Wall clock time and date at job start Wed Apr 1 2020 03:10:23 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 1.30820 * 1 3 3 Si 1.86804 * 120.00131 * 2 1 4 4 H 1.48498 * 109.47083 * 240.00634 * 3 2 1 5 5 H 1.48507 * 109.46723 * 0.02562 * 3 2 1 6 6 H 1.48501 * 109.47109 * 119.99972 * 3 2 1 7 7 C 1.39945 * 120.00208 * 180.02562 * 2 1 3 8 8 H 1.08001 * 120.00218 * 168.74869 * 7 2 1 9 9 C 1.41393 * 119.99912 * 348.75560 * 7 2 1 10 10 C 1.40732 * 120.24332 * 330.86804 * 9 7 2 11 11 C 1.37605 * 119.74644 * 179.97438 * 10 9 7 12 12 C 1.38657 * 120.24812 * 359.97438 * 11 10 9 13 13 C 1.38612 * 120.49771 * 359.97438 * 12 11 10 14 14 C 1.37638 * 120.25254 * 0.02562 * 13 12 11 15 15 S 1.76199 * 120.12727 * 180.02562 * 14 13 12 16 16 O 1.42098 * 106.40066 * 227.78170 * 15 14 13 17 17 O 1.42099 * 106.40543 * 0.70386 * 15 14 13 18 18 N 1.65599 * 107.21862 * 114.24218 * 15 14 13 19 19 C 1.46639 * 126.57278 * 96.45618 * 18 15 14 20 20 C 1.50791 * 107.70398 * 179.97438 * 19 18 15 21 21 C 1.38481 * 131.17039 * 180.02562 * 20 19 18 22 22 C 1.38178 * 120.21978 * 179.97438 * 21 20 19 23 23 C 1.38166 * 120.02168 * 0.02562 * 22 21 20 24 24 C 1.38638 * 119.89850 * 359.97438 * 23 22 21 25 25 O 1.35901 * 120.00521 * 180.02562 * 24 23 22 26 26 C 1.37971 * 108.85689 * 0.02562 * 20 19 18 27 27 C 1.46634 * 126.57380 * 276.14418 * 18 15 14 28 28 H 0.96997 * 120.00404 * 359.97438 * 1 2 3 29 29 H 1.07996 * 120.12758 * 359.95577 * 10 9 7 30 30 H 1.07997 * 119.87214 * 180.02562 * 11 10 9 31 31 H 1.07995 * 119.74719 * 179.72982 * 12 11 10 32 32 H 1.08004 * 119.87143 * 179.97438 * 13 12 11 33 33 H 1.09004 * 109.81459 * 299.53018 * 19 18 15 34 34 H 1.09004 * 109.80925 * 60.36227 * 19 18 15 35 35 H 1.08004 * 119.89634 * 359.96143 * 21 20 19 36 36 H 1.07996 * 119.98802 * 179.97438 * 22 21 20 37 37 H 1.07998 * 120.04898 * 180.02562 * 23 22 21 38 38 H 0.96705 * 113.99978 * 269.97626 * 25 24 23 39 39 H 1.09003 * 109.81726 * 299.56565 * 27 18 15 40 40 H 1.09009 * 109.81420 * 60.47722 * 27 18 15 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 1.3082 0.0000 0.0000 3 14 2.2423 1.6177 0.0000 4 1 3.0959 1.6965 -1.2126 5 1 1.2772 2.7465 0.0006 6 1 3.0960 1.6964 1.2125 7 6 2.0080 -1.2119 -0.0005 8 1 3.0724 -1.2208 -0.1830 9 6 1.3214 -2.4248 0.2377 10 6 0.1662 -2.4394 1.0414 11 6 -0.4943 -3.6254 1.2661 12 6 -0.0260 -4.8031 0.7036 13 6 1.1101 -4.8003 -0.0905 14 6 1.7867 -3.6257 -0.3288 15 16 3.2301 -3.6259 -1.3393 16 8 4.2153 -2.8856 -0.6318 17 8 3.4227 -4.9682 -1.7638 18 7 2.8759 -2.7514 -2.7002 19 6 3.1825 -1.3366 -2.9340 20 6 2.6735 -0.9780 -4.3074 21 6 2.7072 0.2153 -5.0093 22 6 2.1638 0.2919 -6.2774 23 6 1.5836 -0.8240 -6.8494 24 6 1.5482 -2.0201 -6.1493 25 8 0.9785 -3.1192 -6.7100 26 6 2.0952 -2.0950 -4.8743 27 6 2.2012 -3.2449 -3.9049 28 1 -0.4850 0.8400 0.0004 29 1 -0.2002 -1.5233 1.4804 30 1 -1.3811 -3.6389 1.8822 31 1 -0.5482 -5.7301 0.8888 32 1 1.4661 -5.7236 -0.5233 33 1 2.6854 -0.7218 -2.1836 34 1 4.2600 -1.1792 -2.8856 35 1 3.1597 1.0891 -4.5641 36 1 2.1918 1.2245 -6.8213 37 1 1.1590 -0.7648 -7.8406 38 1 0.0339 -3.2108 -6.5241 39 1 2.7823 -4.0531 -4.3490 40 1 1.2038 -3.6029 -3.6494 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 ZINC001665104459.mol2 40 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 03:10:23 Heat of formation + Delta-G solvation = -78.999166 kcal Electronic energy + Delta-G solvation = -28582.501260 eV Core-core repulsion = 24646.334228 eV Total energy + Delta-G solvation = -3936.167032 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 345.087 amu Computer time = 0.90 seconds Orbital eigenvalues (eV) -41.42641 -39.42575 -38.55091 -38.22037 -36.85635 -36.82122 -35.70906 -32.09624 -31.56261 -31.45937 -31.34920 -28.60739 -27.34399 -25.44461 -23.46624 -22.98773 -22.51854 -22.49202 -20.02406 -19.53632 -19.15632 -18.51009 -17.89021 -17.33456 -17.05356 -16.81262 -16.39893 -16.26139 -16.09328 -15.83349 -15.33338 -15.02676 -14.95371 -14.47714 -14.07601 -13.98068 -13.79196 -13.76662 -13.33066 -13.13410 -13.09119 -13.06285 -13.00566 -12.94959 -12.88736 -12.74330 -12.38215 -12.22428 -12.14238 -11.69004 -11.50170 -11.19534 -11.09374 -10.37470 -9.87572 -9.53282 -9.45948 -9.35547 -8.81788 -6.65915 -0.40224 0.25958 0.28553 0.49364 0.95217 1.35905 1.46484 1.49609 2.12112 2.14066 2.59038 2.61408 2.88746 3.11770 3.30005 3.45854 3.51846 3.77335 4.12963 4.24937 4.29207 4.34287 4.45860 4.46813 4.50092 4.63364 4.66110 4.72446 4.84863 4.95055 4.95946 5.11515 5.16913 5.19955 5.31340 5.38110 5.44855 5.50228 5.63761 5.69342 5.82697 5.87447 5.97236 6.09349 6.47735 6.65948 6.79769 6.83409 8.13487 Molecular weight = 345.09amu Principal moments of inertia in cm(-1) A = 0.009700 B = 0.005874 C = 0.004621 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2885.862245 B = 4765.395802 C = 6058.342591 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.797 5.797 2 C 0.052 3.948 3 Si 0.954 3.046 4 H -0.237 1.237 5 H -0.258 1.258 6 H -0.263 1.263 7 C -0.495 4.495 8 H 0.105 0.895 9 C 0.167 3.833 10 C -0.183 4.183 11 C -0.075 4.075 12 C -0.248 4.248 13 C -0.017 4.017 14 C -0.796 4.796 15 S 2.742 3.258 16 O -0.988 6.988 17 O -0.999 6.999 