Wall clock time and date at job start Tue Mar 31 2020 22:26:45 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 1.31629 * 1 3 3 Si 1.86799 * 120.00245 * 2 1 4 4 H 1.48494 * 109.47147 * 269.99963 * 3 2 1 5 5 H 1.48500 * 109.47131 * 29.99541 * 3 2 1 6 6 H 1.48497 * 109.47339 * 149.99731 * 3 2 1 7 7 C 1.38802 * 119.99858 * 179.97438 * 2 1 3 8 8 H 1.07998 * 120.00184 * 0.02562 * 7 2 1 9 9 S 1.76202 * 120.00074 * 180.02562 * 7 2 1 10 10 C 1.81000 * 100.00025 * 180.02562 * 9 7 2 11 11 C 1.50698 * 109.47007 * 180.02562 * 10 9 7 12 12 O 1.21287 * 120.00171 * 0.02562 * 11 10 9 13 13 N 1.34780 * 120.00070 * 179.97438 * 11 10 9 14 14 C 1.46497 * 120.00171 * 180.02562 * 13 11 10 15 15 H 1.09011 * 109.52066 * 325.08102 * 14 13 11 16 16 C 1.53036 * 109.49572 * 205.00008 * 14 13 11 17 17 C 1.53042 * 109.52579 * 178.67222 * 16 14 13 18 18 C 1.53194 * 109.31315 * 61.37221 * 17 16 14 19 19 N 1.46926 * 108.77486 * 305.36674 * 18 17 16 20 20 C 1.34773 * 120.62823 * 233.62868 * 19 18 17 21 21 O 1.21623 * 119.99866 * 173.22751 * 20 19 18 22 22 C 1.47233 * 120.00453 * 353.22985 * 20 19 18 23 23 C 1.36996 * 127.19259 * 157.00310 * 22 20 19 24 24 N 1.33328 * 106.37172 * 179.84734 * 23 22 20 25 25 N 1.28504 * 109.43612 * 0.42777 * 24 23 22 26 26 N 1.28708 * 110.64211 * 359.73013 * 25 24 23 27 27 H 0.97001 * 126.03718 * 179.97438 * 26 25 24 28 28 C 1.46926 * 118.73819 * 53.60394 * 19 18 17 29 29 H 0.96999 * 119.99326 * 0.02562 * 1 2 3 30 30 H 1.08999 * 109.46865 * 60.00014 * 10 9 7 31 31 H 1.09003 * 109.47177 * 300.00129 * 10 9 7 32 32 H 0.96998 * 119.99452 * 0.02562 * 13 11 10 33 33 H 1.08998 * 109.46300 * 58.66220 * 16 14 13 34 34 H 1.08999 * 109.45841 * 298.68638 * 16 14 13 35 35 H 1.09003 * 109.49872 * 181.32329 * 17 16 14 36 36 H 1.08996 * 109.49952 * 301.39114 * 17 16 14 37 37 H 1.09002 * 109.58312 * 65.15043 * 18 17 16 38 38 H 1.08993 * 109.58974 * 185.57474 * 18 17 16 39 39 H 1.08001 * 126.81852 * 359.97438 * 23 22 20 40 40 H 1.08998 * 109.58617 * 66.18364 * 28 19 18 41 41 H 1.09000 * 109.58434 * 186.46002 * 28 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 1.3163 0.0000 0.0000 3 14 2.2504 1.6177 0.0000 4 1 2.4979 2.0463 -1.4000 5 1 1.4478 2.6527 0.6999 6 1 3.5479 1.4401 0.7001 7 6 2.0103 -1.2021 0.0005 8 1 1.4703 -2.1374 0.0005 9 16 3.7723 -1.2021 0.0012 10 6 4.0865 -2.9847 0.0009 11 6 5.5730 -3.2327 0.0021 12 8 6.3440 -2.2964 0.0035 13 7 6.0456 -4.4949 0.0026 14 6 7.4906 -4.7360 0.0043 15 1 7.9892 -3.9649 -0.5832 16 6 7.7799 -6.1096 -0.6050 17 6 9.2913 -6.3484 -0.6340 18 6 9.8346 -6.3307 0.7983 19 7 9.4347 -5.0710 1.4402 20 6 10.3547 -4.2706 2.0142 21 8 10.0316 -3.1753 2.4326 22 6 11.7509 -4.7221 2.1347 23 6 12.8662 -3.9379 2.2687 24 7 13.9044 -4.7710 2.3453 25 7 13.4872 -5.9833 2.2578 26 7 12.2068 -6.0144 2.1302 27 1 11.6610 -6.8118 2.0454 28 6 8.0131 -4.7001 1.4439 29 1 -0.4849 0.8401 -0.0004 30 1 3.6439 -3.4314 -0.8893 31 1 3.6432 -3.4319 0.8907 32 1 5.4289 -5.2436 0.0019 33 1 7.3871 -6.1463 -1.6211 34 1 7.3017 -6.8821 -0.0027 35 1 9.4981 -7.3168 -1.0895 36 1 9.7727 -5.5624 -1.2158 37 1 9.4223 -7.1717 1.3558 38 1 10.9220 -6.4012 0.7776 39 1 12.8981 -2.8591 2.3070 40 1 7.4523 -5.4082 2.0541 41 1 7.8985 -3.6957 1.8515 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 ZINC001070962910.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 22:26:45 Heat of formation + Delta-G solvation = 11.311102 kcal Electronic energy + Delta-G solvation = -26467.355638 eV Core-core repulsion = 22510.148866 eV Total energy + Delta-G solvation = -3957.206772 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) -44.61175 -41.56733 -40.54180 -38.65910 -36.08216 -34.72351 -34.66920 -33.52319 -32.71183 -31.83704 -29.78550 -27.85261 -27.36374 -24.84863 -24.75192 -23.80139 -22.46387 -21.76877 -21.38984 -19.87987 -19.23067 -18.27103 -17.90345 -17.71859 -17.61260 -17.15792 -16.95928 -16.59649 -16.07697 -15.78450 -15.68623 -15.38717 -15.20861 -14.98598 -14.82364 -14.45763 -14.25789 -13.95103 -13.66653 -13.39495 -13.35645 -13.03393 -12.83176 -12.65607 -12.52295 -12.26318 -12.10887 -11.89018 -11.74033 -11.72309 -11.50195 -11.18029 -11.01534 -10.76087 -10.52739 -10.49485 -9.80532 -9.00267 -8.52479 -6.22721 -0.29198 0.97201 1.05910 1.20318 1.29773 1.42475 1.47695 1.54159 1.61432 1.86035 2.21861 2.25944 2.71710 2.85943 2.96999 3.37279 3.56107 3.64283 3.75970 3.79234 3.85754 3.93091 3.97800 4.12257 4.24807 4.30511 4.41262 4.47437 4.64454 4.68599 4.73328 4.83716 4.96450 5.08470 5.13105 5.26396 5.44262 5.54807 5.70282 5.95981 6.10979 6.45290 6.68580 6.93342 7.06738 7.18935 8.59661 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.022232 B = 0.002278 C = 0.002112 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1259.134818 B =12288.915366 C =13257.402848 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.915 5.915 2 C 0.046 3.954 3 Si 0.912 3.088 4 H -0.263 1.263 5 H -0.260 1.260 6 H -0.240 1.240 7 C -0.525 4.525 8 H 0.065 0.935 9 S -0.184 6.184 10 C -0.109 4.109 11 C 0.534 3.466 12 O -0.561 6.561 13 N -0.703 5.703 14 C 0.135 3.865 15 H 0.058 0.942 16 C -0.119 4.119 17 C -0.126 