Wall clock time and date at job start Tue Mar 31 2020 19:28:03 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 1.31635 * 1 3 3 Si 1.86797 * 120.00122 * 2 1 4 4 H 1.48502 * 109.47180 * 180.02562 * 3 2 1 5 5 H 1.48499 * 109.47284 * 300.00128 * 3 2 1 6 6 H 1.48496 * 109.47452 * 60.00243 * 3 2 1 7 7 C 1.38797 * 119.99735 * 180.02562 * 2 1 3 8 8 H 1.08001 * 120.00101 * 180.02562 * 7 2 1 9 9 S 1.76198 * 120.00063 * 359.97438 * 7 2 1 10 10 C 1.81000 * 100.00177 * 180.02562 * 9 7 2 11 11 C 1.50697 * 109.47215 * 179.97438 * 10 9 7 12 12 O 1.21275 * 119.99963 * 0.02562 * 11 10 9 13 13 N 1.34784 * 119.99702 * 180.02562 * 11 10 9 14 14 C 1.47360 * 126.79129 * 0.29142 * 13 11 10 15 15 C 1.56016 * 105.14439 * 182.05720 * 14 13 11 16 16 H 1.09007 * 116.89463 * 159.04291 * 15 14 13 17 17 C 1.57432 * 99.69623 * 32.50002 * 15 14 13 18 18 C 1.49293 * 126.94033 * 180.02562 * 13 11 10 19 19 H 1.08999 * 116.78783 * 16.29444 * 18 13 11 20 20 C 1.56019 * 104.09071 * 246.68206 * 18 13 11 21 21 N 1.47867 * 105.10056 * 288.76936 * 20 18 13 22 22 C 1.34777 * 126.94311 * 181.98494 * 21 20 18 23 23 O 1.21619 * 120.00500 * 180.02562 * 22 21 20 24 24 C 1.47236 * 120.00001 * 0.02562 * 22 21 20 25 25 C 1.37007 * 127.18918 * 179.68842 * 24 22 21 26 26 N 1.33326 * 106.37014 * 179.84636 * 25 24 22 27 27 N 1.28513 * 109.43899 * 0.43180 * 26 25 24 28 28 N 1.28715 * 110.63773 * 359.72281 * 27 26 25 29 29 H 0.97002 * 126.03616 * 179.97438 * 28 27 26 30 30 H 0.96997 * 119.99454 * 359.97438 * 1 2 3 31 31 H 1.09000 * 109.46747 * 60.00086 * 10 9 7 32 32 H 1.08997 * 109.47435 * 300.00357 * 10 9 7 33 33 H 1.09001 * 110.42910 * 63.06785 * 14 13 11 34 34 H 1.08998 * 110.15516 * 300.90464 * 14 13 11 35 35 H 1.08995 * 112.54128 * 191.97752 * 17 15 14 36 36 H 1.09007 * 112.31765 * 64.44047 * 17 15 14 37 37 H 1.08997 * 110.31478 * 169.86633 * 20 18 13 38 38 H 1.08995 * 110.31868 * 47.67624 * 20 18 13 39 39 H 1.07996 * 126.81451 * 359.96059 * 25 24 22 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 3.7104 1.3463 -0.0006 5 1 1.8916 2.3964 -1.2125 6 1 1.8917 2.3964 1.2125 7 6 2.0103 -1.2021 -0.0005 8 1 3.0903 -1.2021 -0.0001 9 16 1.1292 -2.7279 -0.0005 10 6 2.5157 -3.8915 -0.0005 11 6 1.9872 -5.3027 0.0001 12 8 0.7909 -5.5022 0.0000 13 7 2.8440 -6.3432 0.0007 14 6 4.3160 -6.2743 0.0069 15 6 4.7937 -7.7584 -0.0493 16 1 5.8098 -7.9364 -0.4017 17 6 3.6310 -8.3789 -0.9104 18 6 2.4932 -7.7943 0.0009 19 1 1.4702 -8.0525 -0.2726 20 6 2.9855 -8.3040 1.3909 21 7 4.4616 -8.2989 1.3023 22 6 5.3314 -8.6964 2.2520 23 8 6.5282 -8.6372 2.0437 24 6 4.8328 -9.2024 3.5416 25 6 5.5790 -9.6477 4.6009 26 7 4.7114 -10.0030 5.5488 27 7 3.5133 -9.8099 5.1261 28 7 3.5253 -9.3319 3.9310 29 1 2.7465 -9.1041 3.3996 30 1 -0.4849 0.8401 0.0004 31 1 3.1243 -3.7314 0.8895 32 1 3.1244 -3.7315 -0.8904 33 1 4.6707 -5.7968 0.9203 34 1 4.6701 -5.7294 -0.8682 35 1 3.6453 -9.4687 -0.9084 36 1 3.6023 -7.9723 -1.9214 37 1 2.6209 -9.3147 1.5742 38 1 2.6515 -7.6312 2.1807 39 1 6.6563 -9.6988 4.6575 RHF calculation, no. of doubly occupied orbitals= 59 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 ZINC001356838351.mol2 39 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 19:28:03 Heat of formation + Delta-G solvation = 49.643653 kcal Electronic energy + Delta-G solvation = -26347.985844 eV Core-core repulsion = 