Wall clock time and date at job start Mon Mar 30 2020 06:42:26 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 N 2 2 C 1.30955 * 1 3 3 Si 1.86801 * 120.00016 * 2 1 4 4 H 1.48498 * 109.47419 * 239.99710 * 3 2 1 5 5 H 1.48504 * 109.47205 * 359.97438 * 3 2 1 6 6 H 1.48502 * 109.47120 * 119.99649 * 3 2 1 7 7 C 1.39782 * 120.00322 * 179.97438 * 2 1 3 8 8 H 1.07993 * 120.00552 * 197.85731 * 7 2 1 9 9 C 1.40918 * 119.99547 * 17.85981 * 7 2 1 10 10 C 1.41280 * 120.19549 * 204.67882 * 9 7 2 11 11 C 1.35171 * 120.36996 * 180.02562 * 10 9 7 12 12 C 1.42104 * 120.84942 * 359.97438 * 11 10 9 13 13 C 1.40474 * 119.01272 * 0.20162 * 12 11 10 14 14 C 1.38649 * 120.15054 * 0.05531 * 13 12 11 15 15 S 1.76046 * 109.49026 * 180.25819 * 13 12 11 16 16 C 1.75474 * 91.58643 * 359.76691 * 15 13 12 17 17 O 1.35506 * 124.63473 * 179.97438 * 16 15 13 18 18 C 1.33519 * 110.73351 * 359.97438 * 16 15 13 19 19 C 1.50702 * 122.13281 * 179.97438 * 18 16 15 20 20 O 1.42899 * 109.47056 * 90.02601 * 19 18 16 21 21 H 0.96997 * 120.00087 * 0.02562 * 1 2 3 22 22 H 1.07998 * 119.81238 * 0.02562 * 10 9 7 23 23 H 1.08002 * 119.57445 * 179.97438 * 11 10 9 24 24 H 1.08005 * 119.99430 * 180.26112 * 14 13 12 25 25 H 0.96702 * 113.99780 * 270.02280 * 17 16 15 26 26 H 1.08998 * 109.47060 * 330.02747 * 19 18 16 27 27 H 1.09000 * 109.47420 * 210.02811 * 19 18 16 28 28 H 0.96700 * 114.00204 * 180.02562 * 20 19 18 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 7 0.0000 0.0000 0.0000 2 6 1.3096 0.0000 0.0000 3 14 2.2436 1.6177 0.0000 4 1 3.0974 1.6964 -1.2124 5 1 1.2786 2.7465 -0.0006 6 1 3.0973 1.6964 1.2126 7 6 2.0085 -1.2105 0.0005 8 1 3.0494 -1.2330 0.2873 9 6 1.3548 -2.4016 -0.3732 10 6 1.8276 -3.6483 0.0940 11 6 1.2036 -4.7931 -0.2627 12 6 0.0637 -4.7679 -1.1109 13 6 -0.4083 -3.5312 -1.5813 14 6 0.2348 -2.3572 -1.2199 15 16 -1.8231 -3.7901 -2.5965 16 6 -1.7317 -5.5271 -2.3651 17 8 -2.5899 -6.4229 -2.9104 18 6 -0.7010 -5.8456 -1.5783 19 6 -0.3845 -7.2723 -1.2102 20 8 0.5109 -7.8260 -2.1765 21 1 -0.4850 0.8400 -0.0004 22 1 2.6923 -3.6869 0.7398 23 1 1.5761 -5.7391 0.1016 24 1 -0.1328 -1.4075 -1.5796 25 1 -3.3604 -6.6155 -2.3587 26 1 -1.3051 -7.8556 -1.1918 27 1 0.0821 -7.2986 -0.2255 28 1 0.7582 -8.7446 -2.0027 RHF calculation, no. of doubly occupied orbitals= 42 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 ZINC000396354018.mol2 28 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 06:42:26 Heat of formation + Delta-G solvation = -82.085454 kcal Electronic energy + Delta-G solvation = -15458.730422 eV Core-core repulsion = 12757.828940 eV Total energy + Delta-G solvation = -2700.901482 eV No. of doubly occupied orbitals = 42 Molecular weight (most