Wall clock time and date at job start Tue Mar 31 2020 02:58:26 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 1.31634 * 1 3 3 Si 1.86803 * 120.00239 * 2 1 4 4 H 1.48496 * 109.47141 * 239.99948 * 3 2 1 5 5 H 1.48497 * 109.46782 * 0.02562 * 3 2 1 6 6 H 1.48501 * 109.46993 * 120.00225 * 3 2 1 7 7 C 1.38803 * 119.99756 * 180.02562 * 2 1 3 8 8 H 1.08002 * 119.99679 * 179.97438 * 7 2 1 9 9 S 1.76199 * 119.99855 * 0.27728 * 7 2 1 10 10 C 1.80999 * 99.99825 * 179.72221 * 9 7 2 11 11 C 1.50697 * 109.47181 * 179.97438 * 10 9 7 12 12 O 1.21278 * 120.00042 * 0.02562 * 11 10 9 13 13 N 1.34778 * 120.00209 * 180.02562 * 11 10 9 14 14 C 1.46499 * 120.00278 * 180.02562 * 13 11 10 15 15 C 1.52995 * 109.47595 * 179.97438 * 14 13 11 16 16 O 1.42902 * 109.46830 * 64.99780 * 15 14 13 17 17 C 1.42897 * 114.00103 * 180.02562 * 16 15 14 18 18 C 1.53001 * 109.47585 * 180.02562 * 17 16 15 19 19 H 1.09005 * 109.82327 * 305.57042 * 18 17 16 20 20 C 1.54371 * 109.83378 * 184.58625 * 18 17 16 21 21 C 1.55313 * 102.25460 * 219.12798 * 20 18 17 22 22 C 1.54953 * 100.93944 * 34.13149 * 21 20 18 23 23 O 1.43240 * 109.82732 * 66.45013 * 18 17 16 24 24 H 0.97000 * 119.99219 * 359.97438 * 1 2 3 25 25 H 1.08999 * 109.47409 * 300.00151 * 10 9 7 26 26 H 1.09002 * 109.47152 * 60.00041 * 10 9 7 27 27 H 0.97000 * 119.99750 * 359.97438 * 13 11 10 28 28 H 1.09008 * 109.46975 * 299.99840 * 14 13 11 29 29 H 1.09007 * 109.47007 * 59.99239 * 14 13 11 30 30 H 1.08993 * 109.47543 * 184.99779 * 15 14 13 31 31 H 1.09004 * 109.47389 * 305.00423 * 15 14 13 32 32 H 1.09004 * 109.47246 * 299.99994 * 17 16 15 33 33 H 1.08999 * 109.47208 * 59.99958 * 17 16 15 34 34 H 1.09003 * 110.84965 * 337.31768 * 20 18 17 35 35 H 1.09000 * 110.85228 * 100.94223 * 20 18 17 36 36 H 1.08997 * 111.12341 * 276.21875 * 21 20 18 37 37 H 1.08999 * 111.16324 * 152.06704 * 21 20 18 38 38 H 1.08991 * 110.31137 * 204.64068 * 22 21 20 39 39 H 1.09006 * 110.38765 * 82.51557 * 22 21 20 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 3.1042 1.6963 -1.2125 5 1 1.2854 2.7464 0.0006 6 1 3.1042 1.6963 1.2125 7 6 2.0103 -1.2021 -0.0005 8 1 3.0903 -1.2021 -0.0010 9 16 1.1292 -2.7280 -0.0086 10 6 2.5157 -3.8914 -0.0148 11 6 1.9872 -5.3027 -0.0216 12 8 0.7910 -5.5022 -0.0227 13 7 2.8440 -6.3431 -0.0265 14 6 2.3302 -7.7150 -0.0337 15 6 3.5021 -8.6986 -0.0388 16 8 4.2330 -8.5749 1.1830 17 6 5.3551 -9.4542 1.2806 18 6 6.0585 -9.2368 2.6218 19 1 6.3144 -8.1836 2.7385 20 6 7.3373 -10.0989 2.6884 21 6 7.3293 -10.5872 4.1628 22 6 5.8076 -10.7330 4.4160 23 8 5.2015 -9.6501 3.6925 24 1 -0.4849 0.8401 0.0004 25 1 3.1244 -3.7267 -0.9039 26 1 3.1244 -3.7361 0.8761 27 1 3.8007 -6.1835 -0.0260 28 1 1.7212 -7.8796 0.8553 29 1 1.7219 -7.8705 -0.9248 30 1 3.1224 -9.7158 -0.1336 31 1 4.1595 -8.4762 -0.8794 32 1 5.0142 -10.4874 1.2129 33 1 6.0508 -9.2472 0.4673 34 1 7.2732 -10.9419 2.0003 35 1 8.2225 -9.4965 2.4842 36 1 7.7681 -9.8416 4.8258 37 1 7.8378 -11.5461 4.2626 38 1 5.5910 -10.6449 5.4805 39 1 5.4492 -11.6896 4.0355 RHF calculation, no. of doubly occupied orbitals= 52 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 ZINC000115420761.