Wall clock time and date at job start Wed Apr 1 2020 04:46:19 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 1.31623 * 1 3 3 Si 1.86798 * 120.00110 * 2 1 4 4 H 1.48501 * 109.47123 * 180.02562 * 3 2 1 5 5 H 1.48498 * 109.47484 * 299.99824 * 3 2 1 6 6 H 1.48497 * 109.47117 * 60.00391 * 3 2 1 7 7 C 1.38734 * 119.99926 * 180.02562 * 2 1 3 8 8 H 1.08000 * 120.00156 * 179.97438 * 7 2 1 9 9 S 1.76200 * 119.99683 * 0.02562 * 7 2 1 10 10 C 1.76200 * 99.99665 * 185.11877 * 9 7 2 11 11 C 1.39225 * 120.02028 * 265.53109 * 10 9 7 12 12 C 1.38137 * 120.20072 * 180.02562 * 11 10 9 13 13 C 1.38092 * 120.24441 * 359.67003 * 12 11 10 14 14 C 1.39632 * 120.03674 * 0.60580 * 13 12 11 15 15 C 1.47859 * 120.10112 * 179.69536 * 14 13 12 16 16 O 1.21551 * 119.99872 * 179.72834 * 15 14 13 17 17 N 1.34773 * 120.00146 * 359.72327 * 15 14 13 18 18 C 1.46503 * 120.00063 * 180.02562 * 17 15 14 19 19 C 1.50698 * 109.46892 * 180.02562 * 18 17 15 20 20 O 1.21432 * 120.00464 * 0.02562 * 19 18 17 21 21 C 1.41383 * 120.00086 * 179.97438 * 19 18 17 22 22 C 1.37199 * 126.20258 * 180.02562 * 21 19 18 23 23 N 1.30764 * 113.86338 * 179.73574 * 22 21 19 24 24 C 1.29484 * 117.51177 * 359.97438 * 23 22 21 25 25 S 1.70910 * 110.64075 * 359.97438 * 24 23 22 26 26 C 1.38835 * 120.02269 * 85.50811 * 10 9 7 27 27 H 0.97003 * 119.99904 * 0.02562 * 1 2 3 28 28 H 1.07997 * 119.90082 * 359.97438 * 11 10 9 29 29 H 1.08006 * 119.87941 * 180.02562 * 12 11 10 30 30 H 1.08000 * 119.97835 * 180.30122 * 13 12 11 31 31 H 0.97004 * 119.99864 * 0.02562 * 17 15 14 32 32 H 1.08998 * 109.47164 * 60.00148 * 18 17 15 33 33 H 1.08999 * 109.47295 * 299.99905 * 18 17 15 34 34 H 1.08002 * 123.06185 * 359.73513 * 22 21 19 35 35 H 1.08002 * 124.67504 * 179.97438 * 24 23 22 36 36 H 1.07998 * 120.11919 * 0.04173 * 26 10 9 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 1.6177 0.0000 4 1 3.7103 1.3463 -0.0006 5 1 1.8916 2.3964 -1.2125 6 1 1.8916 2.3964 1.2125 7 6 2.0099 -1.2015 -0.0005 8 1 3.0899 -1.2015 -0.0010 9 16 1.1288 -2.7274 -0.0019 10 6 2.4725 -3.8566 0.1527 11 6 3.0367 -4.4278 -0.9848 12 6 4.0899 -5.3140 -0.8679 13 6 4.5947 -5.6341 0.3770 14 6 4.0327 -5.0716 1.5248 15 6 4.5678 -5.4185 2.8588 16 8 4.0804 -4.9239 3.8565 17 7 5.5957 -6.2832 2.9686 18 6 6.1254 -6.6273 4.2905 19 6 7.2622 -7.6047 4.1371 20 8 7.5977 -7.9772 3.0311 21 6 7.9389 -8.0871 5.2809 22 6 8.9854 -8.9743 5.2893 23 7 9.4341 -9.2518 6.4857 24 6 8.8561 -8.6743 7.4902 25 16 7.5970 -7.6506 6.9537 26 6 2.9696 -4.1770 1.4088 27 1 -0.4850 0.8401 -0.0004 28 1 2.6492 -4.1780 -1.9614 29 1 4.5239 -5.7537 -1.7537 30 1 5.4214 -6.3237 0.4631 31 1 5.9848 -6.6776 2.1724 32 1 5.3363 -7.0787 4.8919 33 1 6.4868 -5.7248 4.7834 34 1 9.4007 -9.4041 4.3897 35 1 9.1317 -8.8194 8.5243 36 1 2.5338 -3.7357 2.2928 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC001364366579.mol2 36 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 04:46:19 Heat of formation + Delta-G solvation = -18.591935 kcal Electronic energy + Delta-G solvation = -23272.950186 eV Core-core repulsion = 19553.584996 eV Total energy + Delta-G solvation = -3719.365190 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 