18 N -1.006 6.006 19 C 0.150 3.850 20 C -0.092 4.092 21 C -0.117 4.117 22 C -0.090 4.090 23 C -0.143 4.143 24 C 0.122 3.878 25 O -0.506 6.506 26 C -0.147 4.147 27 C 0.172 3.828 28 H 0.297 0.703 29 H 0.116 0.884 30 H 0.124 0.876 31 H 0.129 0.871 32 H 0.122 0.878 33 H 0.090 0.910 34 H 0.083 0.917 35 H 0.144 0.856 36 H 0.168 0.832 37 H 0.160 0.840 38 H 0.408 0.592 39 H 0.083 0.917 40 H 0.073 0.927 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -1.221 4.478 -11.459 12.364 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 -0.420 5.420 2 C -0.168 4.168 3 Si 0.773 3.227 4 H -0.160 1.160 5 H -0.182 1.182 6 H -0.188 1.188 7 C -0.522 4.522 8 H 0.123 0.877 9 C 0.162 3.838 10 C -0.203 4.203 11 C -0.094 4.094 12 C -0.268 4.268 13 C -0.037 4.037 14 C -0.891 4.891 15 S 2.842 3.158 16 O -0.979 6.979 17 O -0.990 6.990 18 N -0.841 5.841 19 C 0.025 3.975 20 C -0.094 4.094 21 C -0.135 4.135 22 C -0.108 4.108 23 C -0.161 4.161 24 C 0.076 3.924 25 O -0.319 6.319 26 C -0.148 4.148 27 C 0.047 3.953 28 H 0.108 0.892 29 H 0.134 0.866 30 H 0.142 0.858 31 H 0.147 0.853 32 H 0.139 0.861 33 H 0.108 0.892 34 H 0.101 0.899 35 H 0.162 0.838 36 H 0.185 0.815 37 H 0.177 0.823 38 H 0.267 0.733 39 H 0.101 0.899 40 H 0.091 0.909 Dipole moment (debyes) X Y Z Total from point charges -0.021 4.047 -11.444 12.138 hybrid contribution -1.101 0.524 0.944 1.542 sum -1.121 4.571 -10.500 11.507 Atomic orbital electron populations 1.69794 1.08768 1.31502 1.31925 1.26658 0.95452 1.04031 0.90672 0.85654 0.79658 0.75934 0.81500 1.15978 1.18190 1.18780 1.20520 0.97814 0.91375 1.42527 0.87690 1.17326 0.90546 0.90465 0.85469 1.21588 0.99183 0.97481 1.02060 1.21275 0.98074 0.92906 0.97147 1.20902 1.00384 0.98251 1.07248 1.20569 0.93475 0.95299 0.94361 1.30081 1.29104 1.01479 1.28481 0.99755 0.73969 0.70802 0.71288 1.93436 1.59297 1.72978 1.72181 1.93423 1.86705 1.36282 1.82634 1.58109 1.74867 1.21321 1.29844 1.20368 1.00635 0.81395 0.95059 1.20433 0.99017 0.94868 0.95042 1.20851 1.01112 0.96210 0.95347 1.21331 0.95906 0.99514 0.94009 1.21607 1.02013 0.90887 1.01590 1.18019 0.97905 0.87519 0.88909 1.84748 1.29714 1.42635 1.74774 1.20741 1.03151 0.95916 0.95034 1.19851 0.97434 0.95031 0.83019 0.89218 0.86638 0.85805 0.85330 0.86056 0.89213 0.89930 0.83847 0.81502 0.82282 0.73284 0.89940 0.90893 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 19. 