Wall clock time and date at job start Wed Apr 1 2020 04:44:06 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 1.31619 * 1 3 3 Si 1.86796 * 120.00575 * 2 1 4 4 H 1.48495 * 109.47187 * 274.14162 * 3 2 1 5 5 H 1.48501 * 109.46727 * 34.14424 * 3 2 1 6 6 H 1.48499 * 109.47250 * 154.13961 * 3 2 1 7 7 C 1.38822 * 119.99760 * 180.02562 * 2 1 3 8 8 H 1.07999 * 119.99885 * 170.41756 * 7 2 1 9 9 N 1.36937 * 119.99596 * 350.42067 * 7 2 1 10 10 C 1.47422 * 125.65207 * 349.98395 * 9 7 2 11 11 C 1.55125 * 104.94523 * 203.97389 * 10 9 7 12 12 H 1.08991 * 110.93988 * 81.20806 * 11 10 9 13 13 O 1.42898 * 111.16432 * 205.13507 * 11 10 9 14 14 C 1.55160 * 101.47929 * 323.21883 * 11 10 9 15 15 H 1.08994 * 110.72209 * 276.82873 * 14 11 10 16 16 N 1.46508 * 110.71729 * 153.73634 * 14 11 10 17 17 C 1.34775 * 119.99875 * 157.43908 * 16 14 11 18 18 O 1.21281 * 120.00156 * 0.02562 * 17 16 14 19 19 C 1.50696 * 120.00056 * 179.97438 * 17 16 14 20 20 C 1.50695 * 109.47497 * 180.02562 * 19 17 16 21 21 C 1.35512 * 120.05011 * 264.72507 * 20 19 17 22 22 C 1.39486 * 121.58499 * 180.22955 * 21 20 19 23 23 C 1.35507 * 121.58357 * 0.06748 * 22 21 20 24 24 C 1.41767 * 119.89818 * 359.95334 * 23 22 21 25 25 N 1.32336 * 131.00447 * 180.02562 * 24 23 22 26 26 S 1.55539 * 109.41925 * 179.97438 * 25 24 23 27 27 N 1.55541 * 100.20462 * 0.02562 * 26 25 24 28 28 C 1.32328 * 109.42173 * 359.97438 * 27 26 25 29 29 C 1.47028 * 125.64791 * 169.94661 * 9 7 2 30 30 H 0.97001 * 119.99602 * 359.97438 * 1 2 3 31 31 H 1.09006 * 110.36452 * 322.92901 * 10 9 7 32 32 H 1.08994 * 110.36664 * 85.14627 * 10 9 7 33 33 H 0.96712 * 113.99539 * 292.16498 * 13 11 10 34 34 H 0.96999 * 119.99937 * 337.44325 * 16 14 11 35 35 H 1.09001 * 109.47447 * 60.00167 * 19 17 16 36 36 H 1.09004 * 109.47436 * 300.00159 * 19 17 16 37 37 H 1.08002 * 119.20421 * 0.27300 * 21 20 19 38 38 H 1.07997 * 119.21305 * 180.02562 * 22 21 20 39 39 H 1.07997 * 120.05397 * 179.97438 * 23 22 21 40 40 H 1.09008 * 109.87875 * 59.55186 * 29 9 7 41 41 H 1.09002 * 109.87430 * 298.39578 * 29 9 7 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 1.3162 0.0000 0.0000 3 14 2.2503 1.6176 0.0000 4 1 2.4103 2.0968 -1.3964 5 1 1.4944 2.6257 0.7859 6 1 3.5889 1.4163 0.6107 7 6 2.0102 -1.2023 -0.0005 8 1 3.0789 -1.2087 -0.1562 9 7 1.3397 -2.3799 0.1963 10 6 -0.0654 -2.5076 0.6237 11 6 -0.1581 -3.9103 1.2796 12 1 0.2044 -3.8845 2.3072 13 8 -1.4919 -4.4198 1.2217 14 6 0.7929 -4.7377 0.3750 15 1 0.2744 -5.0764 -0.5218 16 7 1.3484 -5.8761 1.1113 17 6 1.8105 -6.9507 0.4420 18 8 1.7669 -6.9753 -0.7698 19 6 2.3824 -8.1214 