Wall clock time and date at job start Tue Mar 31 2020 22:19:14 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 1.31637 * 1 3 3 Si 1.86801 * 119.99991 * 2 1 4 4 H 1.48501 * 109.47082 * 269.99787 * 3 2 1 5 5 H 1.48496 * 109.47160 * 29.99863 * 3 2 1 6 6 H 1.48503 * 109.46892 * 149.99696 * 3 2 1 7 7 C 1.38793 * 119.99782 * 179.97438 * 2 1 3 8 8 H 1.08007 * 120.00353 * 0.02562 * 7 2 1 9 9 S 1.76200 * 119.99856 * 179.97438 * 7 2 1 10 10 C 1.81002 * 100.00069 * 180.02562 * 9 7 2 11 11 C 1.50700 * 109.47523 * 180.02562 * 10 9 7 12 12 O 1.21283 * 119.99539 * 359.97438 * 11 10 9 13 13 N 1.34776 * 120.00354 * 179.97438 * 11 10 9 14 14 C 1.46500 * 119.99912 * 179.97438 * 13 11 10 15 15 H 1.08998 * 110.90371 * 31.14058 * 14 13 11 16 16 C 1.55422 * 111.10625 * 267.17442 * 14 13 11 17 17 C 1.54321 * 103.04810 * 206.29847 * 16 14 13 18 18 N 1.47448 * 107.23159 * 22.28093 * 17 16 14 19 19 C 1.46900 * 111.00041 * 123.26094 * 18 17 16 20 20 C 1.50699 * 109.47353 * 69.15552 * 19 18 17 21 21 C 1.38230 * 119.58784 * 94.72312 * 20 19 18 22 22 C 1.38594 * 119.18997 * 179.77461 * 21 20 19 23 23 C 1.38876 * 118.39735 * 0.49736 * 22 21 20 24 24 F 1.35096 * 120.44325 * 179.73241 * 23 22 21 25 25 C 1.38427 * 119.11239 * 359.74881 * 23 22 21 26 26 N 1.31844 * 119.59030 * 275.00617 * 20 19 18 27 27 C 1.47846 * 108.56553 * 0.99350 * 18 17 16 28 28 H 0.96996 * 119.99567 * 0.02562 * 1 2 3 29 29 H 1.08997 * 109.47135 * 59.99854 * 10 9 7 30 30 H 1.09008 * 109.47140 * 300.00422 * 10 9 7 31 31 H 0.96994 * 119.99874 * 359.97438 * 13 11 10 32 32 H 1.09004 * 110.69757 * 87.90721 * 16 14 13 33 33 H 1.09004 * 110.69257 * 324.68764 * 16 14 13 34 34 H 1.08999 * 109.88748 * 262.87827 * 17 16 14 35 35 H 1.08997 * 110.02694 * 141.76299 * 17 16 14 36 36 H 1.09001 * 109.47310 * 189.16067 * 19 18 17 37 37 H 1.09001 * 109.46761 * 309.15792 * 19 18 17 38 38 H 1.08005 * 120.40704 * 0.02562 * 21 20 19 39 39 H 1.08000 * 120.79801 * 180.26440 * 22 21 20 40 40 H 1.08002 * 119.63284 * 180.02562 * 25 23 22 41 41 H 1.09002 * 110.37464 * 94.73346 * 27 18 17 42 42 H 1.08999 * 110.37318 * 216.96123 * 27 18 17 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 1.3164 0.0000 0.0000 3 14 2.2504 1.6177 0.0000 4 1 2.4979 2.0464 -1.4001 5 1 1.4478 2.6527 0.7000 6 1 3.5479 1.4401 0.7001 7 6 2.0103 -1.2020 0.0005 8 1 1.4703 -2.1374 0.0005 9 16 3.7723 -1.2020 -0.0001 10 6 4.0866 -2.9846 0.0001 11 6 5.5730 -3.2326 0.0002 12 8 6.3440 -2.2964 -0.0003 13 7 6.0457 -4.4948 0.0010 14 6 7.4907 -4.7359 0.0005 15 1 8.0179 -3.9399 0.5263 16 6 8.0303 -4.8996 -1.4478 17 6 9.2862 -5.7753 -1.2547 18 7 9.1259 -6.4932 0.0232 19 6 9.2175 -7.9460 -0.1740 20 6 10.6318 -8.3151 -0.5408 