Wall clock time and date at job start Tue Mar 31 2020 14:38:38 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 1.31625 * 1 3 3 Si 1.86799 * 120.00063 * 2 1 4 4 H 1.48501 * 109.47446 * 270.00556 * 3 2 1 5 5 H 1.48500 * 109.46848 * 30.00443 * 3 2 1 6 6 H 1.48500 * 109.47087 * 150.00456 * 3 2 1 7 7 C 1.38795 * 120.00187 * 180.02562 * 2 1 3 8 8 H 1.08008 * 120.00150 * 359.97438 * 7 2 1 9 9 S 1.76201 * 120.00203 * 179.97438 * 7 2 1 10 10 C 1.81004 * 100.00200 * 179.97438 * 9 7 2 11 11 C 1.50694 * 109.47273 * 180.02562 * 10 9 7 12 12 O 1.21277 * 120.00030 * 359.97438 * 11 10 9 13 13 N 1.34776 * 120.00230 * 179.97438 * 11 10 9 14 14 C 1.46494 * 120.00208 * 179.97438 * 13 11 10 15 15 C 1.50698 * 109.47316 * 180.02562 * 14 13 11 16 16 C 1.38293 * 119.97363 * 269.98007 * 15 14 13 17 17 C 1.38247 * 120.11281 * 180.02562 * 16 15 14 18 18 C 1.38170 * 120.05292 * 359.67902 * 17 16 15 19 19 C 1.38712 * 119.94573 * 0.61946 * 18 17 16 20 20 O 1.35897 * 120.05594 * 179.67820 * 19 18 17 21 21 C 1.42899 * 116.99793 * 359.72146 * 20 19 18 22 22 C 1.50702 * 109.46876 * 179.97438 * 21 20 19 23 23 N 1.34777 * 119.99928 * 179.72354 * 22 21 20 24 24 O 1.21283 * 120.00262 * 0.02562 * 22 21 20 25 25 C 1.38123 * 119.97376 * 89.99732 * 15 14 13 26 26 H 0.96996 * 120.00254 * 359.97438 * 1 2 3 27 27 H 1.08998 * 109.47274 * 59.99906 * 10 9 7 28 28 H 1.09004 * 109.46861 * 300.00122 * 10 9 7 29 29 H 0.97006 * 119.99548 * 0.02562 * 13 11 10 30 30 H 1.08998 * 109.47096 * 59.99957 * 14 13 11 31 31 H 1.09004 * 109.47251 * 300.00044 * 14 13 11 32 32 H 1.08001 * 119.94264 * 359.97438 * 16 15 14 33 33 H 1.07998 * 119.97015 * 179.97438 * 17 16 15 34 34 H 1.08001 * 120.02378 * 180.29425 * 18 17 16 35 35 H 1.09004 * 109.47206 * 60.00256 * 21 20 19 36 36 H 1.08994 * 109.47548 * 299.99913 * 21 20 19 37 37 H 0.96999 * 120.00047 * 180.27521 * 23 22 21 38 38 H 0.97000 * 120.00317 * 0.28382 * 23 22 21 39 39 H 1.08003 * 120.02893 * 0.02760 * 25 15 14 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 2.4977 2.0465 -1.4001 5 1 1.4477 2.6526 0.7001 6 1 3.5479 1.4401 0.6999 7 6 2.0103 -1.2020 -0.0005 8 1 1.4703 -2.1374 -0.0005 9 16 3.7723 -1.2020 -0.0012 10 6 4.0866 -2.9845 -0.0009 11 6 5.5730 -3.2325 -0.0008 12 8 6.3440 -2.2963 -0.0014 13 7 6.0457 -4.4946 -0.0001 14 6 7.4907 -4.7357 -0.0006 15 6 7.7524 -6.2197 -0.0002 16 6 7.8733 -6.8997 1.1979 17 6 8.1140 -8.2611 1.2016 18 6 8.2277 -8.9469 0.0075 19 6 8.1131 -8.2661 -1.1956 20 8 8.2311 -8.9373 -2.3713 21 6 8.4792 -10.3425 -2.2941 22 6 8.5786 -10.9122 -3.6857 23 7 8.8162 -12.2274 -3.8600 24 8 8.4502 -10.1864 -4.6488 25 6 7.8718 -6.8997 -1.1965 26 1 -0.4850 0.8400 0.0004 27 1 3.6434 -3.4318 -0.8906 28 1 3.6440 -3.4313 0.8893 29 1 5.4290 -5.2434 0.0000 30 1 7.9340 -4.2880 0.8889 31 1 7.9333 -4.2893 -0.8911 32 1 7.7803 -6.3662 2.1323 33 1 8.2083 -8.7897 2.1386 34 1 8.4110 -10.0112 0.0110 35 1 7.6611 -10.8271 -1.7611 36 1 9.4139 -10.5178 -1.7617 37 1 8.8842 -12.5934 -4.7557 38 1 8.9192 -12.8080 -3.0898 39 1 7.7781 -6.3681 -2.1320 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 ZINC001116144100.