Wall clock time and date at job start Sat Apr 11 2020 05:55:16 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 C 2 2 C 1.53008 * 1 3 3 H 1.08994 * 109.99537 * 2 1 4 4 C 1.54324 * 109.88258 * 238.90626 * 2 1 3 5 5 H 1.09002 * 110.72090 * 336.75483 * 4 2 1 6 6 N 1.46494 * 110.71847 * 100.02938 * 4 2 1 7 7 C 1.34776 * 119.99593 * 204.99873 * 6 4 2 8 8 O 1.21503 * 120.00240 * 0.02562 * 7 6 4 9 9 C 1.48288 * 119.99862 * 180.02562 * 7 6 4 10 10 C 1.47487 * 128.70755 * 179.97438 * 9 7 6 11 11 N 1.30654 * 102.71448 * 179.97438 * 10 9 7 12 12 O 1.20843 * 109.61735 * 359.97438 * 11 10 9 13 13 N 1.20908 * 115.90513 * 359.73871 * 12 11 10 14 14 C 1.55155 * 102.93924 * 218.39233 * 4 2 1 15 15 C 1.54689 * 101.67730 * 35.33807 * 14 4 2 16 16 N 1.47017 * 109.87719 * 121.09757 * 2 1 3 17 17 C 1.34775 * 125.64996 * 298.31670 * 16 2 1 18 18 O 1.21284 * 120.00295 * 0.02562 * 17 16 2 19 19 C 1.50708 * 119.99957 * 179.97438 * 17 16 2 20 20 S 1.80998 * 109.47052 * 180.02562 * 19 17 16 21 21 C 1.76199 * 100.00013 * 180.02562 * 20 19 17 22 22 H 1.07991 * 119.99794 * 0.02562 * 21 20 19 23 23 C 1.38798 * 119.99771 * 180.02562 * 21 20 19 24 24 N 1.31633 * 120.00311 * 0.02562 * 23 21 20 25 25 Si 1.86800 * 119.99653 * 180.02562 * 23 21 20 26 26 H 1.48501 * 109.47055 * 180.02562 * 25 23 21 27 27 H 1.48508 * 109.47016 * 299.99635 * 25 23 21 28 28 H 1.48495 * 109.47483 * 59.99992 * 25 23 21 29 29 H 1.09000 * 109.47238 * 300.36241 * 1 2 3 30 30 H 1.09000 * 109.46862 * 60.35654 * 1 2 3 31 31 H 1.08999 * 109.47336 * 180.35323 * 1 2 3 32 32 H 0.96994 * 120.00589 * 24.99876 * 6 4 2 33 33 H 1.07997 * 128.65007 * 359.94725 * 10 9 7 34 34 H 1.09001 * 111.00292 * 153.57485 * 14 4 2 35 35 H 1.08998 * 111.00228 * 277.38888 * 14 4 2 36 36 H 1.09002 * 110.38906 * 204.36355 * 15 14 4 37 37 H 1.08994 * 110.24141 * 82.11486 * 15 14 4 38 38 H 1.09005 * 109.46512 * 60.00633 * 19 17 16 39 39 H 1.08991 * 109.47135 * 300.00153 * 19 17 16 40 40 H 0.97001 * 119.99662 * 359.97438 * 24 23 21 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5301 0.0000 0.0000 3 1 1.9028 1.0242 0.0000 4 6 2.0549 -0.7495 -1.2427 5 1 1.3052 -1.4459 -1.6183 6 7 2.4556 0.1961 -2.2874 7 6 2.4583 -0.1883 -3.5792 8 8 2.1280 -1.3189 -3.8773 9 6 2.8644 0.7687 -4.6366 10 6 2.9382 0.5560 -6.0942 11 7 3.3482 1.7160 -6.5338 12 8 3.4973 2.4728 -5.6035 13 7 3.2432 2.0226 -4.5105 14 6 3.2876 -1.5142 -0.6924 15 6 2.8190 -1.8764 0.7367 16 7 2.0299 -0.7141 1.1839 17 6 1.8085 -0.3613 2.4657 18 8 1.1452 0.6222 2.7180 19 6 2.3841 -1.1896 3.5854 20 16 1.9138 -0.4643 