Wall clock time and date at job start Sat Apr 11 2020 06:16:50 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 1.31628 * 1 3 3 Si 1.86799 * 119.99849 * 2 1 4 4 H 1.48507 * 109.47007 * 239.99657 * 3 2 1 5 5 H 1.48497 * 109.47240 * 359.97438 * 3 2 1 6 6 H 1.48503 * 109.47054 * 120.00119 * 3 2 1 7 7 C 1.38801 * 119.99665 * 179.97438 * 2 1 3 8 8 H 1.08005 * 119.99234 * 179.97438 * 7 2 1 9 9 S 1.76196 * 120.00445 * 0.02562 * 7 2 1 10 10 C 1.80995 * 100.00057 * 179.97438 * 9 7 2 11 11 C 1.50704 * 109.47005 * 179.97438 * 10 9 7 12 12 O 1.21282 * 120.00260 * 0.02562 * 11 10 9 13 13 N 1.34780 * 119.99911 * 180.02562 * 11 10 9 14 14 C 1.46501 * 119.99925 * 180.02562 * 13 11 10 15 15 C 1.53003 * 109.46932 * 174.90937 * 14 13 11 16 16 N 1.46501 * 115.55248 * 324.96947 * 15 14 13 17 17 C 1.34774 * 119.99667 * 279.59097 * 16 15 14 18 18 O 1.21282 * 120.00302 * 354.99453 * 17 16 15 19 19 C 1.50703 * 119.99972 * 174.99064 * 17 16 15 20 20 H 1.09002 * 110.43496 * 298.91516 * 19 17 16 21 21 C 1.54856 * 110.58377 * 176.29927 * 19 17 16 22 22 C 1.54478 * 101.65867 * 216.46238 * 21 19 17 23 23 N 1.46760 * 105.55169 * 25.43603 * 22 21 19 24 24 C 1.34412 * 111.30203 * 342.93740 * 23 22 21 25 25 O 1.21282 * 124.94199 * 180.42805 * 24 23 22 26 26 C 1.52997 * 117.51368 * 110.66817 * 15 14 13 27 27 C 1.52993 * 117.49575 * 179.29610 * 15 14 13 28 28 H 0.97004 * 120.00367 * 359.97438 * 1 2 3 29 29 H 1.09009 * 109.46972 * 60.00197 * 10 9 7 30 30 H 1.08995 * 109.47683 * 299.99975 * 10 9 7 31 31 H 0.97002 * 119.99599 * 359.97438 * 13 11 10 32 32 H 1.09000 * 109.46844 * 54.91093 * 14 13 11 33 33 H 1.08994 * 109.46904 * 294.91008 * 14 13 11 34 34 H 0.96993 * 120.00091 * 99.59024 * 16 15 14 35 35 H 1.08991 * 111.03753 * 98.37005 * 21 19 17 36 36 H 1.08998 * 110.99573 * 334.53565 * 21 19 17 37 37 H 1.08997 * 110.24906 * 266.38944 * 22 21 19 38 38 H 1.09010 * 110.24247 * 144.48115 * 22 21 19 39 39 H 0.97005 * 124.35040 * 162.96317 * 23 22 21 40 40 H 1.09007 * 117.50106 * 214.96694 * 26 15 14 41 41 H 1.08996 * 117.50349 * 359.97438 * 26 15 14 42 42 H 1.09003 * 117.50479 * 359.97438 * 27 15 14 43 43 H 1.09005 * 117.49756 * 144.99882 * 27 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 1.3163 0.0000 0.0000 3 14 2.2502 1.6178 0.0000 4 1 3.1041 1.6964 -1.2125 5 1 1.2852 2.7464 -0.0006 6 1 3.1040 1.6964 1.2125 7 6 2.0102 -1.2021 0.0005 8 1 3.0903 -1.2020 0.0001 9 16 1.1293 -2.7280 0.0005 10 6 2.5158 -3.8914 0.0005 11 6 1.9873 -5.3027 0.0012 12 8 0.7910 -5.5023 0.0011 13 7 2.8441 -6.3432 0.0018 14 6 2.3303 -7.7151 0.0019 15 6 3.4971 -8.6966 -0.1254 16 7 4.6107 -8.2490 -0.9655 17 6 4.5275 -8.3536 -2.3066 18 8 3.5713 -8.9006 -2.8140 