Wall clock time and date at job start Tue Mar 31 2020 20:23:31 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 1.50698 * 1 3 3 S 1.70931 * 125.59255 * 2 1 4 4 C 1.70768 * 91.14202 * 179.97438 * 3 2 1 5 5 C 1.50696 * 124.70913 * 179.97438 * 4 3 2 6 6 H 1.08998 * 109.87841 * 346.02076 * 5 4 3 7 7 C 1.54333 * 109.87890 * 107.19420 * 5 4 3 8 8 C 1.55152 * 102.93859 * 141.60802 * 7 5 4 9 9 C 1.55124 * 101.49070 * 324.33216 * 8 7 5 10 10 N 1.47023 * 109.88251 * 224.99858 * 5 4 3 11 11 C 1.34771 * 125.64666 * 61.61415 * 10 5 4 12 12 O 1.21284 * 120.00162 * 5.00859 * 11 10 5 13 13 C 1.50698 * 120.00251 * 185.01773 * 11 10 5 14 14 H 1.09004 * 109.46889 * 20.45513 * 13 11 10 15 15 C 1.53008 * 109.46867 * 260.45848 * 13 11 10 16 16 C 1.50699 * 109.47469 * 140.45683 * 13 11 10 17 17 H 1.07992 * 120.00055 * 5.34173 * 16 13 11 18 18 C 1.37880 * 119.99817 * 185.34160 * 16 13 11 19 19 N 1.31511 * 120.00383 * 10.20312 * 18 16 13 20 20 Si 1.86796 * 119.99639 * 190.20996 * 18 16 13 21 21 H 1.48501 * 109.47018 * 180.02562 * 20 18 16 22 22 H 1.48500 * 109.46977 * 299.99168 * 20 18 16 23 23 H 1.48500 * 109.47762 * 59.99595 * 20 18 16 24 24 N 1.28625 * 110.57826 * 0.26729 * 4 3 2 25 25 C 1.33610 * 115.77030 * 359.51891 * 24 4 3 26 26 C 1.47108 * 123.15515 * 180.21632 * 25 24 4 27 27 O 1.21555 * 120.00172 * 180.30644 * 26 25 24 28 28 O 1.34803 * 120.00042 * 0.30797 * 26 25 24 29 29 H 1.09005 * 109.47310 * 0.02562 * 1 2 3 30 30 H 1.09001 * 109.47733 * 120.02281 * 1 2 3 31 31 H 1.08999 * 109.47094 * 240.02434 * 1 2 3 32 32 H 1.08994 * 110.72012 * 259.97130 * 7 5 4 33 33 H 1.09002 * 110.71813 * 23.06722 * 7 5 4 34 34 H 1.08997 * 111.00440 * 82.57968 * 8 7 5 35 35 H 1.09001 * 111.00233 * 206.42396 * 8 7 5 36 36 H 1.09000 * 110.50022 * 278.45574 * 9 8 7 37 37 H 1.09001 * 110.34504 * 156.06294 * 9 8 7 38 38 H 1.08990 * 109.47209 * 307.03061 * 15 13 11 39 39 H 1.09000 * 109.46800 * 67.03192 * 15 13 11 40 40 H 1.09006 * 109.46798 * 187.02667 * 15 13 11 41 41 H 0.97004 * 120.00126 * 356.09771 * 19 18 16 42 42 H 0.96701 * 116.99996 * 179.97438 * 28 26 25 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 1.5070 0.0000 0.0000 3 16 2.5018 1.3900 0.0000 4 6 3.9100 0.4239 0.0008 5 6 5.3184 0.9601 0.0006 6 1 5.3109 2.0214 -0.2477 7 6 5.9613 0.7467 1.3873 8 6 7.4245 0.3677 1.0372 9 6 7.2276 -0.4581 -0.2612 10 7 6.1336 0.2236 -0.9765 11 6 5.9138 0.1752 -2.3053 12 8 5.0316 0.8453 -2.7988 13 6 6.7640 -0.7117 -3.1779 14 1 7.2320 -1.4827 -2.5657 15 6 7.8479 0.1285 -3.8565 16 6 5.8998 -1.3602 -4.2284 17 1 4.8590 -1.0860 -4.3161 18 6 6.4381 -2.3037 -5.0777 19 7 7.6402 -2.7851 -4.8486 20 14 5.4597 -2.8978 -6.5539 21 1 6.2547 -3.9048 -7.3018 22 1 4.1906 -3.5144 -6.0909 23 1 5.1559 -1.7472 -7.4422 24 7 3.6016 -0.8248 -0.0046 25 6 2.2942 -1.1003 0.0005 26 6 1.7609 -2.4713 0.0003 27 8 0.5595 -2.6561 -0.0005 28 8 2.6046 -3.5227 0.0009 29 1 -0.3634 1.0277 -0.0005 30 1 -0.3634 -0.5142 -0.8898 31 1 -0.3633 -0.5134 0.8902 32 1 5.9304 1.6658 1.9722 33 1 5.4668 -0.0651 1.9208 34 1 8.0248 1.2581 0.8507 35 1 7.8685 -0.2433 1.8231 36 1 6.9439 -1.4831 -0.0223 37 1 8.1383 -0.4455 -0.8601 38 1 7.3861 0.9736 -4.3668 39 1 8.5467 0.4956 -3.1048 40 1 8.3830 -0.4854 -4.5810 41 1 8.1709 -2.4360 -4.1155 42 1 2.2073 -4.4043 0.0010 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 ZINC001608065856.