Wall clock time and date at job start Wed Apr 1 2020 05:36:31 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 1.31521 * 1 3 3 Si 1.86800 * 120.00004 * 2 1 4 4 H 1.48503 * 109.47060 * 239.99786 * 3 2 1 5 5 H 1.48500 * 109.47146 * 359.97438 * 3 2 1 6 6 H 1.48499 * 109.47145 * 119.99993 * 3 2 1 7 7 C 1.37870 * 119.99827 * 179.97438 * 2 1 3 8 8 H 1.08007 * 119.99948 * 180.02562 * 7 2 1 9 9 C 1.50701 * 120.00202 * 0.02562 * 7 2 1 10 10 C 1.52998 * 109.47272 * 180.02562 * 9 7 2 11 11 C 1.52999 * 109.47465 * 180.02562 * 10 9 7 12 12 N 1.46496 * 109.47407 * 179.97438 * 11 10 9 13 13 S 1.65607 * 120.00127 * 164.99773 * 12 11 10 14 14 O 1.42107 * 106.40053 * 311.46118 * 13 12 11 15 15 O 1.42099 * 106.40001 * 178.53996 * 13 12 11 16 16 C 1.76198 * 107.21643 * 64.99603 * 13 12 11 17 17 C 1.38252 * 120.00213 * 269.97972 * 16 13 12 18 18 C 1.38212 * 119.99874 * 179.97438 * 17 16 13 19 19 C 1.38254 * 120.00305 * 0.02562 * 18 17 16 20 20 C 1.38218 * 119.99695 * 0.09098 * 19 18 17 21 21 S 1.76199 * 119.99633 * 179.97438 * 20 19 18 22 22 N 1.65600 * 107.21686 * 269.90346 * 21 20 19 23 23 O 1.42098 * 106.40706 * 23.44581 * 21 20 19 24 24 O 1.42109 * 106.40127 * 156.37053 * 21 20 19 25 25 C 1.38215 * 119.99492 * 90.00282 * 16 13 12 26 26 H 0.96999 * 119.99775 * 0.02562 * 1 2 3 27 27 H 1.08992 * 109.47053 * 59.99879 * 9 7 2 28 28 H 1.09004 * 109.47073 * 299.99550 * 9 7 2 29 29 H 1.09000 * 109.47485 * 59.99606 * 10 9 7 30 30 H 1.09002 * 109.47254 * 299.99954 * 10 9 7 31 31 H 1.09000 * 109.47175 * 59.99313 * 11 10 9 32 32 H 1.09004 * 109.46893 * 299.99386 * 11 10 9 33 33 H 0.96998 * 120.00240 * 344.99794 * 12 11 10 34 34 H 1.08001 * 120.00328 * 0.02562 * 17 16 13 35 35 H 1.08000 * 119.99977 * 180.02562 * 18 17 16 36 36 H 1.07997 * 120.00453 * 180.02562 * 19 18 17 37 37 H 0.97004 * 120.00258 * 0.02562 * 22 21 20 38 38 H 0.97001 * 120.00476 * 179.97438 * 22 21 20 39 39 H 1.07995 * 120.00164 * 359.70284 * 25 16 13 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 1.3152 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 3.1030 1.6964 -1.2125 5 1 1.2842 2.7465 -0.0006 6 1 3.1030 1.6964 1.2125 7 6 2.0045 -1.1940 0.0005 8 1 3.0846 -1.1940 0.0010 9 6 1.2510 -2.4991 0.0005 10 6 2.2452 -3.6621 0.0018 11 6 1.4803 -4.9871 0.0012 12 7 2.4322 -6.1006 0.0018 13 16 1.9171 -7.6302 0.3726 14 8 1.1532 -7.5182 1.5656 15 8 3.0528 -8.4759 0.2533 16 6 0.7943 -8.1234 -0.8926 17 6 -0.5561 -7.8585 -0.7602 18 6 -1.4367 -8.2449 -1.7529 19 6 -0.9673 -8.8968 -2.8781 20 6 0.3825 -9.1638 -3.0093 21 16 0.9807 -9.9952 -4.4431 22 7 0.9443 -11.6188 -4.1191 23 8 0.0222 -9.7689 -5.4674 24 8 2.3513 -9.6419 -4.5692 25 6 1.2637 -8.7755 -2.0172 26 1 -0.4850 0.8401 -0.0004 27 1 0.6247 -2.5570 -0.8896 28 1 0.6241 -2.5567 0.8904 29 1 2.8713 -3.6039 0.8922 30 1 2.8726 -3.6047 -0.8877 31 1 0.8545 -5.0449 -0.8894 32 1 0.8527 -5.0447 0.8906 33 1 3.3643 -5.9420 -0.2150 34 1 -0.9229 -7.3489 0.1186 35 1 -2.4916 -8.0376 -1.6496 36 1 -1.6553 -9.1984 -3.6540 37 1 0.6291 -11.9346 -3.2578 38 1 1.2376 -12.2541 -4.7908 39 1 2.3191 -8.9785 -2.1227 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 ZINC000507511315.mol2 39 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 05:36:31 Heat of formation + Delta-G solvation = -166.587905 kcal Electronic energy + Delta-G solvation = -25746.675736 eV Core-core