Wall clock time and date at job start Mon Mar 30 2020 04:44:12 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 1.30872 * 1 3 3 Si 1.86803 * 119.99853 * 2 1 4 4 H 1.48498 * 109.46852 * 269.99875 * 3 2 1 5 5 H 1.48507 * 109.47096 * 29.99435 * 3 2 1 6 6 H 1.48500 * 109.47279 * 149.99329 * 3 2 1 7 7 C 1.40071 * 120.00235 * 179.97438 * 2 1 3 8 8 H 1.08002 * 119.99668 * 180.02562 * 7 2 1 9 9 C 1.39909 * 119.99831 * 0.02562 * 7 2 1 10 10 C 1.38286 * 125.40803 * 180.26906 * 9 7 2 11 11 C 1.36810 * 114.19887 * 180.20488 * 10 9 7 12 12 C 1.50703 * 122.32626 * 179.77751 * 11 10 9 13 13 H 1.09002 * 109.47083 * 339.74083 * 12 11 10 14 14 N 1.46898 * 109.47113 * 219.73884 * 12 11 10 15 15 C 1.53000 * 109.46801 * 99.73797 * 12 11 10 16 16 C 1.52997 * 109.47060 * 184.99876 * 15 12 11 17 17 C 1.50697 * 109.47466 * 180.02562 * 16 15 12 18 18 O 1.20826 * 119.99685 * 0.02562 * 17 16 15 19 19 O 1.34232 * 120.00079 * 179.97438 * 17 16 15 20 20 C 1.34529 * 115.34279 * 359.51095 * 11 10 9 21 21 S 1.75797 * 110.14599 * 0.26944 * 20 11 10 22 22 H 0.96997 * 120.00531 * 0.02562 * 1 2 3 23 23 H 1.08002 * 122.90069 * 0.02562 * 10 9 7 24 24 H 1.00901 * 110.99892 * 176.04953 * 14 12 11 25 25 H 1.00899 * 111.00057 * 300.00501 * 14 12 11 26 26 H 1.09002 * 109.47398 * 305.00045 * 15 12 11 27 27 H 1.09001 * 109.47194 * 65.00225 * 15 12 11 28 28 H 1.09002 * 109.47153 * 300.00319 * 16 15 12 29 29 H 1.08998 * 109.47533 * 59.99948 * 16 15 12 30 30 H 0.96708 * 116.99537 * 180.02562 * 19 17 16 31 31 H 1.08001 * 124.92724 * 180.22967 * 20 11 10 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 1.3087 0.0000 0.0000 3 14 2.2427 1.6178 0.0000 4 1 2.4902 2.0464 -1.4001 5 1 1.4400 2.6528 0.7000 6 1 3.5402 1.4403 0.7002 7 6 2.0091 -1.2130 0.0005 8 1 3.0891 -1.2129 0.0010 9 6 1.3096 -2.4247 0.0005 10 6 1.8851 -3.6821 0.0063 11 6 0.9838 -4.7113 0.0005 12 6 1.4110 -6.1566 0.0004 13 1 2.4402 -6.2312 -0.3506 14 7 0.5327 -6.9267 -0.8903 15 6 1.3147 -6.7168 1.4209 16 6 1.8653 -8.1441 1.4446 17 6 1.7700 -8.6962 2.8435 18 8 1.3085 -8.0179 3.7305 19 8 2.1968 -9.9420 3.1039 20 6 -0.3103 -4.3436 0.0005 21 16 -0.4415 -2.5905 0.0005 22 1 -0.4851 0.8400 -0.0004 23 1 2.9537 -3.8381 0.0119 24 1 0.8377 -7.8861 -0.9579 25 1 -0.4278 -6.8732 -0.5859 26 1 1.8965 -6.0917 2.0983 27 1 0.2721 -6.7243 1.7387 28 1 1.2835 -8.7692 0.7672 29 1 2.9079 -8.1367 1.1268 30 1 2.1148 -10.2524 4.0161 31 1 -1.1471 -5.0263 -0.0001 RHF calculation, no. of doubly occupied orbitals= 44 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 ZINC000687731647.mol2 31 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 04:44:12 Heat of formation + Delta-G solvation = -116.463162 kcal Electronic energy + Delta-G solvation = -16068.521910 eV Core-core repulsion = 13246.080831 eV Total