abundant/longest-lived isotopes) = 250.045 amu Computer time = 0.33 seconds Orbital eigenvalues (eV) -40.47289 -38.88418 -37.53414 -36.21734 -34.32742 -31.47990 -30.57667 -27.53666 -26.76547 -23.35088 -22.98357 -20.77618 -19.59419 -19.11526 -18.37741 -17.77057 -17.13889 -16.37075 -16.23365 -15.54103 -15.07983 -14.92659 -14.43670 -14.23716 -14.03215 -13.51033 -13.25368 -12.93767 -12.84999 -12.69173 -12.22317 -11.76372 -11.60168 -11.33870 -11.12362 -10.92828 -10.86263 -10.26520 -9.13541 -8.75978 -8.51961 -6.37575 -0.01469 0.69254 0.90143 1.21866 1.28508 1.39465 1.51452 1.66180 2.15991 2.62584 3.38112 3.53510 3.78681 4.14277 4.25539 4.37773 4.52635 4.63331 4.92544 4.98343 5.12770 5.15434 5.33041 5.42751 5.80286 5.85418 5.98119 6.11279 6.47695 6.64789 6.75255 6.84051 6.99262 8.18241 Molecular weight = 250.05amu Principal moments of inertia in cm(-1) A = 0.035782 B = 0.006561 C = 0.005698 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 782.318564 B = 4266.777245 C = 4913.125597 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.808 5.808 2 C 0.033 3.967 3 Si 0.988 3.012 4 H -0.260 1.260 5 H -0.269 1.269 6 H -0.252 1.252 7 C -0.467 4.467 8 H 0.095 0.905 9 C 0.098 3.902 10 C -0.205 4.205 11 C -0.049 4.049 12 C -0.204 4.204 13 C -0.091 4.091 14 C -0.188 4.188 15 S -0.010 6.010 16 C -0.021 4.021 17 O -0.451 6.451 18 C -0.086 4.086 19 C 0.147 3.853 20 O -0.584 6.584 21 H 0.293 0.707 22 H 0.123 0.877 23 H 0.130 0.870 24 H 0.103 0.897 25 H 0.399 0.601 26 H 0.073 0.927 27 H 0.067 0.933 28 H 0.397 0.603 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -1.481 -7.865 0.816 8.045 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 N -0.432 5.432 2 C -0.185 4.185 3 Si 0.808 3.192 4 H -0.184 1.184 5 H -0.194 1.194 6 H -0.175 1.175 7 C -0.495 4.495 8 H 0.113 0.887 9 C 0.092 3.908 10 C -0.224 4.224 11 C -0.069 4.069 12 C -0.209 4.209 13 C -0.206 4.206 14 C -0.214 4.214 15 S 0.250 5.750 16 C -0.180 4.180 17 O -0.261 6.261 18 C -0.100 4.100 19 C 0.067 3.933 20 O -0.393 6.393 21 H 0.104 0.896 22 H 0.141 0.859 23 H 0.148 0.852 24 H 0.121 0.879 25 H 0.257 0.743 26 H 0.091 0.909 27 H 0.085 0.915 28 H 0.247 0.753 Dipole moment (debyes) X Y Z Total from point charges -2.412 -6.296 -0.720 6.781 hybrid contribution 0.556 -0.428 1.268 1.449 sum -1.856 -6.724 0.548 6.997 Atomic orbital electron populations 1.69933 1.09359 1.31333 1.32619 1.26928 0.95472 1.05090 0.91009 0.85151 0.78739 0.74914 0.80437 1.18437 1.19352 1.17533 1.19931 0.98923 0.91935 1.38741 0.88733 1.17861 0.90875 0.93619 0.88477 1.20963 1.03654 0.92474 1.05323 1.20532 0.92972 0.98040 0.95332 1.17638 1.02767 0.90771 1.09752 1.22356 0.99088 0.97956 1.01242 1.20445 1.01787 