1.1992 20 6 2.8248 -9.1823 0.2247 21 6 1.9956 -10.2089 -0.0835 22 6 2.3741 -11.2106 -0.9774 23 6 3.5888 -11.2041 -1.5778 24 6 4.5079 -10.1606 -1.3019 25 7 5.7311 -9.9384 -1.7555 26 16 6.2902 -8.6346 -1.1179 27 7 5.0832 -8.2240 -0.2268 28 6 4.1114 -9.1113 -0.3663 29 6 1.9018 -3.7265 0.0157 30 1 -0.4849 0.8401 0.0004 31 1 -0.3135 -1.7319 1.3482 32 1 -0.7307 -2.4482 -0.2376 33 1 -2.1225 -3.9343 1.7713 34 1 1.3836 -5.8563 2.0804 35 1 1.6213 -8.5318 1.8628 36 1 3.2377 -7.7903 1.7883 37 1 1.0180 -10.2521 0.3735 38 1 1.6826 -12.0109 -1.1957 39 1 3.8563 -11.9925 -2.2657 40 1 2.7570 -3.8631 0.6777 41 1 2.2075 -3.8644 -1.0215 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC001078299652.mol2 41 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 04:44:06 Heat of formation + Delta-G solvation = -5.194774 kcal Electronic energy + Delta-G solvation = -27610.476707 eV Core-core repulsion = 23617.065435 eV Total energy + Delta-G solvation = -3993.411271 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 348.104 amu Computer time = 0.78 seconds Orbital eigenvalues (eV) -42.01816 -40.93870 -39.39664 -37.45691 -36.69911 -35.55146 -35.19616 -33.71761 -32.79230 -30.38295 -29.22170 -28.59840 -27.80761 -26.21576 -23.56651 -22.89921 -22.41232 -21.70033 -21.25159 -20.24016 -19.08741 -18.56764 -18.44704 -17.93958 -17.39575 -17.22281 -16.74432 -16.55496 -16.16482 -15.90376 -15.57244 -15.41268 -14.86079 -14.61394 -14.44567 -14.02351 -13.94070 -13.62541 -13.23412 -13.23132 -13.10591 -12.86598 -12.76734 -12.76081 -12.71620 -12.59488 -12.47247 -12.10824 -11.93602 -11.91872 -11.59466 -11.52901 -11.17341 -10.82496 -10.75747 -10.15299 -9.67171 -9.27795 -8.98082 -7.94709 -5.32496 -1.10818 0.43559 0.47668 0.73280 0.82164 1.44854 1.46021 1.56194 1.66645 2.09463 2.44657 2.64679 3.05193 3.08007 3.25231 3.59521 3.69211 3.76758 3.96033 3.99058 4.02379 4.08273 4.16606 4.20620 4.33756 4.39977 4.48051 4.58176 4.60449 4.80245 4.91499 4.99675 5.06958 5.28699 5.31600 5.40776 5.42464 5.46251 5.47113 5.58939 5.94631 6.09776 6.57266 6.86542 6.99705 7.28951 7.63882 8.29029 9.16356 Molecular weight = 348.10amu Principal moments of inertia in cm(-1) A = 0.014573 B = 0.002665 C = 0.002325 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1920.860251 B =10503.979967 C =12041.689799 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.945 5.945 2 C -0.057 4.057 3 Si 0.982 3.018 4 H -0.289 1.289 5 H -0.286 1.286 6 H -0.268 1.268 7 C -0.253 4.253 8 H 0.077 0.923 9 N -0.617 5.617 10 C 0.156 3.844 11 C 0.095 3.905 12 H 0.094 0.906 13 O -0.565 6.565 14 C 0.159 3.841 