energy + Delta-G solvation = -2822.441079 eV No. of doubly occupied orbitals = 44 Molecular weight (most abundant/longest-lived isotopes) = 255.072 amu Computer time = 0.29 seconds Orbital eigenvalues (eV) -41.30761 -39.10954 -37.18856 -36.51274 -35.19441 -32.32546 -30.66999 -27.69656 -26.81052 -24.58378 -22.35495 -21.34048 -19.77740 -19.27066 -18.91208 -17.55487 -17.30458 -17.13805 -16.81083 -15.93859 -15.60326 -14.91170 -14.71138 -14.36825 -13.92661 -13.71344 -13.50669 -13.31573 -12.97627 -12.66756 -12.59040 -12.52936 -12.34478 -11.99405 -11.87477 -11.69799 -11.54024 -11.21871 -10.74219 -9.54845 -9.25597 -8.74968 -8.56109 -6.41858 0.86698 1.18748 1.37407 1.51791 1.54642 1.77628 2.06698 2.11525 2.32356 2.36216 3.14610 3.73708 3.87403 4.02414 4.15792 4.41494 4.58218 4.62004 4.81514 4.94826 5.04053 5.12474 5.20445 5.37924 5.60624 5.69713 5.96930 6.22123 6.29101 6.41830 6.70955 6.72726 6.80808 6.97957 8.11740 Molecular weight = 255.07amu Principal moments of inertia in cm(-1) A = 0.035293 B = 0.004586 C = 0.004375 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 793.164583 B = 6104.355600 C = 6397.756185 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.812 5.812 2 C 0.013 3.987 3 Si 1.008 2.992 4 H -0.258 1.258 5 H -0.262 1.262 6 H -0.256 1.256 7 C -0.430 4.430 8 H 0.093 0.907 9 C 0.007 3.993 10 C -0.374 4.374 11 C -0.030 4.030 12 C 0.164 3.836 13 H 0.084 0.916 14 N -0.839 5.839 15 C -0.124 4.124 16 C -0.107 4.107 17 C 0.483 3.517 18 O -0.559 6.559 19 O -0.510 6.510 20 C -0.399 4.399 21 S 0.087 5.913 22 H 0.304 0.696 23 H 0.099 0.901 24 H 0.350 0.650 25 H 0.341 0.659 26 H 0.050 0.950 27 H 0.054 0.946 28 H 0.130 0.870 29 H 0.130 0.870 30 H 0.426 0.574 31 H 0.133 0.867 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 3.050 -11.689 1.892 12.228 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 -0.439 5.439 2 C -0.204 4.204 3 Si 0.827 3.173 4 H -0.183 1.183 5 H -0.186 1.186 6 H -0.180 1.180 7 C -0.465 4.465 8 H 0.111 0.889 9 C -0.112 4.112 10 C -0.400 4.400 11 C -0.042 4.042 12 C 0.050 3.950 13 H 0.102 0.898 14 N -0.371 5.371 15 C -0.164 4.164 16 C -0.144 4.144 17 C 0.328 3.672 18 O -0.450 6.450 19 O -0.323 6.323 20 C -0.534 4.534 21 S 0.347 5.653 22 H 0.117 0.883 23 H 0.117 0.883 24 H 0.165 0.835 25 H 0.155 0.845 26 H 0.069 0.931 27 H 0.073 0.927 28 H 0.148 0.852 29 H 0.148 0.852 30 H 0.288 0.712 31 H 0.150 0.850 Dipole moment (debyes) X Y Z Total from point charges 1.766 -9.822 1.150 10.045 hybrid contribution 1.007 -0.951 1.640 2.147 sum 2.773 -10.773 2.790 11.469 Atomic orbital electron populations 1.68954 1.08940 1.31837 1.34206 1.27152 0.95883 1.05611 0.91727 0.84770 0.78627 0.74072 0.79805 1.18257 1.18640 1.17951 1.19462 0.95646 0.89874 1.41476 0.88861 1.22181 0.95386 0.96788 0.96890 