348.039 amu Computer time = 1.06 seconds Orbital eigenvalues (eV) -41.70822 -41.02154 -39.98559 -39.10492 -35.79911 -34.65156 -32.84288 -32.15000 -31.90755 -29.38626 -27.74316 -27.01131 -24.85439 -23.70132 -22.73655 -21.77402 -20.93268 -20.22694 -19.50182 -18.69415 -17.91702 -17.23705 -17.11476 -16.93571 -16.90985 -16.67239 -15.99295 -15.86351 -15.61323 -15.24868 -15.11752 -15.05618 -14.85631 -14.63661 -14.43204 -14.01171 -13.65042 -13.26160 -13.07559 -12.98114 -12.67445 -12.58799 -12.39691 -11.74610 -11.45792 -11.32033 -11.20999 -10.80572 -10.74365 -10.70651 -10.44450 -10.12835 -9.95185 -9.71848 -8.80283 -8.39306 -6.19098 -1.10527 -0.22512 0.15657 0.23676 0.52608 0.95705 1.29792 1.36531 1.46435 1.62197 1.71057 1.79512 1.84007 2.23893 2.76126 2.76978 2.93737 3.26831 3.41658 3.57930 3.84700 3.92344 4.00024 4.13749 4.15397 4.21392 4.28511 4.35520 4.46201 4.64975 4.90733 4.92896 5.07929 5.18784 5.30939 5.38989 5.48325 5.83022 6.08118 6.16276 6.28387 6.46850 6.97616 7.01272 8.67967 Molecular weight = 348.04amu Principal moments of inertia in cm(-1) A = 0.018726 B = 0.002012 C = 0.001906 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1494.908612 B =13914.913621 C =14683.660860 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.905 5.905 2 C 0.019 3.981 3 Si 0.993 3.007 4 H -0.267 1.267 5 H -0.266 1.266 6 H -0.271 1.271 7 C -0.535 4.535 8 H 0.067 0.933 9 S -0.092 6.092 10 C -0.130 4.130 11 C -0.060 4.060 12 C -0.122 4.122 13 C -0.065 4.065 14 C -0.158 4.158 15 C 0.569 3.431 16 O -0.570 6.570 17 N -0.709 5.709 18 C 0.068 3.932 19 C 0.440 3.560 20 O -0.466 6.466 21 C -0.365 4.365 22 C 0.140 3.860 23 N -0.513 5.513 24 C 0.049 3.951 25 S 0.247 5.753 26 C -0.040 4.040 27 H 0.274 0.726 28 H 0.137 0.863 29 H 0.174 0.826 30 H 0.165 0.835 31 H 0.418 0.582 32 H 0.117 0.883 33 H 0.114 0.886 34 H 0.193 0.807 35 H 0.243 0.757 36 H 0.109 0.891 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 20.028 -19.459 12.379 30.545 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 -0.542 5.542 2 C -0.187 4.187 3 Si 0.815 3.185 4 H -0.191 1.191 5 H -0.191 1.191 6 H -0.197 1.197 7 C -0.682 4.682 8 H 0.085 0.915 9 S 0.143 5.857 10 C -0.241 4.241 11 C -0.081 4.081 12 C -0.141 4.141 13 C -0.084 4.084 14 C -0.163 4.163 15 C 0.358 3.642 16 O -0.450 6.450 17 N -0.365 5.365 18 C -0.057 4.057 19 C 0.319 3.681 20 O -0.344 6.344 21 C -0.488 4.488 22 C -0.022 4.022 23 N -0.226 5.226 24 C -0.243 4.243 25 S 0.503 5.497 26 C -0.062 4.062 27 H 0.083 0.917 28 H 0.154 0.846 29 H 0.191 0.809 30 H 0.183 0.817 31 H 0.258 0.742 32 H 0.134 0.866 33 H 0.132 0.868 34 H 0.209 0.791 35 H 0.259 0.741 36 H 0.127 0.873 Dipole moment (debyes) X Y Z Total from point charges 18.243 -19.066 13.172 29.493 hybrid contribution 1.712 0.819 -0.796 2.058 sum 19.955 -18.247 12.377 29.738 Atomic orbital electron populations 1.70113 1.07470 1.28733 1.47871 1.26012 0.96083 1.02876 0.93678 0.84989 0.78290 0.76736 0.78515 1.19078 1.19116 1.19661 1.23098 0.94648 0.91607 1.58895 0.91460 1.83491 1.08386 0.98444 1.95361 1.22528 1.03101 1.02845 0.95665 1.22088 0.94260 0.93930 0.97801 1.21535 0.95971 