0.94368 1.04816 1.83752 1.31309 1.04150 1.55775 1.21602 0.99539 0.90570 1.06274 1.84743 1.36618 1.57711 1.47016 1.19140 0.96006 0.96302 0.98506 1.20540 0.93589 0.87992 0.91155 1.86575 1.67071 1.33411 1.52286 0.89601 0.85921 0.85231 0.87939 0.74338 0.90890 0.91494 0.75278 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 N -0.81 -41.11 10.98 21.80 0.24 -40.88 15 2 C 0.03 1.56 5.12 85.20 0.44 2.00 15 3 Si 0.99 35.98 29.59 68.60 2.03 38.01 15 4 H -0.26 -9.37 7.11 99.48 0.71 -8.67 15 5 H -0.27 -9.40 7.11 99.48 0.71 -8.69 15 6 H -0.25 -8.65 7.11 99.48 0.71 -7.95 15 7 C -0.47 -23.69 9.02 23.30 0.21 -23.48 15 8 H 0.09 4.44 7.90 -2.91 -0.02 4.42 15 9 C 0.10 5.14 5.56 -21.33 -0.12 5.02 15 10 C -0.20 -9.54 9.68 22.31 0.22 -9.32 15 11 C -0.05 -2.12 9.58 22.52 0.22 -1.90 15 12 C -0.20 -9.44 5.86 -21.31 -0.12 -9.57 15 13 C -0.09 -4.62 6.45 22.91 0.15 -4.47 15 14 C -0.19 -10.20 8.72 22.91 0.20 -10.00 15 15 S -0.01 -0.44 23.29 -56.49 -1.32 -1.75 15 16 C -0.02 -0.81 7.46 66.75 0.50 -0.31 15 17 O -0.45 -14.27 13.10 -88.08 -1.15 -15.43 15 18 C -0.09 -3.42 5.47 -20.46 -0.11 -3.53 15 19 C 0.15 4.37 6.95 71.24 0.49 4.86 15 20 O -0.58 -17.61 13.64 -148.98 -2.03 -19.64 15 21 H 0.29 13.48 8.30 -92.71 -0.77 12.71 15 22 H 0.12 5.06 8.06 -2.91 -0.02 5.03 15 23 H 0.13 4.63 7.36 -2.91 -0.02 4.60 15 24 H 0.10 5.85 6.16 -2.91 -0.02 5.84 15 25 H 0.40 8.07 9.06 -74.06 -0.67 7.40 15 26 H 0.07 1.75 7.83 -2.39 -0.02 1.73 15 27 H 0.07 1.77 7.28 -2.39 -0.02 1.75 15 28 H 0.40 6.83 9.12 -74.06 -0.68 6.15 15 Total: -1.00 -65.77 262.87 -0.29 -66.05 By element: Atomic # 1 Polarization: 24.45 SS G_CDS: -0.12 Total: 24.34 kcal Atomic # 6 Polarization: -52.76 SS G_CDS: 2.06 Total: -50.70 kcal Atomic # 7 Polarization: -41.11 SS G_CDS: 0.24 Total: -40.88 kcal Atomic # 8 Polarization: -31.88 SS G_CDS: -3.19 Total: -35.07 kcal Atomic # 14 Polarization: 35.98 SS G_CDS: 2.03 Total: 38.01 kcal Atomic # 16 Polarization: -0.44 SS G_CDS: -1.32 Total: -1.75 kcal Total: -65.77 -0.29 -66.05 kcal The number of atoms in the molecule is 28 The average number of expansion shells was 15.00 The maximum number of expansion shells was 15 The minimum number of expansion shells was 15 **** 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. ZINC000396354018.mol2 28 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 -16.032 kcal (2) G-P(sol) polarization free energy of solvation -65.768 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -81.800 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.286 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -66.054 kcal (6) G-S(sol) free energy of system = (1) + (5) -82.085 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.33 seconds