Wall clock time and date at job start Sun Mar 29 2020 21:56:47 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 1.31518 * 1 3 3 Si 1.86790 * 119.99999 * 2 1 4 4 H 1.48500 * 109.47268 * 269.99815 * 3 2 1 5 5 H 1.48495 * 109.47351 * 29.99840 * 3 2 1 6 6 H 1.48499 * 109.47344 * 149.99989 * 3 2 1 7 7 C 1.37878 * 119.99872 * 179.97438 * 2 1 3 8 8 H 1.07997 * 120.00003 * 180.02562 * 7 2 1 9 9 C 1.50699 * 120.00120 * 0.02562 * 7 2 1 10 10 C 1.52999 * 109.47497 * 179.97438 * 9 7 2 11 11 S 1.81394 * 109.47503 * 179.97438 * 10 9 7 12 12 C 1.81397 * 103.00344 * 180.02562 * 11 10 9 13 13 C 1.50700 * 109.47486 * 180.02562 * 12 11 10 14 14 C 1.30525 * 124.44870 * 104.97763 * 13 12 11 15 15 C 1.51101 * 111.10317 * 180.26748 * 14 13 12 16 16 C 1.54803 * 104.64610 * 343.19479 * 15 14 13 17 17 C 1.51099 * 124.44623 * 284.99656 * 13 12 11 18 18 H 0.97003 * 119.99971 * 0.02562 * 1 2 3 19 19 H 1.09005 * 109.47420 * 59.99625 * 9 7 2 20 20 H 1.09004 * 109.47290 * 299.99744 * 9 7 2 21 21 H 1.09005 * 109.46884 * 59.99552 * 10 9 7 22 22 H 1.09004 * 109.46850 * 300.00269 * 10 9 7 23 23 H 1.09007 * 109.47156 * 59.99542 * 12 11 10 24 24 H 1.09006 * 109.46967 * 300.00281 * 12 11 10 25 25 H 1.08002 * 124.44516 * 359.97438 * 14 13 12 26 26 H 1.08996 * 110.39014 * 102.12741 * 15 14 13 27 27 H 1.08993 * 110.38575 * 224.50514 * 15 14 13 28 28 H 1.09005 * 111.24700 * 266.87567 * 16 15 14 29 29 H 1.08994 * 110.89817 * 142.88949 * 16 15 14 30 30 H 1.08999 * 110.39225 * 315.23024 * 17 13 12 31 31 H 1.09001 * 110.38605 * 77.49232 * 17 13 12 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 1.3152 0.0000 0.0000 3 14 2.2491 1.6177 0.0000 4 1 2.4967 2.0463 -1.4001 5 1 1.4466 2.6526 0.7000 6 1 3.5467 1.4401 0.7000 7 6 2.0045 -1.1941 0.0005 8 1 3.0845 -1.1941 0.0010 9 6 1.2511 -2.4992 0.0005 10 6 2.2452 -3.6621 0.0005 11 16 1.3382 -5.2331 0.0013 12 6 2.6648 -6.4703 0.0020 13 6 2.0632 -7.8520 0.0020 14 6 2.0239 -8.6402 -1.0376 15 6 1.3484 -9.9496 -0.7024 16 6 1.3549 -10.0086 0.8445 17 6 1.4260 -8.5066 1.2056 18 1 -0.4850 0.8401 -0.0004 19 1 0.6246 -2.5571 -0.8897 20 1 0.6240 -2.5568 0.8903 21 1 2.8719 -3.6044 0.8905 22 1 2.8719 -3.6044 -0.8895 23 1 3.2810 -6.3418 0.8920 24 1 3.2811 -6.3427 -0.8881 25 1 2.4179 -8.3876 -2.0110 26 1 0.3263 -9.9574 -1.0808 27 1 1.9135 -10.7850 -1.1154 28 1 2.2300 -10.5421 1.2158 29 1 0.4359 -10.4583 1.2203 30 1 2.0443 -8.3578 2.0908 31 1 0.4256 -8.1063 1.3704 RHF calculation, no. of doubly occupied orbitals= 37 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) 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 ZINC000592461947.mol2 31 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sun Mar 29 2020 21:56:47 Heat of formation + Delta-G solvation = -27.587041 kcal