0.97683 0.98893 1.21696 0.98447 0.97289 0.90947 1.19873 0.99948 1.02825 0.93645 1.18268 0.79265 0.78132 0.88560 1.90763 1.60578 1.54287 1.39373 1.45480 1.34621 1.46254 1.10113 1.21822 0.96896 1.00240 0.86717 1.19820 0.81997 0.79125 0.87117 1.90606 1.62701 1.53137 1.27975 1.25229 1.09654 1.13552 1.00340 1.22983 0.90657 0.92097 0.96434 1.66272 1.30633 1.26600 0.99137 1.29717 0.94936 0.94812 1.04801 1.84205 1.30816 1.39551 0.95098 1.21643 0.93816 0.93936 0.96791 0.91692 0.84552 0.80884 0.81731 0.74177 0.86558 0.86814 0.79068 0.74051 0.87335 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 -54.54 13.22 21.64 0.29 -54.25 16 2 C 0.02 1.07 5.49 84.84 0.47 1.54 16 3 Si 0.99 44.66 29.55 68.60 2.03 46.69 16 4 H -0.27 -11.67 7.11 99.48 0.71 -10.96 16 5 H -0.27 -11.35 7.11 99.48 0.71 -10.64 16 6 H -0.27 -11.80 7.11 99.48 0.71 -11.09 16 7 C -0.54 -31.42 9.46 67.94 0.64 -30.78 16 8 H 0.07 3.92 7.79 -2.91 -0.02 3.90 16 9 S -0.09 -5.00 21.41 -56.49 -1.21 -6.21 16 10 C -0.13 -5.76 5.45 22.65 0.12 -5.64 16 11 C -0.06 -2.10 9.79 22.48 0.22 -1.88 16 12 C -0.12 -3.09 10.02 22.21 0.22 -2.87 16 13 C -0.07 -1.62 9.54 22.57 0.22 -1.40 16 14 C -0.16 -5.21 5.87 -20.11 -0.12 -5.33 16 15 C 0.57 17.68 7.77 86.79 0.67 18.36 16 16 O -0.57 -21.84 16.34 -3.88 -0.06 -21.90 16 17 N -0.71 -15.64 5.48 -469.70 -2.57 -18.22 16 18 C 0.07 1.17 5.51 85.63 0.47 1.64 16 19 C 0.44 7.02 7.01 26.46 0.19 7.20 16 20 O -0.47 -9.34 16.09 -3.50 -0.06 -9.39 16 21 C -0.37 -4.69 6.29 22.80 0.14 -4.55 16 22 C 0.14 1.86 11.10 84.61 0.94 2.80 16 23 N -0.51 -6.46 10.49 -201.49 -2.11 -8.57 16 24 C 0.05 0.30 12.21 130.59 1.59 1.90 16 25 S 0.25 1.76 22.61 -56.49 -1.28 0.48 16 26 C -0.04 -1.69 9.34 22.70 0.21 -1.48 16 27 H 0.27 15.23 8.31 -92.71 -0.77 14.46 16 28 H 0.14 4.58 8.06 -2.91 -0.02 4.55 16 29 H 0.17 2.83 8.06 -2.91 -0.02 2.81 16 30 H 0.17 2.62 6.40 -2.91 -0.02 2.60 16 31 H 0.42 7.74 5.46 -92.71 -0.51 7.24 16 32 H 0.12 1.82 8.14 -2.39 -0.02 1.80 16 33 H 0.11 1.84 8.14 -2.39 -0.02 1.82 16 34 H 0.19 2.26 8.04 -2.91 -0.02 2.24 16 35 H 0.24 -0.49 8.06 -2.91 -0.02 -0.52 16 36 H 0.11 5.14 7.65 -2.91 -0.02 5.12 16 Total: -1.00 -80.19 355.48 1.66 -78.53 By element: Atomic # 1 Polarization: 12.69 SS G_CDS: 0.65 Total: 13.33 kcal Atomic # 6 Polarization: -26.48 SS G_CDS: 5.99 Total: -20.49 kcal Atomic # 7 Polarization: -76.64 SS G_CDS: -4.40 Total: -81.04 kcal Atomic # 8 Polarization: -31.18 SS G_CDS: -0.12 Total: -31.30 kcal Atomic # 14 Polarization: 44.66 SS G_CDS: 2.03 Total: 46.69 kcal Atomic # 16 Polarization: -3.24 SS G_CDS: -2.49 Total: -5.73 kcal Total: -80.19 1.66 -78.53 kcal The number of atoms in the molecule is 36 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. ZINC001364366579.mol2 36 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 59.941 kcal (2) G-P(sol) polarization free energy of solvation -80.193 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -20.252 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.660 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.533 kcal (6) G-S(sol) free energy of system = (1) + (5) -18.592 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.06 seconds