21 6 11.5102 -8.7183 0.4475 22 6 12.8076 -9.0603 0.1004 23 6 13.1787 -8.9735 -1.2351 24 9 14.4343 -9.2916 -1.6187 25 6 12.2448 -8.5562 -2.1678 26 7 11.0177 -8.2440 -1.7995 27 6 7.8225 -6.1196 0.6126 28 1 -0.4849 0.8400 -0.0004 29 1 3.6433 -3.4318 -0.8895 30 1 3.6439 -3.4314 0.8904 31 1 5.4291 -5.2435 0.0018 32 1 8.2972 -3.9312 -1.8712 33 1 7.2989 -5.4078 -2.0762 34 1 10.1752 -5.1457 -1.2174 35 1 9.3723 -6.4900 -2.0732 36 1 8.9361 -8.4562 0.7472 37 1 8.5438 -8.2469 -0.9764 38 1 11.1881 -8.7701 1.4772 39 1 13.5141 -9.3829 0.8509 40 1 12.5242 -8.4861 -3.2087 41 1 7.0595 -6.8484 0.3392 42 1 7.9039 -6.0453 1.6971 RHF calculation, no. of doubly occupied orbitals= 60 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) F: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988). 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 ZINC001266303066.mol2 42 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 22:19:14 Heat of formation + Delta-G solvation = -60.882731 kcal Electronic energy + Delta-G solvation = -25317.553262 eV Core-core repulsion = 21337.295969 eV Total energy + Delta-G solvation = -3980.257293 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.116 amu Computer time = 0.62 seconds Orbital eigenvalues (eV) -50.00435 -41.40842 -40.85187 -39.38514 -35.69984 -34.66577 -33.50264 -33.46622 -31.41767 -30.64965 -28.96589 -27.84014 -26.68115 -24.87107 -23.35796 -22.53497 -22.02159 -21.36922 -19.89811 -18.66378 -18.33032 -18.03253 -17.77521 -17.10886 -17.04941 -16.81456 -16.73278 -16.36459 -16.20353 -15.43811 -15.14809 -14.96303 -14.90427 -14.69523 -14.52480 -14.49239 -14.11938 -13.83092 -13.73051 -13.65439 -13.34096 -13.02734 -12.93893 -12.69753 -12.66009 -12.43197 -12.29999 -11.86359 -11.74227 -11.16758 -11.03056 -10.91664 -10.60446 -10.52623 -10.14483 -9.92074 -9.36933 -8.98957 -8.51166 -6.21771 -0.14154 0.11469 0.99194 1.31659 1.46988 1.55205 1.55547 2.13184 2.25457 2.50705 2.71998 2.87230 2.98320 3.13710 3.30554 3.56233 3.57374 3.78112 3.80995 3.87225 3.89854 4.07096 4.24226 4.27663 4.32750 4.35773 4.47849 4.48276 4.63034 4.71678 4.79315 4.86464 4.90786 4.94545 5.02340 5.04735 5.15069 5.43653 5.60686 5.71194 5.84378 5.97419 6.11955 6.46398 6.81803 6.94289 7.19714 8.61095 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.042744 B = 0.001654 C = 0.001632 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 654.901276 B =16925.987230 C =17153.345231 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.916 5.916 2 C 0.046 3.954 3 Si 0.913 3.087 4 H -0.263 1.263 5 H -0.259 1.259 6 H -0.237 1.237 7 C -0.529 4.529 8 H 0.063 0.937 9 S -0.178 6.178 10 C -0.111 4.111 11 C 0.538 3.462 12 O -0.562 