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 02:58:26 Heat of formation + Delta-G solvation = -164.745211 kcal Electronic energy + Delta-G solvation = -20021.715708 eV Core-core repulsion = 16668.338195 eV Total energy + Delta-G solvation = -3353.377514 eV No. of doubly occupied orbitals = 52 Molecular weight (most abundant/longest-lived isotopes) = 289.118 amu Computer time = 0.59 seconds Orbital eigenvalues (eV) -40.70139 -40.45142 -38.68246 -35.74801 -34.57864 -33.16170 -32.23353 -31.18779 -29.22866 -27.64200 -26.24446 -23.64889 -22.62101 -22.03371 -21.82393 -19.84899 -18.18303 -17.89529 -17.73009 -17.30119 -16.92667 -16.87163 -16.52592 -16.28815 -15.89501 -15.48264 -14.85855 -14.69508 -14.47348 -14.26137 -14.14594 -13.52699 -13.35091 -13.16614 -12.97480 -12.85594 -12.65086 -12.61602 -12.28724 -12.13073 -12.09190 -11.73609 -11.70348 -11.12349 -10.99589 -10.58693 -10.47040 -10.28150 -10.11994 -8.66777 -8.33842 -6.12431 1.27176 1.44704 1.47153 1.57275 1.61884 2.27144 2.31896 2.56961 2.97043 2.99908 3.33087 3.57000 3.77228 3.95894 3.98318 4.06477 4.16729 4.19943 4.28710 4.30244 4.40471 4.45373 4.50512 4.51713 4.65418 4.68701 4.80559 4.87701 4.90318 4.94988 5.04784 5.25965 5.41804 5.43073 6.07723 6.20258 6.28938 6.50664 7.06857 7.24472 8.75294 Molecular weight = 289.12amu Principal moments of inertia in cm(-1) A = 0.022768 B = 0.002582 C = 0.002415 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1229.482058 B =10842.193748 C =11589.072402 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.912 5.912 2 C 0.012 3.988 3 Si 1.001 2.999 4 H -0.261 1.261 5 H -0.278 1.278 6 H -0.263 1.263 7 C -0.547 4.547 8 H 0.083 0.917 9 S -0.152 6.152 10 C -0.128 4.128 11 C 0.532 3.468 12 O -0.568 6.568 13 N -0.708 5.708 14 C 0.120 3.880 15 C 0.059 3.941 16 O -0.405 6.405 17 C 0.050 3.950 18 C 0.071 3.929 19 H 0.075 0.925 20 C -0.141 4.141 21 C -0.151 4.151 22 C 0.036 3.964 23 O -0.405 6.405 24 H 0.271 0.729 25 H 0.112 0.888 26 H 0.106 0.894 27 H 0.415 0.585 28 H 0.053 0.947 29 H 0.087 0.913 30 H 0.084 0.916 31 H 0.080 0.920 32 H 0.059 0.941 33 H 0.084 0.916 34 H 0.094 0.906 35 H 0.100 0.900 36 H 0.078 0.922 37 H 0.105 0.895 38 H 0.085 0.915 39 H 0.066 0.934 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 20.392 -24.728 2.894 32.182 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 -0.548 5.548 2 C -0.193 4.193 3 Si 0.822 3.178 4 H -0.185 1.185 5 H -0.203 1.203 6 H -0.187 1.187 7 C -0.695 4.695 8 H 0.101 0.899 9 S 0.075 5.925 10 C -0.279 4.279 11 C 0.317 3.683 12 O -0.447 6.447 13 N -0.362 5.362 14 C -0.003 4.003 15 C -0.017 4.017 16 O -0.325 6.325 17 C -0.026 4.026 18 C 0.014 3.986 19 H 0.093 0.907 20 C -0.178 4.178 21 C -0.188 4.188 22 C -0.040 4.040 23 O -0.325 6.325 24 H 0.080 0.920 25 H 0.130 0.870 26 H 0.124 0.876 27 H 0.252 0.748 28 H 0.071 0.929 29 H 0.105 0.895 30 H 0.102 0.898 31 H 0.098 0.902 32 H 0.077 0.923 33 H 0.102 0.898 34 H 0.112 0.888 35 H 0.119 0.881 36 H 0.097 0.903 37 H 0.123 0.877 38 H 0.104 0.896 39 H 0.085 0.915 Dipole moment (debyes) X Y Z Total from point charges 18.016 -24.793 3.080 30.802 hybrid contribution 1.813 1.068 -0.074 2.105 sum 19.828 -23.725 3.006 31.066 Atomic orbital electron populations 1.70188 1.08002 1.28686 1.47924 1.26168 0.96009 1.03400 0.93705 0.84975 0.77776 0.75540 0.79514 1.18522 1.20336 1.18717 1.23176 0.95352 0.91959 1.59015 