22419.752775 eV Total energy + Delta-G solvation = -3928.233069 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 337.100 amu Computer time = 0.60 seconds Orbital eigenvalues (eV) -44.54898 -42.38158 -40.26864 -39.16586 -35.58687 -34.61714 -34.47115 -32.83264 -32.00197 -31.02535 -30.02050 -27.69322 -27.17036 -25.62753 -24.27922 -23.35065 -22.64050 -21.56907 -20.66044 -19.82918 -18.97364 -18.36583 -18.08481 -17.63378 -17.52878 -16.94006 -16.90431 -16.55680 -16.27874 -15.77531 -15.48593 -15.17738 -14.86685 -14.64973 -14.23085 -14.09189 -13.82184 -13.59765 -13.43153 -13.27763 -13.14704 -12.94421 -12.76030 -12.64150 -12.57396 -12.47656 -12.37465 -11.94075 -11.73864 -11.53315 -11.18587 -11.06127 -10.75537 -10.32097 -10.05982 -9.77395 -8.70180 -8.38122 -6.16000 -0.30784 1.09265 1.18687 1.19915 1.39116 1.41041 1.47341 1.53460 1.56068 1.82324 1.92698 2.24060 2.88487 2.96501 3.11352 3.21239 3.27382 3.33281 3.45226 3.72349 3.75182 3.80759 3.97996 4.02419 4.14371 4.16580 4.28346 4.40270 4.49540 4.60633 4.69069 4.78358 4.83405 4.88957 4.98598 5.14112 5.39192 5.48168 6.01659 6.16780 6.28264 6.63533 7.02619 7.03975 7.07207 8.71162 Molecular weight = 337.10amu Principal moments of inertia in cm(-1) A = 0.015672 B = 0.002646 C = 0.002548 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1786.157729 B =10579.967157 C =10988.167784 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.910 5.910 2 C 0.015 3.985 3 Si 0.997 3.003 4 H -0.258 1.258 5 H -0.273 1.273 6 H -0.275 1.275 7 C -0.546 4.546 8 H 0.080 0.920 9 S -0.144 6.144 10 C -0.125 4.125 11 C 0.556 3.444 12 O -0.555 6.555 13 N -0.619 5.619 14 C 0.083 3.917 15 C 0.134 3.866 16 H 0.161 0.839 17 C -0.128 4.128 18 C 0.123 3.877 19 H 0.148 0.852 20 C 0.066 3.934 21 N -0.614 5.614 22 C 0.622 3.378 23 O -0.538 6.538 24 C -0.065 4.065 25 C 0.032 3.968 26 N -0.294 5.294 27 N -0.062 5.062 28 N -0.359 5.359 29 H 0.460 0.540 30 H 0.272 0.728 31 H 0.098 0.902 32 H 0.107 0.893 33 H 0.068 0.932 34 H 0.101 0.899 35 H 0.121 0.879 36 H 0.110 0.890 37 H 0.116 0.884 38 H 0.072 0.928 39 H 0.224 0.776 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 12.326 -22.145 -0.455 25.348 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 -0.546 5.546 2 C -0.190 4.190 3 Si 0.818 3.182 4 H -0.182 1.182 5 H -0.198 1.198 6 H -0.200 1.200 7 C -0.694 4.694 8 H 0.098 0.902 9 S 0.083 5.917 10 C -0.276 4.276 11 C 0.345 3.655 12 O -0.433 6.433 13 N -0.355 5.355 14 C -0.040 4.040 15 C 0.032 3.968 16 H 0.179 0.821 17 C -0.166 4.166 18 C 0.020 3.980 19 H 0.165 0.835 20 C -0.058 4.058 21 N -0.348 5.348 22 C 0.408 3.592 23 O -0.414 6.414 24 C -0.200 4.200 25 C -0.128 4.128 26 N -0.159 5.159 27 N -0.044 5.044 28 N -0.092 5.092 29 H 0.313 0.687 30 H 0.081 0.919 31 H 0.116 0.884 32 H 0.125 0.875 33 H 0.086 0.914 34 H 0.119 0.881 35 H 0.140 0.860 36 H 0.128 0.872 37 H 0.134 0.866 38 H 0.091 0.909 39 H 0.240 0.760 Dipole moment (debyes) X Y Z Total from point charges 10.274 -22.731 0.755 24.957 hybrid contribution 1.471 2.088 -0.843 2.689 sum 11.745 -20.644 -0.088 23.751 Atomic orbital electron populations 1.70174 1.07878 1.28589 1.47957 1.26090 0.95960 1.03219 0.93722 0.84935 0.78600 0.76489 0.78131 1.18161 1.19795 1.20012 1.23203 0.95232 0.92070 1.58887 0.90166 1.85501 1.10150 0.99063 1.97016 1.23332 1.03540 0.94609 1.06086 1.19587 0.85401 