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 -0.80 -36.93 10.89 21.83 0.24 -36.69 16 2 C 0.05 2.34 4.93 85.26 0.42 2.76 16 3 Si 0.95 34.21 29.28 68.60 2.01 36.22 16 4 H -0.24 -7.77 7.11 99.48 0.71 -7.06 16 5 H -0.26 -8.53 7.11 99.48 0.71 -7.82 16 6 H -0.26 -9.71 7.11 99.48 0.71 -9.00 16 7 C -0.49 -24.67 6.13 23.46 0.14 -24.52 16 8 H 0.11 5.31 4.83 -2.91 -0.01 5.29 16 9 C 0.17 8.58 5.54 -21.29 -0.12 8.46 16 10 C -0.18 -9.08 8.66 22.73 0.20 -8.88 16 11 C -0.08 -3.29 10.02 22.22 0.22 -3.07 16 12 C -0.25 -10.46 10.05 22.46 0.23 -10.23 16 13 C -0.02 -0.78 9.53 22.22 0.21 -0.57 16 14 C -0.80 -38.94 5.97 22.73 0.14 -38.81 16 15 S 2.74 125.97 5.32 -56.49 -0.30 125.67 16 16 O -0.99 -49.21 15.18 -128.00 -1.94 -51.16 16 17 O -1.00 -46.99 16.68 -128.00 -2.13 -49.12 16 18 N -1.01 -40.64 3.67 -522.95 -1.92 -42.55 16 19 C 0.15 5.60 6.48 85.64 0.55 6.15 16 20 C -0.09 -2.92 6.22 -19.84 -0.12 -3.05 16 21 C -0.12 -2.87 10.04 22.31 0.22 -2.64 16 22 C -0.09 -1.72 10.04 22.24 0.22 -1.49 16 23 C -0.14 -2.88 9.99 22.35 0.22 -2.66 16 24 C 0.12 3.13 6.71 22.53 0.15 3.28 16 25 O -0.51 -11.46 13.47 -92.44 -1.25 -12.71 16 26 C -0.15 -4.62 6.18 -19.74 -0.12 -4.74 16 27 C 0.17 6.08 7.06 85.63 0.60 6.69 16 28 H 0.30 12.32 8.30 -92.71 -0.77 11.55 16 29 H 0.12 5.80 6.27 -2.91 -0.02 5.79 16 30 H 0.12 4.55 8.06 -2.91 -0.02 4.53 16 31 H 0.13 4.50 8.06 -2.91 -0.02 4.47 16 32 H 0.12 5.06 7.32 -2.91 -0.02 5.04 16 33 H 0.09 3.64 5.04 -2.38 -0.01 3.63 16 34 H 0.08 2.87 8.14 -2.38 -0.02 2.85 16 35 H 0.14 2.94 8.06 -2.91 -0.02 2.91 16 36 H 0.17 1.91 8.06 -2.91 -0.02 1.89 16 37 H 0.16 2.26 8.06 -2.91 -0.02 2.23 16 38 H 0.41 5.66 9.06 -74.05 -0.67 4.99 16 39 H 0.08 2.81 8.14 -2.39 -0.02 2.79 16 40 H 0.07 2.54 8.14 -2.38 -0.02 2.52 16 Total: -1.00 -65.38 344.90 -1.68 -67.06 By element: Atomic # 1 Polarization: 36.16 SS G_CDS: 0.44 Total: 36.60 kcal Atomic # 6 Polarization: -76.49 SS G_CDS: 3.17 Total: -73.32 kcal Atomic # 7 Polarization: -77.56 SS G_CDS: -1.68 Total: -79.24 kcal Atomic # 8 Polarization: -107.66 SS G_CDS: -5.32 Total: -112.98 kcal Atomic # 14 Polarization: 34.21 SS G_CDS: 2.01 Total: 36.22 kcal Atomic # 16 Polarization: 125.97 SS G_CDS: -0.30 Total: 125.67 kcal Total: -65.38 -1.68 -67.06 kcal The number of atoms in the molecule is 40 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. ZINC001665104459.mol2 40 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 -11.937 kcal (2) G-P(sol) polarization free energy of solvation -65.381 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -77.318 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.681 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.062 kcal (6) G-S(sol) free energy of system = (1) + (5) -78.999 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.90 seconds