0.89900 1.85570 1.10632 0.99278 1.97051 1.23357 1.03518 0.94353 1.06715 1.20089 0.86232 0.86778 0.75155 1.90681 1.17394 1.86159 1.50474 1.45698 1.10276 1.05091 1.75173 1.21467 0.96450 0.80002 1.02417 1.22768 0.92802 0.98913 0.87255 1.87989 1.43444 1.62093 1.38989 1.23097 0.88255 0.93745 0.97486 1.22950 0.89914 0.99689 0.86076 0.90687 1.23115 0.96591 1.00257 0.97845 1.23276 0.95726 1.03664 0.96179 1.23613 0.93022 0.90195 0.97197 1.88540 1.45790 1.52796 1.45421 0.91975 0.86978 0.87591 0.74787 0.92856 0.89497 0.89755 0.90181 0.92298 0.89814 0.88753 0.88114 0.90300 0.87655 0.89641 0.91549 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 -57.03 13.22 21.65 0.29 -56.74 16 2 C 0.01 0.69 5.49 84.86 0.47 1.15 16 3 Si 1.00 44.26 29.55 68.60 2.03 46.29 16 4 H -0.26 -10.88 7.11 99.48 0.71 -10.17 16 5 H -0.28 -11.97 7.11 99.48 0.71 -11.26 16 6 H -0.26 -11.04 7.11 99.48 0.71 -10.33 16 7 C -0.55 -31.98 9.50 67.96 0.65 -31.33 16 8 H 0.08 4.48 7.80 -2.91 -0.02 4.46 16 9 S -0.15 -8.75 20.57 -56.49 -1.16 -9.91 16 10 C -0.13 -5.35 6.16 71.23 0.44 -4.91 16 11 C 0.53 21.00 7.85 87.66 0.69 21.69 16 12 O -0.57 -27.78 15.86 -3.02 -0.05 -27.83 16 13 N -0.71 -19.89 5.50 -463.06 -2.55 -22.44 16 14 C 0.12 2.91 6.06 86.38 0.52 3.43 16 15 C 0.06 0.96 6.07 71.98 0.44 1.40 16 16 O -0.41 -8.50 10.27 -146.53 -1.51 -10.00 16 17 C 0.05 0.72 5.47 71.98 0.39 1.12 16 18 C 0.07 1.13 3.81 31.06 0.12 1.25 16 19 H 0.08 1.34 8.14 -2.38 -0.02 1.32 16 20 C -0.14 -1.14 6.54 31.85 0.21 -0.93 16 21 C -0.15 -1.25 7.16 32.06 0.23 -1.02 16 22 C 0.04 0.49 7.78 72.65 0.57 1.05 16 23 O -0.41 -8.90 11.00 -146.53 -1.61 -10.51 16 24 H 0.27 15.75 8.31 -92.71 -0.77 14.98 16 25 H 0.11 4.14 8.14 -2.40 -0.02 4.12 16 26 H 0.11 4.08 8.14 -2.39 -0.02 4.06 16 27 H 0.42 9.15 8.47 -92.71 -0.79 8.37 16 28 H 0.05 1.55 8.14 -2.38 -0.02 1.53 16 29 H 0.09 2.03 8.14 -2.38 -0.02 2.01 16 30 H 0.08 1.05 8.14 -2.39 -0.02 1.03 16 31 H 0.08 0.93 8.14 -2.38 -0.02 0.91 16 32 H 0.06 0.75 8.14 -2.38 -0.02 0.73 16 33 H 0.08 0.75 8.14 -2.39 -0.02 0.73 16 34 H 0.09 0.49 7.85 -2.39 -0.02 0.47 16 35 H 0.10 0.55 8.14 -2.39 -0.02 0.53 16 36 H 0.08 0.68 8.14 -2.39 -0.02 0.66 16 37 H 0.11 0.43 8.14 -2.39 -0.02 0.41 16 38 H 0.09 1.09 8.14 -2.39 -0.02 1.07 16 39 H 0.07 0.76 8.14 -2.38 -0.02 0.74 16 Total: -1.00 -82.30 345.62 0.40 -81.90 By element: Atomic # 1 Polarization: 16.12 SS G_CDS: 0.25 Total: 16.37 kcal Atomic # 6 Polarization: -11.83 SS G_CDS: 4.71 Total: -7.11 kcal Atomic # 7 Polarization: -76.92 SS G_CDS: -2.26 Total: -79.18 kcal Atomic # 8 Polarization: -45.18 SS G_CDS: -3.17 Total: -48.35 kcal Atomic # 14 Polarization: 44.26 SS G_CDS: 2.03 Total: 46.29 kcal Atomic # 16 Polarization: -8.75 SS G_CDS: -1.16 Total: -9.91 kcal Total: -82.30 0.40 -81.90 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. ZINC000115420761.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 -82.845 kcal (2) G-P(sol) polarization free energy of solvation -82.303 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -165.148 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.403 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -81.900 kcal (6) G-S(sol) free energy of system = (1) + (5) -164.745 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.59 seconds