1.19771 0.97974 0.91372 1.30889 1.18200 0.92152 0.94765 0.99041 1.19858 0.96919 0.88908 0.89277 0.89761 1.58775 1.06227 1.16991 1.55071 1.22042 1.01315 0.94600 0.98424 1.21433 1.06737 0.95972 0.90307 1.23804 0.72215 0.79009 0.92212 1.90753 1.44109 1.60556 1.49557 1.84503 1.77295 1.30999 1.39543 1.25262 0.99041 1.00556 1.28567 1.84330 1.06085 0.98351 1.76550 0.88315 0.88300 0.83476 0.84492 0.93089 0.92676 0.85190 0.85207 0.71228 0.84956 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 -41.14 10.65 21.86 0.23 -40.91 16 2 C 0.01 0.65 5.50 85.28 0.47 1.12 16 3 Si 1.01 36.76 29.56 68.60 2.03 38.79 16 4 H -0.26 -9.04 7.11 99.48 0.71 -8.33 16 5 H -0.26 -8.99 7.11 99.48 0.71 -8.29 16 6 H -0.26 -9.10 7.11 99.48 0.71 -8.39 16 7 C -0.43 -23.15 9.29 23.12 0.21 -22.93 16 8 H 0.09 4.78 7.85 -2.91 -0.02 4.76 16 9 C 0.01 0.42 6.19 22.69 0.14 0.56 16 10 C -0.37 -19.61 9.95 21.95 0.22 -19.39 16 11 C -0.03 -1.40 4.84 -21.05 -0.10 -1.50 16 12 C 0.16 5.58 3.11 44.17 0.14 5.72 16 13 H 0.08 2.75 8.08 -2.39 -0.02 2.73 16 14 N -0.84 -23.91 9.03 -171.80 -1.55 -25.46 16 15 C -0.12 -3.76 4.13 30.59 0.13 -3.64 16 16 C -0.11 -2.15 5.58 29.85 0.17 -1.99 16 17 C 0.48 11.11 8.33 71.23 0.59 11.70 16 18 O -0.56 -18.09 16.74 21.97 0.37 -17.72 16 19 O -0.51 -8.02 13.42 -51.44 -0.69 -8.71 16 20 C -0.40 -19.17 10.42 66.97 0.70 -18.47 16 21 S 0.09 4.62 20.27 -56.49 -1.14 3.48 16 22 H 0.30 13.74 8.30 -92.71 -0.77 12.97 16 23 H 0.10 4.97 8.06 -2.91 -0.02 4.95 16 24 H 0.35 7.06 7.55 -89.69 -0.68 6.38 16 25 H 0.34 9.72 7.71 -89.69 -0.69 9.03 16 26 H 0.05 1.83 8.10 -2.39 -0.02 1.81 16 27 H 0.05 1.84 8.10 -2.39 -0.02 1.82 16 28 H 0.13 1.86 6.87 -2.39 -0.02 1.84 16 29 H 0.13 2.08 8.14 -2.39 -0.02 2.06 16 30 H 0.43 3.33 9.10 -74.05 -0.67 2.65 16 31 H 0.13 5.73 7.16 -2.91 -0.02 5.71 16 Total: -1.00 -68.70 283.35 1.05 -67.65 By element: Atomic # 1 Polarization: 32.56 SS G_CDS: -0.85 Total: 31.71 kcal Atomic # 6 Polarization: -51.49 SS G_CDS: 2.66 Total: -48.82 kcal Atomic # 7 Polarization: -65.05 SS G_CDS: -1.32 Total: -66.37 kcal Atomic # 8 Polarization: -26.11 SS G_CDS: -0.32 Total: -26.43 kcal Atomic # 14 Polarization: 36.76 SS G_CDS: 2.03 Total: 38.79 kcal Atomic # 16 Polarization: 4.62 SS G_CDS: -1.14 Total: 3.48 kcal Total: -68.70 1.05 -67.65 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. ZINC000687731647.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 -48.817 kcal (2) G-P(sol) polarization free energy of solvation -68.697 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -117.514 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.051 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.646 kcal (6) G-S(sol) free energy of system = (1) + (5) -116.463 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.29 seconds