6.562 13 N -0.701 5.701 14 C 0.135 3.865 15 H 0.081 0.919 16 C -0.151 4.151 17 C 0.052 3.948 18 N -0.526 5.526 19 C 0.100 3.900 20 C 0.113 3.887 21 C -0.118 4.118 22 C -0.108 4.108 23 C 0.032 3.968 24 F -0.138 7.138 25 C 0.066 3.934 26 N -0.474 5.474 27 C 0.049 3.951 28 H 0.277 0.723 29 H 0.114 0.886 30 H 0.117 0.883 31 H 0.418 0.582 32 H 0.059 0.941 33 H 0.079 0.921 34 H 0.062 0.938 35 H 0.075 0.925 36 H 0.121 0.879 37 H 0.058 0.942 38 H 0.173 0.827 39 H 0.170 0.830 40 H 0.177 0.823 41 H 0.079 0.921 42 H 0.102 0.898 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 25.189 -24.743 0.806 35.318 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 -0.159 4.159 3 Si 0.735 3.265 4 H -0.188 1.188 5 H -0.184 1.184 6 H -0.161 1.161 7 C -0.676 4.676 8 H 0.082 0.918 9 S 0.049 5.951 10 C -0.262 4.262 11 C 0.324 3.676 12 O -0.440 6.440 13 N -0.355 5.355 14 C 0.029 3.971 15 H 0.099 0.901 16 C -0.190 4.190 17 C -0.076 4.076 18 N -0.251 5.251 19 C -0.028 4.028 20 C -0.025 4.025 21 C -0.138 4.138 22 C -0.134 4.134 23 C 0.010 3.990 24 F -0.117 7.117 25 C -0.092 4.092 26 N -0.183 5.183 27 C -0.079 4.079 28 H 0.086 0.914 29 H 0.132 0.868 30 H 0.135 0.865 31 H 0.256 0.744 32 H 0.078 0.922 33 H 0.097 0.903 34 H 0.080 0.920 35 H 0.094 0.906 36 H 0.139 0.861 37 H 0.077 0.923 38 H 0.191 0.809 39 H 0.188 0.812 40 H 0.194 0.806 41 H 0.097 0.903 42 H 0.120 0.880 Dipole moment (debyes) X Y Z Total from point charges 26.130 -22.733 0.511 34.638 hybrid contribution -1.053 -0.959 -0.374 1.473 sum 25.076 -23.692 0.137 34.499 Atomic orbital electron populations 1.70017 1.07263 1.28983 1.49170 1.25548 0.95258 1.02198 0.92925 0.85880 0.80701 0.79710 0.80161 1.18806 1.18350 1.16087 1.22465 0.90247 0.96708 1.58193 0.91840 1.84753 1.06432 1.06358 1.97593 1.23269 0.95752 0.99522 1.07611 1.19968 0.89379 0.83365 0.74908 1.90700 1.59328 1.43878 1.50056 1.45571 1.07779 1.06929 1.75229 1.22080 0.80222 0.98572 0.96176 0.90065 1.23184 0.98185 1.00492 0.97168 1.22706 0.96801 0.96727 0.91399 1.63591 1.31619 1.05966 1.23901 1.21246 0.90278 0.88427 1.02839 1.21410 0.97390 0.95267 0.88437 1.22182 0.92111 0.97212 1.02309 1.22006 0.98253 0.98406 0.94762 1.19006 0.81065 1.03678 0.95234 1.91513 1.37791 1.90534 1.91832 1.23086 0.88212 0.96925 1.01004 1.67518 1.16848 1.13766 1.20190 1.23199 0.90118 0.93699 1.00853 0.91396 0.86813 0.86520 0.74393 0.92178 0.90268 0.91978 0.90639 0.86074 0.92334 0.80928 0.81234 0.80586 0.90313 0.87993 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 -55.49 13.97 21.65 0.30 -55.19 16 2 C 0.05 2.69 5.50 84.85 0.47 3.16 16 3 Si 0.91 44.89 27.74 68.60 1.90 46.80 16 4 H -0.26 -12.66 7.11 99.48 0.71 -11.96 16 5 H -0.26 -11.95 7.11 99.48 0.71 -11.24 16 6 H -0.24 -11.64 6.74 99.48 0.67 -10.97 16 7 C -0.53 -30.49 10.04 67.95 0.68 -29.81 16 8 H 0.06 3.84 8.03 -2.91 -0.02 3.82 16 9 S -0.18 -8.89 18.55 -56.49 -1.05 -9.93 16 10 C -0.11 -4.00 6.16 71.24 0.44 -3.56 16 11 C 0.54 17.70 7.85 87.66 0.69 18.39 16 12 O -0.56 -23.59 15.50 -3.04 -0.05 -23.64 16 13 N -0.70 -15.11 5.20 -435.53 -2.27 -17.37 16 14 C 0.14 2.71 3.43 46.48 0.16 2.87 16 15 H 0.08 2.11 7.54 -2.39 -0.02 2.09 16 16 C -0.15 -2.98 6.65 31.88 0.21 -2.77 16 17 C 0.05 0.90 6.30 86.65 0.55 1.45 16 18 N -0.53 -7.32 5.15 -890.07 -4.59 -11.91 16 19 C 0.10 1.01 4.87 85.56 0.42 1.43 16 20 C 0.11 1.42 5.93 42.55 0.25 1.68 16 21 C -0.12 -1.04 9.72 22.35 0.22 -0.83 16 22 C -0.11 -1.01 10.16 22.51 0.23 -0.79 16 23 C 0.03 0.41 7.35 22.47 0.17 0.58 16 24 F -0.14 -2.02 17.28 44.97 0.78 -1.24 16 25 C 0.07 0.92 11.17 84.73 0.95 1.86 16 26 N -0.47 -7.48 9.01 -183.71 -1.66 -9.13 16 27 C 0.05 0.61 6.33 86.77 0.55 1.16 16 28 H 0.28 15.50 8.31 -92.71 -0.77 14.73 16 29 H 0.11 3.76 8.14 -2.40 -0.02 3.74 16 30 H 0.12 3.81 8.14 -2.39 -0.02 3.79 16 31 H 0.42 6.01 8.57 -92.71 -0.79 5.21 16 32 H 0.06 1.45 8.14 -2.38 -0.02 1.43 16 33 H 0.08 1.45 8.14 -2.38 -0.02 1.43 16 34 H 0.06 1.25 8.14 -2.39 -0.02 1.23 16 35 H 0.08 1.33 6.40 -2.39 -0.02 1.32 16 36 H 0.12 0.58 7.98 -2.39 -0.02 0.56 16 37 H 0.06 0.63 7.98 -2.39 -0.02 0.61 16 38 H 0.17 0.55 8.06 -2.91 -0.02 0.52 16 39 H 0.17 0.74 8.06 -2.91 -0.02 0.72 16 40 H 0.18 1.81 8.06 -2.91 -0.02 1.79 16 41 H 0.08 0.65 7.67 -2.39 -0.02 0.63 16 42 H 0.10 1.13 8.14 -2.39 -0.02 1.11 16 Total: -1.00 -75.78 370.33 -0.43 -76.22 By element: Atomic # 1 Polarization: 10.37 SS G_CDS: 0.22 Total: 10.59 kcal Atomic # 6 Polarization: -11.14 SS G_CDS: 5.97 Total: -5.17 kcal Atomic # 7 Polarization: -85.40 SS G_CDS: -8.21 Total: -93.61 kcal Atomic # 8 Polarization: -23.59 SS G_CDS: -0.05 Total: -23.64 kcal Atomic # 9 Polarization: -2.02 SS G_CDS: 0.78 Total: -1.24 kcal Atomic # 14 Polarization: 44.89 SS G_CDS: 1.90 Total: 46.80 kcal Atomic # 16 Polarization: -8.89 SS G_CDS: -1.05 Total: -9.93 kcal Total: -75.78 -0.43 -76.22 kcal The number of atoms in the molecule is 42 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. ZINC001266303066.mol2 42 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 15.334 kcal (2) G-P(sol) polarization free energy of solvation -75.782 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -60.448 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.435 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.217 kcal (6) G-S(sol) free energy of system = (1) + (5) -60.883 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.62 seconds