4.126 18 C 0.078 3.922 19 N -0.597 5.597 20 C 0.592 3.408 21 O -0.554 6.554 22 C -0.058 4.058 23 C 0.025 3.975 24 N -0.292 5.292 25 N -0.053 5.053 26 N -0.350 5.350 27 H 0.469 0.531 28 C 0.105 3.895 29 H 0.277 0.723 30 H 0.117 0.883 31 H 0.117 0.883 32 H 0.422 0.578 33 H 0.085 0.915 34 H 0.106 0.894 35 H 0.123 0.877 36 H 0.056 0.944 37 H 0.125 0.875 38 H 0.088 0.912 39 H 0.212 0.788 40 H 0.105 0.895 41 H 0.057 0.943 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 22.439 -23.786 0.568 32.705 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 -0.553 5.553 2 C -0.159 4.159 3 Si 0.734 3.266 4 H -0.187 1.187 5 H -0.184 1.184 6 H -0.164 1.164 7 C -0.673 4.673 8 H 0.084 0.916 9 S 0.043 5.957 10 C -0.260 4.260 11 C 0.320 3.680 12 O -0.438 6.438 13 N -0.358 5.358 14 C 0.029 3.971 15 H 0.076 0.924 16 C -0.157 4.157 17 C -0.165 4.165 18 C -0.043 4.043 19 N -0.330 5.330 20 C 0.377 3.623 21 O -0.429 6.429 22 C -0.192 4.192 23 C -0.134 4.134 24 N -0.157 5.157 25 N -0.035 5.035 26 N -0.086 5.086 27 H 0.326 0.674 28 C -0.019 4.019 29 H 0.086 0.914 30 H 0.135 0.865 31 H 0.135 0.865 32 H 0.261 0.739 33 H 0.103 0.897 34 H 0.124 0.876 35 H 0.142 0.858 36 H 0.074 0.926 37 H 0.143 0.857 38 H 0.106 0.894 39 H 0.229 0.771 40 H 0.123 0.877 41 H 0.076 0.924 Dipole moment (debyes) X Y Z Total from point charges 24.695 -22.329 0.903 33.305 hybrid contribution -2.794 0.124 -0.122 2.799 sum 21.901 -22.205 0.782 31.198 Atomic orbital electron populations 1.70008 1.07173 1.28955 1.49201 1.25527 0.95260 1.02123 0.93034 0.85903 0.80644 0.79898 0.80156 1.18742 1.18394 1.16363 1.22444 0.90100 0.96707 1.58052 0.91633 1.84862 1.06609 1.06665 1.97596 1.23264 0.95695 0.99322 1.07736 1.20069 0.89461 0.83578 0.74940 1.90742 1.59352 1.44043 1.49703 1.45643 1.07819 1.06863 1.75459 1.21282 0.80313 0.99987 0.95527 0.92358 1.21840 0.97385 0.93591 1.02883 1.21889 0.94532 1.04888 0.95159 1.22631 1.00879 0.85396 0.95411 1.48001 1.06793 1.22673 1.55553 1.17060 0.82816 0.84024 0.78366 1.90933 1.79748 1.21785 1.50476 1.21963 0.95944 0.85729 1.15613 1.24217 0.86458 1.02687 1.00081 1.75024 1.27223 0.95525 1.17878 1.78151 0.92644 1.16804 1.15926 1.46261 1.07022 1.08708 1.46610 0.67448 1.22032 0.79708 1.02257 0.97882 0.91393 0.86477 0.86513 0.73917 0.89664 0.87579 0.85841 0.92550 0.85720 0.89435 0.77125 0.87677 0.92395 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 -0.92 -55.42 13.97 21.65 0.30 -55.12 16 2 C 0.05 2.70 5.50 84.86 0.47 3.16 16 3 Si 0.91 45.34 27.74 68.60 1.90 47.24 16 4 H -0.26 -12.75 7.11 99.48 0.71 -12.04 16 5 H -0.26 -12.13 7.11 99.48 0.71 -11.42 16 6 H -0.24 -12.02 6.74 99.48 0.67 -11.35 16 7 C -0.53 -30.23 10.04 67.95 0.68 -29.55 16 8 H 0.07 3.94 8.03 -2.91 -0.02 3.91 16 9 S -0.18 -9.23 18.55 -56.49 -1.05 -10.27 16 10 C -0.11 -3.87 6.16 71.24 0.44 -3.44 16 11 C 0.53 17.14 7.82 87.66 0.69 17.82 16 12 O -0.56 -23.82 15.53 -3.05 -0.05 -23.87 16 13 N -0.70 -13.41 5.08 -442.16 -2.25 -15.66 16 14 C 0.13 2.24 2.60 45.07 0.12 2.36 16 15 H 0.06 1.44 7.58 -2.38 -0.02 1.42 16 16 C -0.12 -0.67 5.35 30.62 0.16 -0.50 16 17 C -0.13 -0.37 6.08 30.67 0.19 -0.19 16 18 C 0.08 0.21 5.41 86.36 0.47 0.68 16 19 N -0.60 -8.14 2.97 -823.02 -2.45 -10.59 16 20 C 0.59 12.04 7.65 86.61 0.66 12.70 16 21 O -0.55 -17.30 16.42 -4.11 -0.07 -17.37 16 22 C -0.06 -0.91 6.49 40.40 0.26 -0.65 16 23 C 0.03 0.45 11.94 84.17 1.00 1.46 16 24 N -0.29 -5.78 12.35 -57.50 -0.71 -6.49 16 25 N -0.05 -0.84 13.35 37.02 0.49 -0.34 16 26 N -0.35 -3.36 5.78 -48.53 -0.28 -3.64 16 27 H 0.47 0.38 6.42 -219.90 -1.41 -1.03 16 28 C 0.10 1.86 6.02 86.36 0.52 2.38 16 29 H 0.28 15.52 8.31 -92.71 -0.77 14.75 16 30 H 0.12 3.72 8.14 -2.40 -0.02 3.70 16 31 H 0.12 3.73 8.14 -2.39 -0.02 3.71 16 32 H 0.42 4.67 8.60 -92.71 -0.80 3.87 16 33 H 0.08 0.49 8.14 -2.39 -0.02 0.47 16 34 H 0.11 0.02 8.14 -2.39 -0.02 0.00 16 35 H 0.12 -0.37 8.14 -2.39 -0.02 -0.39 16 36 H 0.06 0.43 8.14 -2.39 -0.02 0.41 16 37 H 0.12 -0.55 8.14 -2.39 -0.02 -0.57 16 38 H 0.09 0.09 4.16 -2.39 -0.01 0.08 16 39 H 0.21 3.31 8.06 -2.91 -0.02 3.28 16 40 H 0.11 1.26 8.14 -2.39 -0.02 1.24 16 41 H 0.06 1.67 7.00 -2.39 -0.02 1.65 16 Total: -1.00 -88.54 357.02 0.37 -88.18 By element: Atomic # 1 Polarization: 2.83 SS G_CDS: -1.14 Total: 1.69 kcal Atomic # 6 Polarization: 0.59 SS G_CDS: 5.66 Total: 6.24 kcal Atomic # 7 Polarization: -86.96 SS G_CDS: -4.89 Total: -91.84 kcal Atomic # 8 Polarization: -41.12 SS G_CDS: -0.11 Total: -41.23 kcal Atomic # 14 Polarization: 45.34 SS G_CDS: 1.90 Total: 47.24 kcal Atomic # 16 Polarization: -9.23 SS G_CDS: -1.05 Total: -10.27 kcal Total: -88.54 0.37 -88.18 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. ZINC001070962910.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 99.486 kcal (2) G-P(sol) polarization free energy of solvation -88.544 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 10.942 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.369 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -88.175 kcal (6) G-S(sol) free energy of system = (1) + (5) 11.311 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.63 seconds