19 6 5.6225 -7.7909 -3.1757 20 1 5.7116 -6.7148 -3.0267 21 6 5.3530 -8.1112 -4.6667 22 6 6.7824 -8.3643 -5.1949 23 7 7.5632 -8.7915 -4.0280 24 6 6.9381 -8.4771 -2.8804 25 8 7.3665 -8.7094 -1.7698 26 6 3.8338 -9.5564 1.0946 27 6 3.1666 -10.1904 -0.1276 28 1 -0.4851 0.8400 0.0004 29 1 3.1244 -3.7313 0.8906 30 1 3.1244 -3.7314 -0.8894 31 1 3.8008 -6.1835 0.0015 32 1 1.6501 -7.8484 -0.8394 33 1 1.7971 -7.9033 0.9337 34 1 5.4078 -7.8772 -0.5566 35 1 4.8948 -7.2616 -5.1727 36 1 4.7356 -9.0037 -4.7690 37 1 7.1984 -7.4471 -5.6118 38 1 6.7718 -9.1503 -5.9501 39 1 8.4206 -9.2425 -4.0784 40 1 4.8838 -9.7890 1.2721 41 1 3.2243 -9.4226 1.9883 42 1 2.1179 -10.4741 -0.0379 43 1 3.7777 -10.8402 -0.7542 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC001535131246.mol2 43 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sat Apr 11 2020 06:16:50 Heat of formation + Delta-G solvation = -109.182432 kcal Electronic energy + Delta-G solvation = -27138.166981 eV Core-core repulsion = 23116.130988 eV Total energy + Delta-G solvation = -4022.035993 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 341.124 amu Computer time = 0.64 seconds Orbital eigenvalues (eV) -42.05567 -40.89805 -40.09805 -38.51175 -37.37119 -35.27225 -34.57260 -34.12648 -32.32976 -31.29724 -28.93124 -27.86595 -27.28511 -24.24810 -23.49744 -22.65776 -21.81894 -21.40070 -20.63903 -19.84235 -18.65920 -18.32406 -18.11294 -17.77041 -17.33909 -16.86911 -16.74577 -16.47171 -16.01494 -15.90388 -15.60024 -15.20101 -14.95488 -14.74078 -14.67038 -14.61484 -14.37917 -14.26476 -13.66399 -13.49712 -13.40925 -13.16102 -12.85296 -12.77189 -12.62670 -12.46559 -12.16010 -12.00929 -11.74084 -11.45538 -11.11881 -11.10263 -10.97655 -10.93543 -10.27757 -10.26127 -10.14829 -10.12570 -8.66265 -8.33352 -6.11869 1.20755 1.26214 1.45106 1.46035 1.49189 1.56757 1.58402 1.90310 2.23445 2.28806 2.40955 2.65420 3.00746 3.18506 3.27030 3.32306 3.49829 3.70782 3.80140 3.87014 3.97983 4.02354 4.14267 4.27913 4.45934 4.47876 4.48999 4.57357 4.66822 4.70897 4.77927 4.93570 4.98202 5.12790 5.14629 5.27443 5.42579 5.49047 5.69399 5.89211 6.20651 6.37282 6.43907 7.06018 7.07645 7.12738 7.19432 8.75658 Molecular weight = 341.12amu Principal moments of inertia in cm(-1) A = 0.011773 B = 0.002679 C = 0.002346 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2377.763639 B =10447.977487 C =11933.967134 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 0.013 3.987 3 Si 0.999 3.001 4 H -0.261 1.261 5 H -0.280 1.280 6 H -0.262 1.262 7 C -0.547 4.547 8 H 0.084 0.916 9 S -0.150 6.150 10 C -0.128 4.128 11 C 0.533 3.467 12 O -0.564 6.564 13 N -0.706 5.706 14 C 0.158 3.842 15 C 