92024 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 25. 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 0.03 0.47 10.56 113.37 1.20 1.67 16 2 O -0.36 -9.04 10.56 -51.43 -0.54 -9.58 16 3 C 0.47 14.00 7.96 71.23 0.57 14.56 16 4 O -0.54 -19.00 15.73 21.97 0.35 -18.65 16 5 C -0.11 -3.42 5.48 29.85 0.16 -3.26 16 6 C 0.14 5.38 4.20 86.38 0.36 5.74 16 7 N -0.87 -38.23 2.93 -343.43 -1.01 -39.24 16 8 C -0.30 -13.61 7.93 84.03 0.67 -12.94 16 9 H 0.08 3.58 7.83 -2.91 -0.02 3.56 16 10 C 0.01 0.64 4.84 84.86 0.41 1.05 16 11 N -0.90 -39.16 7.92 21.65 0.17 -38.99 16 12 Si 0.98 37.28 29.55 68.60 2.03 39.31 16 13 H -0.27 -10.03 7.11 99.48 0.71 -9.32 16 14 H -0.26 -9.33 7.11 99.48 0.71 -8.63 16 15 H -0.30 -12.00 7.11 99.48 0.71 -11.29 16 16 S 2.59 118.70 4.06 -56.49 -0.23 118.47 16 17 O -0.99 -53.03 15.21 -127.65 -1.94 -54.97 16 18 O -1.05 -52.21 16.55 -127.65 -2.11 -54.33 16 19 C -0.57 -19.75 2.18 30.58 0.07 -19.68 16 20 C -0.10 -3.04 4.87 30.67 0.15 -2.89 16 21 C -0.15 -3.69 6.16 30.10 0.19 -3.51 16 22 C 0.37 10.20 6.72 29.46 0.20 10.40 16 23 O -0.50 -16.50 17.89 -1.46 -0.03 -16.53 16 24 C -0.15 -3.80 6.17 30.10 0.19 -3.61 16 25 C -0.10 -3.01 5.20 30.66 0.16 -2.86 16 26 H 0.06 1.10 8.13 -2.38 -0.02 1.08 16 27 H 0.06 1.11 8.13 -2.39 -0.02 1.09 16 28 H 0.13 1.42 8.14 -2.39 -0.02 1.40 16 29 H 0.12 3.32 7.16 -2.38 -0.02 3.30 16 30 H 0.12 3.77 7.50 -2.39 -0.02 3.75 16 31 H 0.05 1.93 8.06 -2.39 -0.02 1.91 16 32 H 0.07 2.65 6.10 -2.39 -0.01 2.64 16 33 H 0.28 11.71 8.31 -92.71 -0.77 10.94 16 34 H 0.20 6.85 5.44 -2.39 -0.01 6.83 16 35 H 0.07 2.05 8.03 -2.39 -0.02 2.03 16 36 H 0.09 2.48 4.73 -2.39 -0.01 2.47 16 37 H 0.10 2.18 8.14 -2.39 -0.02 2.16 16 38 H 0.13 2.50 8.14 -2.39 -0.02 2.48 16 39 H 0.12 2.70 8.14 -2.39 -0.02 2.68 16 40 H 0.10 2.27 8.14 -2.39 -0.02 2.25 16 41 H 0.08 2.80 8.07 -2.39 -0.02 2.78 16 42 H 0.06 1.90 8.14 -2.39 -0.02 1.88 16 Total: -1.00 -65.88 350.36 2.04 -63.85 By element: Atomic # 1 Polarization: 24.96 SS G_CDS: 1.04 Total: 26.00 kcal Atomic # 6 Polarization: -19.64 SS G_CDS: 4.31 Total: -15.33 kcal Atomic # 7 Polarization: -77.39 SS G_CDS: -0.83 Total: -78.23 kcal Atomic # 8 Polarization: -149.79 SS G_CDS: -4.28 Total: -154.06 kcal Atomic # 14 Polarization: 37.28 SS G_CDS: 2.03 Total: 39.31 kcal Atomic # 16 Polarization: 118.70 SS G_CDS: -0.23 Total: 118.47 kcal Total: -65.88 2.04 -63.85 kcal The number of atoms in the molecule is 42 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. ZINC001213456372.mol2 42 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 -153.930 kcal (2) G-P(sol) polarization free energy of solvation -65.884 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -219.814 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.039 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -63.846 kcal (6) G-S(sol) free energy of system = (1) + (5) -217.776 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.29 seconds