Electronic energy + Delta-G solvation = -11310.380110 eV Core-core repulsion = 9295.497946 eV Total energy + Delta-G solvation = -2014.882164 eV No. of doubly occupied orbitals = 37 Molecular weight (most abundant/longest-lived isotopes) = 212.093 amu Computer time = 0.20 seconds Orbital eigenvalues (eV) -39.52783 -35.79091 -32.92330 -32.41268 -29.32832 -27.50686 -26.58486 -23.14038 -21.73631 -19.04224 -18.68480 -17.18454 -16.55305 -16.48821 -16.07312 -15.70620 -15.03764 -14.53918 -14.10437 -13.61097 -13.47888 -12.96941 -12.89950 -12.61135 -12.39801 -12.25425 -12.18006 -11.95729 -11.91750 -11.67792 -11.34800 -10.86125 -10.61993 -9.57509 -8.65142 -8.24231 -6.38408 0.45460 1.39958 1.42452 1.51738 1.54974 1.89134 2.39923 3.08889 3.59366 3.63704 4.16278 4.22353 4.23728 4.27339 4.36435 4.45852 4.55927 4.84489 4.86076 4.90233 4.99714 5.03850 5.20949 5.35954 5.38837 5.47286 5.60648 5.72097 5.91424 6.09406 6.75836 7.31331 8.87697 Molecular weight = 212.09amu Principal moments of inertia in cm(-1) A = 0.096534 B = 0.004805 C = 0.004746 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 289.984165 B = 5825.817202 C = 5898.515624 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.932 5.932 2 C 0.001 3.999 3 Si 0.974 3.026 4 H -0.270 1.270 5 H -0.281 1.281 6 H -0.260 1.260 7 C -0.544 4.544 8 H 0.067 0.933 9 C 0.044 3.956 10 C -0.050 4.050 11 S -0.316 6.316 12 C -0.026 4.026 13 C -0.140 4.140 14 C -0.145 4.145 15 C -0.098 4.098 16 C -0.118 4.118 17 C -0.095 4.095 18 H 0.266 0.734 19 H -0.005 1.005 20 H -0.004 1.004 21 H 0.075 0.925 22 H 0.075 0.925 23 H 0.092 0.908 24 H 0.091 0.909 25 H 0.130 0.870 26 H 0.079 0.921 27 H 0.089 0.911 28 H 0.082 0.918 29 H 0.083 0.917 30 H 0.071 0.929 31 H 0.063 0.937 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 5.797 -18.125 0.100 19.029 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 -0.572 5.572 2 C -0.197 4.197 3 Si 0.797 3.203 4 H -0.196 1.196 5 H -0.207 1.207 6 H -0.184 1.184 7 C -0.584 4.584 8 H 0.086 0.914 9 C 0.006 3.994 10 C -0.198 4.198 11 S -0.087 6.087 12 C -0.173 4.173 13 C -0.142 4.142 14 C -0.167 4.167 15 C -0.135 4.135 16 C -0.155 4.155 17 C -0.132 4.132 18 H 0.075 0.925 19 H 0.014 0.986 20 H 0.014 0.986 21 H 0.094 0.906 22 H 0.094 0.906 23 H 0.110 0.890 24 H 0.110 0.890 25 H 0.148 0.852 26 H 0.098 0.902 27 H 0.107 0.893 28 H 0.101 0.899 29 H 0.102 0.898 30 H 0.090 0.910 31 H 0.082 0.918 Dipole moment (debyes) X Y Z Total from point charges 4.558 -18.156 0.134 18.720 hybrid contribution 1.265 1.448 -0.051 1.923 sum 5.823 -16.708 0.082 17.694 Atomic orbital electron populations 1.70123 1.08040 1.28112 1.50918 1.26046 0.95792 1.03612 0.94253 0.85317 0.78587 0.77732 0.78626 1.19580 1.20654 1.18420 1.21555 0.93717 