Wall clock time and date at job start Tue Mar 31 2020 05:08:07 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 1.31516 * 1 3 3 Si 1.86798 * 120.00321 * 2 1 4 4 H 1.48500 * 109.47353 * 89.99665 * 3 2 1 5 5 H 1.48501 * 109.47293 * 210.00115 * 3 2 1 6 6 H 1.48504 * 109.46680 * 329.99913 * 3 2 1 7 7 C 1.37885 * 119.99913 * 180.02562 * 2 1 3 8 8 H 1.07999 * 119.99964 * 359.97438 * 7 2 1 9 9 C 1.50696 * 119.99717 * 180.02562 * 7 2 1 10 10 O 1.42896 * 112.95056 * 48.40423 * 9 7 2 11 11 C 1.53948 * 113.74115 * 276.66959 * 9 7 2 12 12 N 1.47581 * 86.11831 * 222.05373 * 11 9 7 13 13 C 1.34781 * 134.48697 * 204.64135 * 12 11 9 14 14 O 1.21278 * 119.99565 * 179.97438 * 13 12 11 15 15 C 1.50691 * 120.00407 * 359.97438 * 13 12 11 16 16 C 1.53002 * 109.47382 * 179.97438 * 15 13 12 17 17 C 1.50698 * 109.47347 * 179.97438 * 16 15 13 18 18 C 1.38432 * 122.53828 * 89.99892 * 17 16 15 19 19 C 1.33386 * 114.91994 * 179.97438 * 18 17 16 20 20 S 1.75884 * 109.59707 * 0.02562 * 19 18 17 21 21 C 1.33389 * 122.54302 * 269.71202 * 17 16 15 22 22 C 1.47575 * 91.01727 * 24.63778 * 12 11 9 23 23 H 0.97001 * 119.99646 * 359.97438 * 1 2 3 24 24 H 0.96697 * 113.99744 * 309.67215 * 10 9 7 25 25 H 1.09002 * 113.76590 * 336.35388 * 11 9 7 26 26 H 1.08998 * 113.77136 * 107.74611 * 11 9 7 27 27 H 1.09006 * 109.47331 * 299.99811 * 15 13 12 28 28 H 1.09001 * 109.47313 * 59.99753 * 15 13 12 29 29 H 1.08998 * 109.47063 * 300.00090 * 16 15 13 30 30 H 1.09001 * 109.47010 * 59.99675 * 16 15 13 31 31 H 1.08001 * 122.53628 * 359.95728 * 18 17 16 32 32 H 1.07998 * 125.19900 * 180.02562 * 19 18 17 33 33 H 1.07999 * 125.19965 * 0.02681 * 21 17 16 34 34 H 1.08992 * 113.77450 * 221.06110 * 22 12 11 35 35 H 1.09008 * 113.87093 * 89.67321 * 22 12 11 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 2.4967 2.0464 1.4001 5 1 3.5468 1.4401 -0.7001 6 1 1.4467 2.6526 -0.7001 7 6 2.0046 -1.1941 -0.0005 8 1 1.4646 -2.1294 -0.0005 9 6 3.5115 -1.1941 0.0000 10 8 4.0683 -0.3212 0.9849 11 6 4.1319 -1.0294 -1.3993 12 7 5.0923 -2.0710 -0.9861 13 6 6.3443 -2.4028 -1.3591 14 8 6.9074 -3.3369 -0.8289 15 6 7.0442 -1.6131 -2.4348 16 6 8.4418 -2.1919 -2.6649 17 6 9.1415 -1.4026 -3.7411 18 6 9.9192 -0.2915 -3.4632 19 6 10.4681 0.2914 -4.5300 20 16 10.0007 -0.5804 -5.9844 21 6 9.0632 -1.7248 -5.0331 22 6 4.1314 -2.6033 -0.0006 23 1 -0.4850 0.8401 0.0004 24 1 3.7023 0.5737 0.9692 25 1 3.4725 -1.3369 -2.2110 26 1 4.5871 -0.0532 -1.5660 27 1 6.4701 -1.6706 -3.3597 28 1 7.1293 -0.5718 -2.1241 29 1 9.0157 -2.1341 -1.7400 30 1 8.3571 -3.2333 -2.9754 31 1 10.0697 0.0756 -2.4587 32 1 11.1025 1.1650 -4.5046 33 1 8.5070 -2.5593 -5.4339 34 1 4.5862 -2.8836 0.9494 35 1 3.4712 -3.3734 -0.3997 RHF calculation, no. of doubly occupied orbitals= 49 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 ZINC000186811526.mol2 35 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 05:08:07 Heat of formation + Delta-G solvation = -27.428208 kcal Electronic energy + Delta-G solvation = -19321.529807 eV Core-core repulsion = 16219.185814 