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 14:38:38 Heat of formation + Delta-G solvation = -118.659408 kcal Electronic energy + Delta-G solvation = -22996.600421 eV Core-core repulsion = 19222.428484 eV Total energy + Delta-G solvation = -3774.171937 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 324.098 amu Computer time = 0.57 seconds Orbital eigenvalues (eV) -41.49602 -40.74472 -40.16070 -38.50835 -35.82113 -34.80967 -34.66977 -32.71595 -31.62504 -30.61018 -29.12094 -27.88565 -26.80253 -23.55975 -22.88040 -21.86063 -21.49173 -19.97719 -19.15556 -18.65716 -17.89328 -17.55669 -17.36653 -17.19118 -17.01053 -16.88710 -16.86258 -16.36971 -15.71779 -15.38462 -15.22236 -14.99871 -14.89764 -14.63173 -14.27378 -14.06698 -13.65723 -13.42003 -13.34366 -13.24624 -12.99664 -12.68802 -12.51414 -12.09974 -11.92143 -11.84978 -11.16857 -11.13535 -11.10916 -10.76485 -10.53867 -10.19497 -9.92604 -9.22771 -8.99424 -8.51170 -6.22079 0.17051 0.44259 1.00064 1.32182 1.47077 1.47546 1.54666 1.56974 1.70055 2.23071 2.27226 2.69485 2.82163 2.86969 2.87560 3.61211 3.74946 3.88289 3.93062 4.03763 4.11678 4.12464 4.21926 4.26905 4.33970 4.46895 4.47762 4.68525 4.76082 5.01421 5.26301 5.32683 5.44171 5.58214 5.70392 5.71117 5.82430 6.11762 6.28024 6.42776 6.45702 6.93879 7.15257 7.25236 8.61210 Molecular weight = 324.10amu Principal moments of inertia in cm(-1) A = 0.021060 B = 0.001972 C = 0.001885 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1329.236249 B =14195.366828 C =14853.030083 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.917 5.917 2 C 0.045 3.955 3 Si 0.915 3.085 4 H -0.263 1.263 5 H -0.258 1.258 6 H -0.236 1.236 7 C -0.530 4.530 8 H 0.062 0.938 9 S -0.174 6.174 10 C -0.111 4.111 11 C 0.537 3.463 12 O -0.562 6.562 13 N -0.708 5.708 14 C 0.163 3.837 15 C -0.068 4.068 16 C -0.139 4.139 17 C -0.076 4.076 18 C -0.194 4.194 19 C 0.113 3.887 20 O -0.324 6.324 21 C 0.034 3.966 22 C 0.513 3.487 23 N -0.825 5.825 24 O -0.587 6.587 25 C -0.149 4.149 26 H 0.277 0.723 27 H 0.111 0.889 28 H 0.116 0.884 29 H 0.415 0.585 30 H 0.081 0.919 31 H 0.067 0.933 32 H 0.139 0.861 33 H 0.160 0.840 34 H 0.165 0.835 35 H 0.127 0.873 36 H 0.129 0.871 37 H 0.413 0.587 38 H 0.424 0.576 39 H 0.117 0.883 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 21.607 -31.622 2.121 38.357 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 -0.554 5.554 2 C -0.160 4.160 3 Si 0.737 3.263 4 H -0.188 1.188 5 H -0.182 1.182 6 H -0.160 1.160 7 C -0.677 4.677 8 H 0.080 0.920 9 S 0.052 5.948 10 C -0.262 4.262 11 C 0.322 3.678 12 O -0.440 6.440 13 N -0.362 5.362 14 C 0.040 3.960 15 C -0.069 4.069 16 C -0.158 4.158 17 C -0.094 4.094 18 C -0.212 4.212 19 C 0.068 3.932 20 O -0.238 6.238 21 C -0.044 4.044 22 C 0.297 3.703 23 N -0.392 5.392 24 O -0.467 6.467 25 C -0.169 4.169 26 H 0.086 0.914 27 H 0.129 0.871 28 H 0.134 0.866 29 H 0.252 0.748 30 H 0.099 0.901 31 H 0.085 0.915 32 H 0.157 0.843 33 H 0.177 0.823 34 H 0.182 0.818 35 H 0.145 0.855 36 H 0.146 0.854 37 H 0.246 0.754 38 H 0.256 0.744 39 H 0.136 0.864 Dipole moment (debyes) X Y Z Total from point charges 22.607 -29.329 1.443 37.058 hybrid contribution -1.403 -1.010 -0.331 1.761 sum 21.203 -30.339 1.112 37.031 Atomic orbital electron populations 1.70013 1.07288 1.29025 1.49124 1.25572 0.95300 1.02286 0.92886 0.85858 0.80708 0.79561 0.80186 1.18810 1.18223 1.15999 1.22467 0.90258 0.96719 1.58281 0.91959 1.84694 1.06423 1.06065 1.97587 1.23270 0.95755 0.99695 