0.067 3.933 16 N -0.683 5.683 17 C 0.530 3.470 18 O -0.555 6.555 19 C -0.152 4.152 20 H 0.158 0.842 21 C -0.117 4.117 22 C 0.101 3.899 23 N -0.716 5.716 24 C 0.526 3.474 25 O -0.560 6.560 26 C -0.141 4.141 27 C -0.154 4.154 28 H 0.271 0.729 29 H 0.112 0.888 30 H 0.110 0.890 31 H 0.412 0.588 32 H 0.051 0.949 33 H 0.083 0.917 34 H 0.417 0.583 35 H 0.112 0.888 36 H 0.082 0.918 37 H 0.101 0.899 38 H 0.106 0.894 39 H 0.423 0.577 40 H 0.113 0.887 41 H 0.124 0.876 42 H 0.110 0.890 43 H 0.091 0.909 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 19.975 -20.736 -7.897 29.856 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 -0.191 4.191 3 Si 0.820 3.180 4 H -0.185 1.185 5 H -0.205 1.205 6 H -0.186 1.186 7 C -0.695 4.695 8 H 0.102 0.898 9 S 0.077 5.923 10 C -0.279 4.279 11 C 0.319 3.681 12 O -0.443 6.443 13 N -0.360 5.360 14 C 0.033 3.967 15 C -0.021 4.021 16 N -0.335 5.335 17 C 0.316 3.684 18 O -0.432 6.432 19 C -0.177 4.177 20 H 0.175 0.825 21 C -0.155 4.155 22 C -0.022 4.022 23 N -0.371 5.371 24 C 0.311 3.689 25 O -0.439 6.439 26 C -0.178 4.178 27 C -0.192 4.192 28 H 0.080 0.920 29 H 0.130 0.870 30 H 0.128 0.872 31 H 0.248 0.752 32 H 0.069 0.931 33 H 0.101 0.899 34 H 0.256 0.744 35 H 0.131 0.869 36 H 0.101 0.899 37 H 0.120 0.880 38 H 0.124 0.876 39 H 0.263 0.737 40 H 0.131 0.869 41 H 0.142 0.858 42 H 0.128 0.872 43 H 0.109 0.891 Dipole moment (debyes) X Y Z Total from point charges 17.291 -21.439 -7.708 28.601 hybrid contribution 2.406 1.243 0.105 2.710 sum 19.697 -20.196 -7.603 29.217 Atomic orbital electron populations 1.70181 1.08024 1.28684 1.47950 1.26138 0.95950 1.03346 0.93713 0.84999 0.77790 0.75625 0.79550 1.18523 1.20511 1.18635 1.23178 0.95387 0.91927 1.58977 0.89783 1.85622 1.10429 0.99197 1.97054 1.23354 1.03640 0.94052 1.06860 1.20123 0.86187 0.86684 0.75105 1.90699 1.17380 1.86080 1.50100 1.45559 1.10139 1.04716 1.75591 1.21005 0.94261 0.79411 1.02013 1.20726 0.90066 0.92252 0.99019 1.45243 1.19000 1.64142 1.05164 1.20300 0.86883 0.78395 0.82792 1.90719 1.34828 1.43657 1.74030 1.22331 0.92267 1.04572 0.98482 0.82494 1.22693 0.97651 1.05071 0.90135 1.22380 0.89243 1.02924 0.87666 1.46143 1.24282 1.59759 1.06875 1.20437 0.85975 0.77959 0.84576 1.90753 1.71306 1.57007 1.24791 1.23565 1.03387 0.98888 0.91967 1.23208 1.02846 0.92248 1.00893 0.91999 0.87006 0.87215 0.75160 0.93092 0.89873 0.74443 0.86919 0.89947 0.88041 0.87582 0.73671 0.86870 0.85818 0.87184 0.89058 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 -56.06 13.22 21.65 0.29 -55.77 16 2 C 0.01 0.75 5.49 84.86 0.47 1.22 16 3 Si 1.00 43.17 29.55 68.60 2.03 45.20 16 4 H -0.26 -10.62 7.11 99.48 0.71 -9.91 16 5 H -0.28 -11.84 7.11 99.48 0.71 -11.14 16 6 H -0.26 -10.71 7.11 99.48 0.71 -10.01 16 7 C -0.55 -31.04 9.50 67.95 0.65 -30.40 16 8 H 0.08 4.39 7.80 -2.91 -0.02 4.36 16 9 S -0.15 -8.36 20.57 -56.49 -1.16 -9.52 16 10 C -0.13 -5.06 6.16 71.24 0.44 -4.62 16 11 C 0.53 20.17 7.85 87.66 0.69 20.85 16 12 O -0.56 -26.88 15.86 -3.03 -0.05 -26.93 16 13 N -0.71 -18.94 5.40 -463.05 -2.50 -21.44 16 14 C 0.16 4.01 5.90 86.38 0.51 4.52 16 15 C 0.07 1.31 2.02 3.60 0.01 1.32 16 16 N -0.68 -12.64 4.17 -422.93 -1.76 -14.41 16 17 C 0.53 11.23 7.09 87.66 0.62 11.86 16 18 O -0.56 -15.64 15.11 -3.04 -0.05 -15.68 16 19 C -0.15 -2.17 3.33 -11.46 -0.04 -2.20 16 20 H 0.16 1.63 8.14 -2.39 -0.02 1.61 16 21 C -0.12 -1.21 6.47 31.73 0.21 -1.01 16 22 C 0.10 0.46 7.78 86.83 0.68 1.13 16 23 N -0.72 -6.38 6.24 -459.81 -2.87 -9.25 16 24 C 0.53 8.20 7.84 87.90 0.69 8.89 16 25 O -0.56 -12.31 16.73 -3.04 -0.05 -12.37 16 26 C -0.14 -1.99 10.10 30.59 0.31 -1.68 16 27 C -0.15 -2.77 9.56 30.59 0.29 -2.48 16 28 H 0.27 15.49 8.31 -92.71 -0.77 14.72 16 29 H 0.11 3.94 8.14 -2.39 -0.02 3.92 16 30 H 0.11 3.87 8.14 -2.40 -0.02 3.85 16 31 H 0.41 8.42 7.75 -92.71 -0.72 7.70 16 32 H 0.05 1.60 8.14 -2.39 -0.02 1.58 16 33 H 0.08 2.03 7.91 -2.39 -0.02 2.01 16 34 H 0.42 6.54 7.84 -92.71 -0.73 5.81 16 35 H 0.11 0.89 8.14 -2.39 -0.02 0.88 16 36 H 0.08 1.21 7.07 -2.39 -0.02 1.19 16 37 H 0.10 0.09 8.14 -2.39 -0.02 0.07 16 38 H 0.11 0.12 8.14 -2.38 -0.02 0.10 16 39 H 0.42 2.49 8.96 -92.70 -0.83 1.66 16 40 H 0.11 1.41 8.14 -2.38 -0.02 1.39 16 41 H 0.12 1.44 8.05 -2.39 -0.02 1.42 16 42 H 0.11 1.88 8.14 -2.39 -0.02 1.86 16 43 H 0.09 1.81 8.14 -2.38 -0.02 1.79 16 Total: -1.00 -86.07 382.37 -1.81 -87.89 By element: Atomic # 1 Polarization: 26.07 SS G_CDS: -1.20 Total: 24.87 kcal Atomic # 6 Polarization: 1.89 SS G_CDS: 5.51 Total: 7.40 kcal Atomic # 7 Polarization: -94.02 SS G_CDS: -6.84 Total: -100.86 kcal Atomic # 8 Polarization: -54.83 SS G_CDS: -0.14 Total: -54.98 kcal Atomic # 14 Polarization: 43.17 SS G_CDS: 2.03 Total: 45.20 kcal Atomic # 16 Polarization: -8.36 SS G_CDS: -1.16 Total: -9.52 kcal Total: -86.07 -1.81 -87.89 kcal The number of atoms in the molecule is 43 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. ZINC001535131246.mol2 43 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 -21.295 kcal (2) G-P(sol) polarization free energy of solvation -86.073 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -107.369 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.814 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -87.887 kcal (6) G-S(sol) free energy of system = (1) + (5) -109.182 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.64 seconds