repulsion = 21713.584039 eV Total energy + Delta-G solvation = -4033.091697 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 348.069 amu Computer time = 0.82 seconds Orbital eigenvalues (eV) -40.43281 -38.50167 -38.33227 -37.41911 -37.08758 -37.02192 -35.18013 -34.11532 -32.80410 -32.65259 -32.51634 -28.22041 -24.87527 -24.78976 -24.52328 -22.25724 -21.18495 -20.39288 -19.78426 -18.59034 -18.49048 -18.42776 -18.02499 -17.50844 -17.29035 -16.90704 -16.48652 -16.46761 -16.16632 -16.00444 -15.57654 -15.14795 -14.52080 -14.30318 -14.09712 -13.78726 -13.63572 -13.62775 -13.33979 -13.30197 -13.27936 -13.25130 -13.20979 -13.13891 -12.77090 -12.53734 -12.35479 -12.27442 -11.93123 -11.67545 -11.40831 -11.40114 -11.17079 -10.99913 -10.56627 -10.52168 -10.46732 -8.18547 -6.28360 -0.86650 -0.73336 -0.57738 -0.28974 1.42218 1.44063 1.51824 1.73462 1.99096 2.15947 2.42691 2.55068 2.64772 3.10706 3.15540 3.39012 3.59229 3.76582 3.78621 3.99818 4.14666 4.24806 4.26154 4.46372 4.54755 4.59801 4.67158 4.78798 4.94554 4.97623 5.18040 5.22340 5.23471 5.47140 5.54970 5.76688 5.87680 6.00694 6.26845 6.29805 6.88420 7.40633 8.92879 Molecular weight = 348.07amu Principal moments of inertia in cm(-1) A = 0.013765 B = 0.002557 C = 0.002388 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2033.668526 B =10948.146102 C =11724.871921 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.931 5.931 2 C 0.001 3.999 3 Si 0.960 3.040 4 H -0.268 1.268 5 H -0.285 1.285 6 H -0.269 1.269 7 C -0.544 4.544 8 H 0.060 0.940 9 C 0.023 3.977 10 C -0.106 4.106 11 C 0.118 3.882 12 N -1.108 6.108 13 S 2.712 3.288 14 O -0.977 6.977 15 O -0.978 6.978 16 C -0.704 4.704 17 C 0.025 3.975 18 C -0.152 4.152 19 C 0.033 3.967 20 C -0.700 4.700 21 S 2.728 3.272 22 N -1.232 6.232 23 O -0.985 6.985 24 O -0.994 6.994 25 C 0.065 3.935 26 H 0.263 0.737 27 H 0.000 1.000 28 H -0.002 1.002 29 H 0.060 0.940 30 H 0.065 0.935 31 H 0.073 0.927 32 H 0.078 0.922 33 H 0.428 0.572 34 H 0.162 0.838 35 H 0.179 0.821 36 H 0.177 0.823 37 H 0.430 0.570 38 H 0.432 0.568 39 H 0.161 0.839 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -2.556 -26.130 -6.288 26.997 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 -0.571 5.571 2 C -0.197 4.197 3 Si 0.785 3.215 4 H -0.193 1.193 5 H -0.210 1.210 6 H -0.194 1.194 7 C -0.582 4.582 8 H 0.079 0.921 9 C -0.015 4.015 10 C -0.145 4.145 11 C -0.007 4.007 12 N -0.870 5.870 13 S 2.802 3.198 14 O -0.967 6.967 15 O -0.968 6.968 16 C -0.792 4.792 17 C 0.006 3.994 18 C -0.171 4.171 19 C 0.014 3.986 20 C -0.787 4.787 21 S 2.816 3.184 22 N -0.914 5.914 23 O -0.974 6.974 24 O -0.983 6.983 25 C 0.044 3.956 26 H 0.072 0.928 27 H 0.019 0.981 28 H 0.017 0.983 29 H 0.079 0.921 30 H 0.084 0.916 31 H 0.091 0.909 32 H 0.096 0.904 33 H 0.264 0.736 34 H 0.179 0.821 35 H 0.196 0.804 36 H 0.195 0.805 37 H 0.260 0.740 38 H 0.265 0.735 39 H 0.178 0.822 Dipole moment (debyes) X Y Z Total from point charges -2.350 -25.951 -6.349 26.820 hybrid contribution 0.007 0.990 0.153 1.002 sum -2.344 -24.961 -6.196 25.825 Atomic orbital electron populations 1.70069 1.07621 1.27771 1.51688 1.25912 0.95746 1.03136 0.94883 0.85571 0.78321 0.78493 0.79080 1.19319 1.20998 1.19350 1.21680 0.93631 0.92427 1.50457 0.92148 1.18978 0.94455 0.92501 0.95595 1.21632 0.98627 0.92365 1.01925 1.21416 0.91284 