1.07504 1.19952 0.89440 0.83154 0.75225 1.90691 1.59276 1.43728 1.50289 1.45797 1.08170 1.06869 1.75338 1.20198 0.80737 0.91915 1.03105 1.19454 1.00509 0.93884 0.93063 1.21286 1.01674 0.95419 0.97404 1.21325 0.95710 0.93573 0.98781 1.21642 1.06573 1.02031 0.90962 1.19061 0.97477 0.91637 0.85014 1.86129 1.86991 1.21880 1.28775 1.22786 1.06262 0.80228 0.95116 1.20561 0.75456 0.83452 0.90781 1.43490 1.73949 1.07577 1.14196 1.90817 1.51135 1.60556 1.44152 1.20385 1.05605 0.92282 0.98605 0.91362 0.87051 0.86580 0.74843 0.90051 0.91514 0.84348 0.82257 0.81777 0.85533 0.85369 0.75443 0.74378 0.86449 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 -56.36 13.97 21.65 0.30 -56.06 16 2 C 0.04 2.67 5.50 84.86 0.47 3.14 16 3 Si 0.92 45.59 27.74 68.60 1.90 47.49 16 4 H -0.26 -12.86 7.11 99.48 0.71 -12.15 16 5 H -0.26 -12.01 7.11 99.48 0.71 -11.30 16 6 H -0.24 -11.73 6.74 99.48 0.67 -11.06 16 7 C -0.53 -31.27 10.04 67.95 0.68 -30.58 16 8 H 0.06 3.87 8.03 -2.91 -0.02 3.85 16 9 S -0.17 -8.95 18.55 -56.49 -1.05 -10.00 16 10 C -0.11 -4.29 6.16 71.23 0.44 -3.85 16 11 C 0.54 18.93 7.85 87.66 0.69 19.62 16 12 O -0.56 -24.43 15.86 -3.02 -0.05 -24.48 16 13 N -0.71 -17.82 5.55 -466.81 -2.59 -20.41 16 14 C 0.16 3.68 5.80 85.63 0.50 4.17 16 15 C -0.07 -1.24 5.25 -19.88 -0.10 -1.35 16 16 C -0.14 -1.91 9.70 22.28 0.22 -1.70 16 17 C -0.08 -0.73 10.04 22.26 0.22 -0.50 16 18 C -0.19 -1.88 9.04 22.37 0.20 -1.68 16 19 C 0.11 1.91 6.69 22.51 0.15 2.06 16 20 O -0.32 -6.17 9.67 -73.35 -0.71 -6.88 16 21 C 0.03 0.27 5.22 71.24 0.37 0.64 16 22 C 0.51 6.69 8.18 87.66 0.72 7.41 16 23 N -0.83 -2.02 8.87 -173.53 -1.54 -3.56 16 24 O -0.59 -15.74 17.34 16.00 0.28 -15.46 16 25 C -0.15 -3.01 9.64 22.37 0.22 -2.80 16 26 H 0.28 15.73 8.31 -92.71 -0.77 14.96 16 27 H 0.11 4.00 8.14 -2.40 -0.02 3.98 16 28 H 0.12 4.06 8.14 -2.39 -0.02 4.04 16 29 H 0.41 8.28 8.46 -92.70 -0.78 7.49 16 30 H 0.08 1.82 8.09 -2.39 -0.02 1.80 16 31 H 0.07 1.67 8.08 -2.39 -0.02 1.65 16 32 H 0.14 1.61 8.06 -2.91 -0.02 1.58 16 33 H 0.16 0.55 8.06 -2.91 -0.02 0.52 16 34 H 0.16 0.28 6.30 -2.91 -0.02 0.26 16 35 H 0.13 0.15 7.65 -2.38 -0.02 0.13 16 36 H 0.13 0.10 7.67 -2.39 -0.02 0.08 16 37 H 0.41 0.88 8.93 -92.71 -0.83 0.06 16 38 H 0.42 -2.55 8.83 -92.71 -0.82 -3.37 16 39 H 0.12 2.68 8.06 -2.91 -0.02 2.65 16 Total: -1.00 -89.56 358.40 -0.03 -89.59 By element: Atomic # 1 Polarization: 6.52 SS G_CDS: -1.34 Total: 5.18 kcal Atomic # 6 Polarization: -10.18 SS G_CDS: 4.76 Total: -5.41 kcal Atomic # 7 Polarization: -76.20 SS G_CDS: -3.83 Total: -80.03 kcal Atomic # 8 Polarization: -46.34 SS G_CDS: -0.48 Total: -46.82 kcal Atomic # 14 Polarization: 45.59 SS G_CDS: 1.90 Total: 47.49 kcal Atomic # 16 Polarization: -8.95 SS G_CDS: -1.05 Total: -10.00 kcal Total: -89.56 -0.03 -89.59 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. ZINC001116144100.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 -29.069 kcal (2) G-P(sol) polarization free energy of solvation -89.559 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -118.628 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.032 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -89.591 kcal (6) G-S(sol) free energy of system = (1) + (5) -118.659 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.58 seconds