0.85554 0.74985 1.90708 1.16544 1.85506 1.50543 1.49076 1.07182 1.05609 1.73640 1.22995 0.78881 0.98527 1.03585 1.24280 1.02027 0.90095 0.80389 0.82114 1.24303 0.90748 1.02791 0.98744 1.24083 1.01905 0.78370 0.93630 0.83477 1.23316 0.79435 1.03053 0.99962 1.49193 1.06818 1.62804 1.15984 1.16247 0.84973 0.77183 0.80751 1.90884 1.14938 1.56290 1.79279 1.22294 0.84932 1.13219 0.99592 1.24335 1.02778 0.97920 0.87748 1.75015 0.95256 1.19337 1.26252 1.78216 1.17981 1.13210 0.95025 1.46143 1.08974 1.41489 1.12630 0.68667 0.91939 0.88400 0.87498 0.91367 0.88065 0.86031 0.87180 0.86619 0.90947 0.75988 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 -0.91 -54.83 13.22 21.65 0.29 -54.55 16 2 C 0.02 0.84 5.49 84.86 0.47 1.31 16 3 Si 1.00 42.95 29.55 68.60 2.03 44.97 16 4 H -0.26 -10.42 7.11 99.48 0.71 -9.71 16 5 H -0.27 -11.37 7.11 99.48 0.71 -10.66 16 6 H -0.27 -11.54 7.11 99.48 0.71 -10.83 16 7 C -0.55 -30.54 9.50 67.95 0.65 -29.90 16 8 H 0.08 4.20 7.80 -2.91 -0.02 4.18 16 9 S -0.14 -7.74 20.57 -56.49 -1.16 -8.91 16 10 C -0.12 -4.69 5.43 71.23 0.39 -4.31 16 11 C 0.56 18.39 7.91 87.65 0.69 19.08 16 12 O -0.56 -22.99 16.23 -3.01 -0.05 -23.04 16 13 N -0.62 -12.77 2.93 -769.66 -2.26 -15.03 16 14 C 0.08 1.25 5.97 87.26 0.52 1.77 16 15 C 0.13 1.29 5.25 47.06 0.25 1.54 16 16 H 0.16 1.19 8.06 -2.38 -0.02 1.17 16 17 C -0.13 -0.83 6.83 33.58 0.23 -0.60 16 18 C 0.12 1.54 5.23 46.92 0.25 1.78 16 19 H 0.15 1.86 8.08 -2.39 -0.02 1.84 16 20 C 0.07 0.64 4.55 87.16 0.40 1.04 16 21 N -0.61 -7.34 2.95 -771.64 -2.27 -9.61 16 22 C 0.62 10.21 7.88 86.61 0.68 10.89 16 23 O -0.54 -11.80 17.27 -4.09 -0.07 -11.87 16 24 C -0.07 -1.05 7.00 40.41 0.28 -0.77 16 25 C 0.03 0.56 11.87 84.18 1.00 1.56 16 26 N -0.29 -6.38 12.35 -57.50 -0.71 -7.09 16 27 N -0.06 -1.26 13.35 37.02 0.49 -0.77 16 28 N -0.36 -5.20 6.69 -48.52 -0.32 -5.53 16 29 H 0.46 4.12 5.29 -219.90 -1.16 2.96 16 30 H 0.27 15.16 8.31 -92.71 -0.77 14.39 16 31 H 0.10 3.47 8.14 -2.40 -0.02 3.45 16 32 H 0.11 3.64 8.14 -2.40 -0.02 3.62 16 33 H 0.07 1.20 8.14 -2.39 -0.02 1.19 16 34 H 0.10 1.29 8.14 -2.39 -0.02 1.28 16 35 H 0.12 0.31 8.14 -2.39 -0.02 0.29 16 36 H 0.11 0.68 8.14 -2.38 -0.02 0.66 16 37 H 0.12 0.38 7.19 -2.39 -0.02 0.37 16 38 H 0.07 0.91 7.45 -2.39 -0.02 0.89 16 39 H 0.22 2.78 8.06 -2.91 -0.02 2.76 16 Total: -1.00 -81.90 348.43 1.71 -80.19 By element: Atomic # 1 Polarization: 7.88 SS G_CDS: -0.05 Total: 7.83 kcal Atomic # 6 Polarization: -2.40 SS G_CDS: 5.80 Total: 3.40 kcal Atomic # 7 Polarization: -87.79 SS G_CDS: -4.79 Total: -92.57 kcal Atomic # 8 Polarization: -34.79 SS G_CDS: -0.12 Total: -34.91 kcal Atomic # 14 Polarization: 42.95 SS G_CDS: 2.03 Total: 44.97 kcal Atomic # 16 Polarization: -7.74 SS G_CDS: -1.16 Total: -8.91 kcal Total: -81.90 1.71 -80.19 kcal The number of atoms in the molecule is 39 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. ZINC001356838351.mol2 39 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 129.834 kcal (2) G-P(sol) polarization free energy of solvation -81.896 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 47.938 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.706 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -80.191 kcal (6) G-S(sol) free energy of system = (1) + (5) 49.644 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.60 seconds