5.1757 21 6 2.6973 -1.5986 6.2729 22 1 3.2579 -2.4327 5.8775 23 6 2.5941 -1.4201 7.6455 24 7 1.9104 -0.4037 8.1275 25 14 3.4253 -2.6223 8.8088 26 1 3.1651 -2.2131 10.2124 27 1 2.8823 -3.9859 8.5825 28 1 4.8887 -2.6240 8.5564 29 1 -0.3634 0.5194 0.8867 30 1 -0.3633 0.5083 -0.8932 31 1 -0.3634 -1.0276 0.0063 32 1 2.7189 1.0988 -2.0495 33 1 2.7105 -0.3366 -6.6580 34 1 3.4852 -2.4110 -1.2796 35 1 4.1656 -0.8690 -0.6609 36 1 3.6776 -2.0265 1.3913 37 1 2.1971 -2.7712 0.7142 38 1 3.4708 -1.2087 3.5015 39 1 1.9967 -2.2063 3.5215 40 1 1.4791 0.2207 7.5234 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) 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 ZINC001281123404.mol2 40 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 05:55:16 Heat of formation + Delta-G solvation = 23.752344 kcal Electronic energy + Delta-G solvation = -26238.540934 eV Core-core repulsion = 22184.154993 eV Total energy + Delta-G solvation = -4054.385941 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 340.104 amu Computer time = 0.58 seconds Orbital eigenvalues (eV) -48.00040 -41.75602 -40.68057 -38.72281 -36.03389 -35.59084 -35.39403 -34.75162 -32.94993 -32.15251 -30.19755 -27.80504 -27.07910 -26.13283 -25.11611 -24.07393 -22.65682 -21.96876 -20.76795 -20.11987 -20.01377 -19.59365 -18.74192 -18.37522 -17.60423 -17.18656 -16.77301 -16.25776 -16.09602 -16.01197 -15.68610 -15.41499 -15.30132 -14.86974 -14.62070 -14.22127 -14.09393 -13.93194 -13.82227 -13.75228 -13.35802 -13.10824 -13.01556 -12.74908 -12.73364 -12.48202 -12.40180 -11.96293 -11.94436 -11.89360 -11.71951 -11.55805 -11.09694 -11.04559 -10.43059 -10.32808 -9.85014 -8.92515 -8.88047 -6.28091 -0.42284 0.29124 1.05720 1.35840 1.45530 1.52373 1.60775 1.68998 1.80757 1.95024 2.29541 2.33900 2.42373 2.83094 3.02192 3.03243 3.17894 3.39195 3.62766 3.70908 3.72581 3.81587 4.03662 4.08847 4.14707 4.19709 4.32488 4.42833 4.47780 4.56928 4.65647 4.76743 4.90113 4.94367 5.11523 5.16622 5.31072 5.64087 6.02709 6.14526 6.24688 6.67320 6.99563 7.06044 7.30233 8.50814 Molecular weight = 340.10amu Principal moments of inertia in cm(-1) A = 0.029927 B = 0.001939 C = 0.001913 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 935.397381 B =14437.156176 C =14634.177068 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.159 4.159 2 C 0.131 3.869 3 H 0.077 0.923 4 C 0.148 3.852 5 H 0.120 0.880 6 N -0.693 5.693 7 C 0.618 3.382 8 O -0.529 6.529 9 C -0.053 4.053 10 C 0.055 3.945 11 N -0.363 5.363 12 O 0.340 5.660 13 N -0.323 5.323 14 C -0.133 4.133 15 C 0.091 