0.85733 1.02314 1.55305 1.19907 1.23460 1.88371 1.01175 0.72927 0.72037 0.73636 1.93573 1.72937 1.86313 1.43852 1.93568 1.50180 1.65780 1.87266 1.31026 1.11941 1.17860 1.18388 1.21700 0.90829 0.88565 0.98331 1.21898 1.02472 0.99347 0.93367 1.21731 0.93011 0.87424 0.96452 1.30757 1.03870 1.22722 1.21390 1.00628 0.72791 0.73012 0.71993 1.52632 1.84826 1.25286 1.28637 1.93588 1.63420 1.85385 1.55049 1.93597 1.35833 1.83446 1.85461 1.20881 1.00480 0.85876 0.88344 0.92801 0.98113 0.98318 0.92078 0.91647 0.90856 0.90377 0.73551 0.82081 0.80407 0.80523 0.73960 0.73460 0.82169 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 17. 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 -0.93 -55.20 13.29 21.45 0.28 -54.91 16 2 C 0.00 0.07 5.46 84.65 0.46 0.53 16 3 Si 0.96 43.46 29.54 68.60 2.03 45.49 16 4 H -0.27 -11.68 7.11 99.48 0.71 -10.98 16 5 H -0.28 -12.65 7.11 99.48 0.71 -11.94 16 6 H -0.27 -11.72 7.11 99.48 0.71 -11.01 16 7 C -0.54 -29.87 9.11 25.60 0.23 -29.64 16 8 H 0.06 3.17 7.74 -2.91 -0.02 3.15 16 9 C 0.02 1.12 4.97 29.85 0.15 1.27 16 10 C -0.11 -3.92 5.29 30.59 0.16 -3.76 16 11 C 0.12 3.47 6.22 86.38 0.54 4.01 16 12 N -1.11 -27.25 6.00 -187.49 -1.12 -28.37 16 13 S 2.71 66.67 5.74 -56.49 -0.32 66.35 16 14 O -0.98 -28.78 16.75 -128.00 -2.14 -30.93 16 15 O -0.98 -27.35 17.28 -128.00 -2.21 -29.57 16 16 C -0.70 -14.74 5.95 22.27 0.13 -14.61 16 17 C 0.03 0.44 9.52 22.27 0.21 0.66 16 18 C -0.15 -2.01 10.05 22.27 0.22 -1.79 16 19 C 0.03 0.43 9.52 22.27 0.21 0.65 16 20 C -0.70 -11.42 5.94 22.27 0.13 -11.28 16 21 S 2.73 42.41 6.28 -56.49 -0.35 42.05 16 22 N -1.23 -8.00 9.55 37.02 0.35 -7.64 16 23 O -0.99 -20.31 17.28 -128.00 -2.21 -22.52 16 24 O -0.99 -23.31 17.28 -128.00 -2.21 -25.52 16 25 C 0.06 1.28 9.00 22.27 0.20 1.49 16 26 H 0.26 14.74 8.31 -92.71 -0.77 13.97 16 27 H 0.00 0.02 8.14 -2.39 -0.02 0.01 16 28 H 0.00 -0.08 8.14 -2.38 -0.02 -0.10 16 29 H 0.06 2.22 8.14 -2.39 -0.02 2.20 16 30 H 0.06 2.29 8.14 -2.39 -0.02 2.27 16 31 H 0.07 1.97 8.14 -2.39 -0.02 1.95 16 32 H 0.08 2.31 7.75 -2.38 -0.02 2.29 16 33 H 0.43 9.12 8.65 -96.75 -0.84 8.29 16 34 H 0.16 2.53 7.62 -2.91 -0.02 2.51 16 35 H 0.18 1.20 8.06 -2.91 -0.02 1.18 16 36 H 0.18 1.39 7.62 -2.91 -0.02 1.37 16 37 H 0.43 0.72 8.92 -96.74 -0.86 -0.14 16 38 H 0.43 1.33 8.96 -96.74 -0.87 0.46 16 39 H 0.16 3.04 7.18 -2.91 -0.02 3.02 16 Total: -1.00 -82.87 362.86 -6.71 -89.58 By element: Atomic # 1 Polarization: 9.93 SS G_CDS: -1.44 Total: 8.49 kcal Atomic # 6 Polarization: -55.14 SS G_CDS: 2.66 Total: -52.48 kcal Atomic # 7 Polarization: -90.44 SS G_CDS: -0.49 Total: -90.93 kcal Atomic # 8 Polarization: -99.76 SS G_CDS: -8.78 Total: -108.54 kcal Atomic # 14 Polarization: 43.46 SS G_CDS: 2.03 Total: 45.49 kcal Atomic # 16 Polarization: 109.08 SS G_CDS: -0.68 Total: 108.40 kcal Total: -82.87 -6.71 -89.58 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. ZINC000507511315.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 -77.013 kcal (2) G-P(sol) polarization free energy of solvation -82.868 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -159.880 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -6.707 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -89.575 kcal (6) G-S(sol) free energy of system = (1) + (5) -166.588 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.83 seconds