0.91367 1.51712 0.91438 1.18679 0.93694 0.91516 0.95506 1.23335 1.00161 0.92490 1.03792 1.87140 1.20094 1.03258 1.98163 1.22004 0.97083 0.92529 1.05640 1.21473 1.01446 0.93084 0.98164 1.23482 0.98515 0.96834 0.97874 1.21418 1.00633 0.95259 0.96170 1.22482 1.03192 0.94533 0.95335 1.21302 1.00035 0.95682 0.96157 0.92525 0.98645 0.98605 0.90620 0.90605 0.88972 0.88997 0.85176 0.90226 0.89286 0.89943 0.89812 0.91020 0.91813 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 N -0.93 -57.66 13.29 21.45 0.28 -57.38 16 2 C 0.00 0.08 5.46 84.65 0.46 0.54 16 3 Si 0.97 44.15 29.54 68.60 2.03 46.18 16 4 H -0.27 -11.81 7.11 99.48 0.71 -11.10 16 5 H -0.28 -12.47 7.11 99.48 0.71 -11.76 16 6 H -0.26 -11.16 7.11 99.48 0.71 -10.45 16 7 C -0.54 -31.29 9.11 25.60 0.23 -31.06 16 8 H 0.07 3.65 7.74 -2.91 -0.02 3.62 16 9 C 0.04 2.45 4.98 29.85 0.15 2.60 16 10 C -0.05 -2.17 5.88 71.98 0.42 -1.75 16 11 S -0.32 -12.28 21.72 -56.49 -1.23 -13.51 16 12 C -0.03 -0.72 6.40 71.24 0.46 -0.27 16 13 C -0.14 -3.50 5.42 -15.87 -0.09 -3.58 16 14 C -0.14 -3.10 10.56 26.26 0.28 -2.82 16 15 C -0.10 -1.62 6.82 30.59 0.21 -1.41 16 16 C -0.12 -1.91 7.20 31.77 0.23 -1.69 16 17 C -0.09 -2.11 6.76 30.53 0.21 -1.90 16 18 H 0.27 15.35 8.31 -92.71 -0.77 14.58 16 19 H 0.00 -0.29 8.14 -2.38 -0.02 -0.31 16 20 H 0.00 -0.27 8.14 -2.38 -0.02 -0.29 16 21 H 0.08 3.12 8.14 -2.39 -0.02 3.10 16 22 H 0.08 3.12 8.14 -2.39 -0.02 3.10 16 23 H 0.09 2.43 8.14 -2.39 -0.02 2.41 16 24 H 0.09 2.40 8.08 -2.39 -0.02 2.38 16 25 H 0.13 2.56 8.06 -2.91 -0.02 2.53 16 26 H 0.08 1.31 8.14 -2.39 -0.02 1.29 16 27 H 0.09 1.14 8.14 -2.39 -0.02 1.12 16 28 H 0.08 1.14 8.14 -2.38 -0.02 1.12 16 29 H 0.08 1.16 8.14 -2.39 -0.02 1.15 16 30 H 0.07 1.51 8.14 -2.39 -0.02 1.49 16 31 H 0.06 1.61 8.14 -2.39 -0.02 1.59 16 Total: -1.00 -65.20 276.20 4.71 -60.49 By element: Atomic # 1 Polarization: 4.49 SS G_CDS: 1.07 Total: 5.56 kcal Atomic # 6 Polarization: -43.89 SS G_CDS: 2.56 Total: -41.34 kcal Atomic # 7 Polarization: -57.66 SS G_CDS: 0.28 Total: -57.38 kcal Atomic # 14 Polarization: 44.15 SS G_CDS: 2.03 Total: 46.18 kcal Atomic # 16 Polarization: -12.28 SS G_CDS: -1.23 Total: -13.51 kcal Total: -65.20 4.71 -60.49 kcal The number of atoms in the molecule is 31 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. ZINC000592461947.mol2 31 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 32.904 kcal (2) G-P(sol) polarization free energy of solvation -65.205 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -32.300 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.713 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -60.491 kcal (6) G-S(sol) free energy of system = (1) + (5) -27.587 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.20 seconds