3.909 16 N -0.611 5.611 17 C 0.550 3.450 18 O -0.558 6.558 19 C -0.101 4.101 20 S -0.194 6.194 21 C -0.613 4.613 22 H 0.076 0.924 23 C -0.020 4.020 24 N -0.913 5.913 25 Si 1.136 2.864 26 H -0.281 1.281 27 H -0.263 1.263 28 H -0.263 1.263 29 H 0.043 0.957 30 H 0.084 0.916 31 H 0.066 0.934 32 H 0.416 0.584 33 H 0.257 0.743 34 H 0.112 0.888 35 H 0.087 0.913 36 H 0.092 0.908 37 H 0.092 0.908 38 H 0.110 0.890 39 H 0.109 0.891 40 H 0.260 0.740 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 4.602 -3.034 -30.868 31.356 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 C -0.217 4.217 2 C 0.027 3.973 3 H 0.095 0.905 4 C 0.043 3.957 5 H 0.138 0.862 6 N -0.345 5.345 7 C 0.401 3.599 8 O -0.404 6.404 9 C -0.218 4.218 10 C -0.131 4.131 11 N -0.088 5.088 12 O 0.114 5.886 13 N -0.043 5.043 14 C -0.172 4.172 15 C -0.031 4.031 16 N -0.346 5.346 17 C 0.338 3.662 18 O -0.436 6.436 19 C -0.252 4.252 20 S 0.033 5.967 21 C -0.760 4.760 22 H 0.094 0.906 23 C -0.223 4.223 24 N -0.548 5.548 25 Si 0.953 3.047 26 H -0.206 1.206 27 H -0.188 1.188 28 H -0.187 1.187 29 H 0.062 0.938 30 H 0.102 0.898 31 H 0.085 0.915 32 H 0.254 0.746 33 H 0.273 0.727 34 H 0.130 0.870 35 H 0.106 0.894 36 H 0.110 0.890 37 H 0.110 0.890 38 H 0.128 0.872 39 H 0.127 0.873 40 H 0.071 0.929 Dipole moment (debyes) X Y Z Total from point charges 3.960 -1.566 -29.137 29.447 hybrid contribution 0.093 -0.807 -1.339 1.566 sum 4.053 -2.373 -30.476 30.835 Atomic orbital electron populations 1.22094 0.94019 1.02911 1.02653 1.21705 0.95207 0.96455 0.83977 0.90470 1.22046 0.98084 0.90467 0.85064 0.86196 1.45680 1.66920 1.17067 1.04810 1.16392 0.77426 0.84993 0.81113 1.90865 1.48178 1.19269 1.82065 1.26146 1.07113 0.91943 0.96615 1.28276 0.96673 0.98378 0.89770 1.75133 1.16691 1.03183 1.13826 1.85123 1.60099 1.36605 1.06746 1.75399 1.11184 1.10829 1.06845 1.23176 0.97388 1.02390 0.94237 1.22621 0.96089 0.88381 0.95970 1.48360 1.53035 1.29765 1.03439 1.19658 0.79630 0.84359 0.82572 1.90694 1.40703 1.28722 1.83467 1.23168 1.04850 1.02726 0.94502 1.85066 1.71688 1.41262 0.98710 1.24017 1.40920 1.15436 0.95630 0.90591 1.27831 0.95785 1.00208 0.98446 1.70925 1.31155 1.14071 1.38664 0.82727 0.75852 0.72920 0.73162 1.20643 1.18751 1.18726 0.93810 0.89755 0.91535 0.74637 0.72670 0.86986 0.89427 0.88997 0.89024 0.87213 0.87267 0.92887 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 C -0.16 -3.39 9.10 71.98 0.66 -2.73 16 2 C 0.13 2.58 3.21 45.34 0.15 2.73 16 3 H 0.08 1.60 7.72 -2.39 -0.02 1.59 16 4 C 0.15 2.01 2.85 46.18 0.13 2.14 16 5 H 0.12 