eV Total energy + Delta-G solvation = -3102.343993 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 281.087 amu Computer time = 0.38 seconds Orbital eigenvalues (eV) -41.41019 -39.72288 -38.87328 -36.23813 -34.54541 -33.84506 -30.97227 -29.83892 -27.72503 -27.06086 -25.69269 -23.35475 -21.84744 -20.10155 -19.62682 -19.32171 -18.55506 -18.17468 -17.92294 -16.86499 -16.71919 -16.09914 -15.56862 -15.35289 -15.11961 -14.55112 -14.48495 -14.10016 -13.97559 -13.84503 -13.76801 -13.22529 -13.00302 -12.85430 -12.83203 -12.62375 -12.42433 -11.99423 -11.93739 -11.63629 -11.41141 -11.10280 -10.84647 -10.46307 -9.70058 -9.65159 -9.26306 -8.42277 -6.54845 0.10642 0.79043 1.08946 1.25714 1.28958 1.41633 1.61577 1.70084 1.98060 2.18476 2.77681 3.21671 3.52808 3.85509 3.96060 4.09369 4.20314 4.22896 4.37040 4.44117 4.52798 4.60602 4.67840 4.68575 4.71473 4.84973 4.87855 4.95254 5.11521 5.18313 5.29992 5.50605 5.60149 6.04104 6.52965 6.66561 6.80428 7.10853 7.14654 8.73291 Molecular weight = 281.09amu Principal moments of inertia in cm(-1) A = 0.023862 B = 0.003861 C = 0.003564 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1173.141669 B = 7250.554748 C = 7854.323269 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.925 5.925 2 C 0.027 3.973 3 Si 0.919 3.081 4 H -0.258 1.258 5 H -0.227 1.227 6 H -0.282 1.282 7 C -0.545 4.545 8 H 0.055 0.945 9 C 0.183 3.817 10 O -0.560 6.560 11 C 0.078 3.922 12 N -0.637 5.637 13 C 0.525 3.475 14 O -0.593 6.593 15 C -0.117 4.117 16 C -0.036 4.036 17 C -0.108 4.108 18 C -0.145 4.145 19 C -0.211 4.211 20 S 0.099 5.901 21 C -0.218 4.218 22 C 0.121 3.879 23 H 0.274 0.726 24 H 0.356 0.644 25 H 0.105 0.895 26 H 0.089 0.911 27 H 0.109 0.891 28 H 0.103 0.897 29 H 0.071 0.929 30 H 0.072 0.928 31 H 0.148 0.852 32 H 0.185 0.815 33 H 0.174 0.826 34 H 0.067 0.933 35 H 0.100 0.900 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 18.151 3.535 -11.758 21.913 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 -0.562 5.562 2 C -0.174 4.174 3 Si 0.743 3.257 4 H -0.184 1.184 5 H -0.150 1.150 6 H -0.208 1.208 7 C -0.583 4.583 8 H 0.073 0.927 9 C 0.143 3.857 10 O -0.372 6.372 11 C -0.045 4.045 12 N -0.370 5.370 13 C 0.317 3.683 14 O -0.475 6.475 15 C -0.156 4.156 16 C -0.076 4.076 17 C -0.120 4.120 18 C -0.175 4.175 19 C -0.346 4.346 20 S 0.363 5.637 21 C -0.354 4.354 22 C -0.001 4.001 23 H 0.083 0.917 24 H 0.208 0.792 25 H 0.123 0.877 26 H 0.107 0.893 27 H 0.127 0.873 28 H 0.121 0.879 29 H 0.089 0.911 30 H 0.091 0.909 31 H 0.166 0.834 32 H 0.203 0.797 33 H 0.192 0.808 34 H 0.086 0.914 35 H 0.118 0.882 Dipole moment (debyes) X Y Z Total from point charges 19.135 2.766 -12.983 23.289 hybrid contribution -1.027 0.773 1.679 2.115 sum 18.108 3.539 -11.303 21.638 Atomic orbital electron populations 1.70002 1.08084 1.28840 1.49311 1.25843 0.95616 1.02959 0.92940 0.86333 0.80169 0.79194 0.79960 1.18428 1.15032 1.20839 1.21370 0.89626 0.94606 1.52725 0.92654 1.20609 0.90805 0.88703 0.85609 1.86474 1.67318 1.24655 1.58787 1.24434 0.88432 