15 H 0.072 0.928 16 N -0.703 5.703 17 C 0.516 3.484 18 O -0.582 6.582 19 C -0.087 4.087 20 C -0.042 4.042 21 C -0.077 4.077 22 C -0.076 4.076 23 C -0.086 4.086 24 C 0.058 3.942 25 N -0.620 5.620 26 S 0.824 5.176 27 N -0.622 5.622 28 C 0.073 3.927 29 C 0.132 3.868 30 H 0.252 0.748 31 H 0.054 0.946 32 H 0.000 1.000 33 H 0.398 0.602 34 H 0.418 0.582 35 H 0.153 0.847 36 H 0.114 0.886 37 H 0.170 0.830 38 H 0.179 0.821 39 H 0.156 0.844 40 H 0.040 0.960 41 H 0.002 0.998 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 4.844 -24.849 6.809 26.216 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 -0.592 5.592 2 C -0.251 4.251 3 Si 0.809 3.191 4 H -0.216 1.216 5 H -0.212 1.212 6 H -0.193 1.193 7 C -0.382 4.382 8 H 0.095 0.905 9 N -0.345 5.345 10 C 0.030 3.970 11 C 0.034 3.966 12 H 0.112 0.888 13 O -0.373 6.373 14 C 0.053 3.947 15 H 0.091 0.909 16 N -0.355 5.355 17 C 0.304 3.696 18 O -0.461 6.461 19 C -0.126 4.126 20 C -0.049 4.049 21 C -0.101 4.101 22 C -0.100 4.100 23 C -0.111 4.111 24 C -0.100 4.100 25 N -0.472 5.472 26 S 0.872 5.128 27 N -0.473 5.473 28 C -0.085 4.085 29 C 0.006 3.994 30 H 0.061 0.939 31 H 0.072 0.928 32 H 0.018 0.982 33 H 0.248 0.752 34 H 0.255 0.745 35 H 0.171 0.829 36 H 0.132 0.868 37 H 0.188 0.812 38 H 0.197 0.803 39 H 0.173 0.827 40 H 0.058 0.942 41 H 0.020 0.980 Dipole moment (debyes) X Y Z Total from point charges 7.125 -24.045 5.251 25.623 hybrid contribution -1.231 1.177 0.287 1.727 sum 5.894 -22.869 5.539 24.257 Atomic orbital electron populations 1.70126 1.06317 1.25897 1.56890 1.25696 0.96605 1.01126 1.01650 0.85037 0.77921 0.78792 0.77358 1.21573 1.21216 1.19257 1.19389 0.91621 0.83801 1.43379 0.90496 1.44551 1.09958 1.00524 1.79464 1.21881 0.85150 0.93693 0.96308 1.23218 0.82905 0.92196 0.98296 0.88822 1.86400 1.18752 1.58969 1.73133 1.21424 0.92419 0.85455 0.95423 0.90949 1.45750 1.62718 1.16171 1.10906 1.21186 0.76480 0.83996 0.87938 1.90707 1.57106 1.81909 1.16385 1.20644 1.03995 0.90878 0.97085 1.18708 0.89607 0.97498 0.99136 1.21140 0.99803 0.92423 0.96744 1.21196 0.95534 0.99061 0.94225 1.20629 0.92345 0.96201 1.01885 1.21767 0.90916 0.99670 0.97675 1.72143 1.16595 1.25420 1.33082 1.78218 1.17058 1.03074 1.14432 1.72078 1.10376 1.33262 1.31609 1.21485 0.96204 0.91128 0.99708 1.21668 0.95616 0.85031 0.97134 0.93878 0.92751 0.98217 0.75169 0.74460 0.82889 0.86822 0.81250 0.80322 0.82686 0.94233 0.97953 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 -0.94 -56.05 10.68 21.65 0.23 -55.82 16 2 C -0.06 -3.23 5.40 84.86 0.46 -2.77 16 3 Si 0.98 45.51 29.56 68.60 2.03 47.53 16 4 H -0.29 -13.36 7.11 99.48 0.71 -12.65 16 5 H -0.29 -13.04 7.11 99.48 0.71 -12.33 16 6 H -0.27 -11.79 7.11 99.48 0.71 -11.09 16 7 C -0.25 -14.53 10.24 84.04 0.86 -13.67 16 8 H 0.08 4.30 7.85 -2.91 -0.02 4.27 16 9 N -0.62 -32.70 3.40 -691.54 -2.35 -35.05 16 10 C 0.16 7.55 5.17 86.93 0.45 8.00 16 11 C 0.09 3.35 4.06 32.06 0.13 3.48 16 12 H 0.09 2.80 8.00 -2.39 -0.02 2.78 16 13 O -0.57 -17.71 13.48 -148.98 -2.01 -19.72 16 14 C 0.16 6.03 3.00 46.18 0.14 6.17 16 15 H 0.07 3.18 7.62 -2.39 -0.02 3.17 16 16 N -0.70 -19.76 5.12 -436.92 -2.24 -22.00 16 17 C 0.52 15.15 7.82 87.66 0.69 15.83 16 18 O -0.58 -23.16 15.72 -3.03 -0.05 -23.21 16 19 C -0.09 -1.65 5.81 29.10 0.17 -1.48 16 20 C -0.04 -0.93 4.40 -19.63 -0.09 -1.02 16 21 C -0.08 -1.18 9.51 21.94 0.21 -0.97 16 22 C -0.08 -0.99 9.89 21.94 0.22 -0.77 16 23 C -0.09 -1.55 10.09 22.51 0.23 -1.33 16 24 C 0.06 1.46 7.16 41.97 0.30 1.77 16 25 N -0.62 -15.82 11.44 -72.83 -0.83 -16.66 16 26 S 0.82 18.31 23.60 -56.49 -1.33 16.98 16 27 N -0.62 -17.48 11.39 -72.85 -0.83 -18.31 16 28 C 0.07 1.97 6.90 41.97 0.29 2.26 16 29 C 0.13 6.05 7.00 86.72 0.61 6.65 16 30 H 0.25 14.40 8.31 -92.71 -0.77 13.63 16 31 H 0.05 2.83 6.94 -2.38 -0.02 2.81 16 32 H 0.00 -0.01 8.07 -2.39 -0.02 -0.03 16 33 H 0.40 8.91 9.12 -74.05 -0.68 8.23 16 34 H 0.42 8.40 8.54 -92.71 -0.79 7.61 16 35 H 0.15 1.46 8.02 -2.39 -0.02 1.44 16 36 H 0.11 2.05 8.13 -2.39 -0.02 2.03 16 37 H 0.17 1.42 8.03 -2.91 -0.02 1.40 16 38 H 0.18 0.83 8.06 -2.91 -0.02 0.80 16 39 H 0.16 2.09 8.06 -2.91 -0.02 2.07 16 40 H 0.04 1.73 8.03 -2.38 -0.02 1.71 16 41 H 0.00 0.12 8.14 -2.39 -0.02 0.10 16 Total: -1.00 -85.06 363.06 -3.08 -88.14 By element: Atomic # 1 Polarization: 16.30 SS G_CDS: -0.36 Total: 15.94 kcal Atomic # 6 Polarization: 17.51 SS G_CDS: 4.65 Total: 22.17 kcal Atomic # 7 Polarization: -141.82 SS G_CDS: -6.02 Total: -147.83 kcal Atomic # 8 Polarization: -40.87 SS G_CDS: -2.06 Total: -42.92 kcal Atomic # 14 Polarization: 45.51 SS G_CDS: 2.03 Total: 47.53 kcal Atomic # 16 Polarization: 18.31 SS G_CDS: -1.33 Total: 16.98 kcal Total: -85.06 -3.08 -88.14 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. ZINC001078299652.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 82.944 kcal (2) G-P(sol) polarization free energy of solvation -85.057 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -2.113 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.082 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -88.138 kcal (6) G-S(sol) free energy of system = (1) + (5) -5.195 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.78 seconds