1.65 7.26 -2.39 -0.02 1.63 16 6 N -0.69 -8.35 5.17 -439.37 -2.27 -10.62 16 7 C 0.62 8.51 7.85 86.92 0.68 9.19 16 8 O -0.53 -9.57 16.69 -3.72 -0.06 -9.63 16 9 C -0.05 -0.64 7.56 44.30 0.34 -0.30 16 10 C 0.06 0.48 12.63 87.31 1.10 1.59 16 11 N -0.36 -4.33 12.22 -61.39 -0.75 -5.08 16 12 O 0.34 4.37 11.65 140.84 1.64 6.01 16 13 N -0.32 -4.25 12.13 -52.06 -0.63 -4.88 16 14 C -0.13 -1.55 6.76 31.91 0.22 -1.33 16 15 C 0.09 1.45 6.68 86.78 0.58 2.03 16 16 N -0.61 -14.94 3.07 -788.48 -2.42 -17.36 16 17 C 0.55 19.75 7.66 87.66 0.67 20.42 16 18 O -0.56 -24.96 14.90 -3.04 -0.05 -25.01 16 19 C -0.10 -3.92 5.17 71.24 0.37 -3.56 16 20 S -0.19 -10.55 19.60 -56.49 -1.11 -11.66 16 21 C -0.61 -34.85 9.50 67.95 0.65 -34.21 16 22 H 0.08 4.03 7.80 -2.92 -0.02 4.01 16 23 C -0.02 -1.13 5.49 84.86 0.47 -0.66 16 24 N -0.91 -57.71 13.67 21.65 0.30 -57.42 16 25 Si 1.14 48.67 29.92 68.60 2.05 50.72 16 26 H -0.28 -12.12 7.11 99.48 0.71 -11.41 16 27 H -0.26 -10.25 7.11 99.48 0.71 -9.54 16 28 H -0.26 -10.22 7.11 99.48 0.71 -9.52 16 29 H 0.04 1.27 6.88 -2.39 -0.02 1.25 16 30 H 0.08 1.41 8.14 -2.39 -0.02 1.39 16 31 H 0.07 1.33 8.14 -2.39 -0.02 1.31 16 32 H 0.42 4.36 8.22 -92.71 -0.76 3.60 16 33 H 0.26 0.45 8.06 -2.91 -0.02 0.43 16 34 H 0.11 1.01 8.14 -2.39 -0.02 0.99 16 35 H 0.09 0.99 8.14 -2.39 -0.02 0.98 16 36 H 0.09 1.40 7.48 -2.39 -0.02 1.39 16 37 H 0.09 1.23 8.14 -2.39 -0.02 1.21 16 38 H 0.11 3.85 7.84 -2.39 -0.02 3.83 16 39 H 0.11 3.86 8.14 -2.40 -0.02 3.84 16 40 H 0.26 17.11 7.12 -92.71 -0.66 16.45 16 Total: -1.00 -79.32 362.03 3.15 -76.17 By element: Atomic # 1 Polarization: 12.99 SS G_CDS: 0.45 Total: 13.43 kcal Atomic # 6 Polarization: -10.69 SS G_CDS: 6.00 Total: -4.69 kcal Atomic # 7 Polarization: -89.58 SS G_CDS: -5.78 Total: -95.35 kcal Atomic # 8 Polarization: -30.16 SS G_CDS: 1.53 Total: -28.63 kcal Atomic # 14 Polarization: 48.67 SS G_CDS: 2.05 Total: 50.72 kcal Atomic # 16 Polarization: -10.55 SS G_CDS: -1.11 Total: -11.66 kcal Total: -79.32 3.15 -76.17 kcal The number of atoms in the molecule is 40 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. ZINC001281123404.mol2 40 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 99.927 kcal (2) G-P(sol) polarization free energy of solvation -79.321 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 20.605 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.147 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.174 kcal (6) G-S(sol) free energy of system = (1) + (5) 23.752 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.58 seconds