0.91407 1.00206 1.50145 1.12689 1.34316 1.39870 1.21043 0.79905 0.83855 0.83500 1.90632 1.66155 1.32459 1.58270 1.21565 0.96324 1.00465 0.97291 1.19917 0.92814 0.98253 0.96638 1.18951 1.00882 0.97903 0.94305 1.20309 0.99665 0.96621 1.00944 1.25904 1.07610 1.06147 0.94930 1.84197 1.46526 1.22583 1.10405 1.25729 1.07438 1.05773 0.96423 1.23245 0.88129 0.96635 0.92124 0.91706 0.79163 0.87658 0.89286 0.87315 0.87866 0.91057 0.90901 0.83406 0.79744 0.80842 0.91420 0.88180 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 -0.92 -52.21 13.96 21.45 0.30 -51.91 16 2 C 0.03 1.42 5.47 84.66 0.46 1.88 16 3 Si 0.92 36.95 24.34 68.60 1.67 38.62 16 4 H -0.26 -10.06 7.06 99.48 0.70 -9.35 16 5 H -0.23 -7.93 5.28 99.48 0.53 -7.40 16 6 H -0.28 -11.27 7.11 99.48 0.71 -10.57 16 7 C -0.55 -28.10 9.20 25.60 0.24 -27.87 16 8 H 0.06 3.15 8.06 -2.91 -0.02 3.13 16 9 C 0.18 8.02 1.06 -10.88 -0.01 8.01 16 10 O -0.56 -24.97 13.32 -148.98 -1.98 -26.96 16 11 C 0.08 2.82 7.20 86.48 0.62 3.44 16 12 N -0.64 -23.82 3.61 -840.24 -3.03 -26.86 16 13 C 0.52 18.59 8.06 87.65 0.71 19.30 16 14 O -0.59 -24.87 16.71 -3.02 -0.05 -24.92 16 15 C -0.12 -2.96 5.43 29.85 0.16 -2.80 16 16 C -0.04 -0.85 4.76 29.85 0.14 -0.70 16 17 C -0.11 -2.20 5.06 -20.92 -0.11 -2.31 16 18 C -0.15 -2.68 9.98 21.22 0.21 -2.47 16 19 C -0.21 -3.31 11.23 66.72 0.75 -2.56 16 20 S 0.10 1.58 23.34 -56.49 -1.32 0.26 16 21 C -0.22 -4.01 10.98 66.72 0.73 -3.28 16 22 C 0.12 4.97 8.23 86.48 0.71 5.68 16 23 H 0.27 14.35 8.31 -92.71 -0.77 13.58 16 24 H 0.36 14.71 3.31 -74.06 -0.25 14.46 16 25 H 0.11 3.61 8.09 -2.39 -0.02 3.59 16 26 H 0.09 2.88 6.98 -2.39 -0.02 2.86 16 27 H 0.11 2.39 8.14 -2.38 -0.02 2.37 16 28 H 0.10 2.41 8.14 -2.39 -0.02 2.39 16 29 H 0.07 1.81 8.09 -2.39 -0.02 1.79 16 30 H 0.07 1.80 8.07 -2.39 -0.02 1.78 16 31 H 0.15 2.43 8.06 -2.91 -0.02 2.40 16 32 H 0.19 1.95 8.06 -2.91 -0.02 1.93 16 33 H 0.17 2.71 8.06 -2.91 -0.02 2.68 16 34 H 0.07 2.84 8.14 -2.39 -0.02 2.82 16 35 H 0.10 3.91 8.09 -2.38 -0.02 3.89 16 Total: -1.00 -63.93 308.97 0.88 -63.06 By element: Atomic # 1 Polarization: 31.70 SS G_CDS: 0.67 Total: 32.37 kcal Atomic # 6 Polarization: -8.28 SS G_CDS: 4.62 Total: -3.66 kcal Atomic # 7 Polarization: -76.04 SS G_CDS: -2.73 Total: -78.77 kcal Atomic # 8 Polarization: -49.85 SS G_CDS: -2.04 Total: -51.88 kcal Atomic # 14 Polarization: 36.95 SS G_CDS: 1.67 Total: 38.62 kcal Atomic # 16 Polarization: 1.58 SS G_CDS: -1.32 Total: 0.26 kcal Total: -63.93 0.88 -63.06 kcal The number of atoms in the molecule is 35 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. ZINC000186811526.mol2 35 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 35.629 kcal (2) G-P(sol) polarization free energy of solvation -63.934 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -28.305 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.877 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -63.057 kcal (6) G-S(sol) free energy of system = (1) + (5) -27.428 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.38 seconds