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 20:23:31 Heat of formation + Delta-G solvation = -114.896936 kcal Electronic energy + Delta-G solvation = -27988.759916 eV Core-core repulsion = 24059.213513 eV Total energy + Delta-G solvation = -3929.546403 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 338.113 amu Computer time = 0.66 seconds Orbital eigenvalues (eV) -41.98086 -41.20339 -40.04933 -38.43621 -37.30529 -36.23050 -34.07586 -32.94830 -31.83043 -31.01212 -28.51776 -27.15706 -25.81303 -25.62574 -24.48494 -23.07587 -22.02954 -21.21354 -20.20820 -19.66665 -18.78900 -18.62993 -18.09921 -17.47817 -17.22358 -17.10779 -16.40209 -15.74080 -15.63351 -15.33235 -15.11301 -14.94058 -14.58484 -14.48779 -14.34718 -14.12847 -13.91007 -13.80249 -13.44792 -13.32471 -13.10815 -12.92442 -12.85419 -12.71892 -12.61491 -12.55932 -12.35120 -12.08548 -11.97965 -11.84329 -11.70824 -10.93234 -10.87015 -10.54560 -10.50357 -10.46542 -10.04162 -9.68422 -8.68690 -6.37256 -0.76027 0.01589 0.36184 0.55292 1.45744 1.52463 1.72338 1.76837 1.89126 1.99895 2.16956 2.50756 2.89266 3.11201 3.49386 3.56628 3.65125 3.77351 3.95643 4.05773 4.16780 4.18799 4.41742 4.50299 4.52525 4.63532 4.66272 4.67583 4.71370 4.80532 4.87169 4.91931 4.98460 5.04503 5.08702 5.29990 5.32210 5.40726 5.43687 5.89118 6.13489 6.33042 6.43654 6.65842 6.85619 7.27330 7.38707 8.71481 Molecular weight = 338.11amu Principal moments of inertia in cm(-1) A = 0.009604 B = 0.005088 C = 0.003984 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2914.675507 B = 5502.111637 C = 7026.708608 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.071 4.071 2 C -0.187 4.187 3 S 0.299 5.701 4 C -0.004 4.004 5 C 0.202 3.798 6 H 0.104 0.896 7 C -0.107 4.107 8 C -0.111 4.111 9 C 0.093 3.907 10 N -0.611 5.611 11 C 0.549 3.451 12 O -0.583 6.583 13 C 0.019 3.981 14 H 0.030 0.970 15 C -0.119 4.119 16 C -0.600 4.600 17 H 0.024 0.976 18 C -0.014 4.014 19 N -0.920 5.920 20 Si 1.105 2.895 21 H -0.270 1.270 22 H -0.284 1.284 23 H -0.275 1.275 24 N -0.437 5.437 25 C -0.029 4.029 26 C 0.566 3.434 27 O -0.522 6.522 28 O -0.500 6.500 29 H 0.101 0.899 30 H 0.079 0.921 31 H 0.095 0.905 32 H 0.126 0.874 33 H 0.075 0.925 34 H 0.098 0.902 35 H 0.113 0.887 36 H 0.054 0.946 37 H 0.078 0.922 38 H 0.034 0.966 39 H 0.058 0.942 40 H 0.048 0.952 41 H 0.265 0.735 42 H 0.431 0.569 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -5.942 8.912 18.319 21.221 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 -0.130 4.130 2 C -0.312 4.312 3 S 0.559 5.441 4 C -0.285 4.285 5 C 0.095 3.905 6 H 0.121 0.879 7 C -0.147 4.147 8 C -0.149 4.149 9 C -0.029 4.029 10 N -0.345 5.345 11 C 0.340 3.660 12 O -0.462 6.462 13 C -0.002 4.002 14 H 0.048 0.952 15 C -0.178 4.178 16 C -0.639 4.639 17 H 0.043 0.957 18 C -0.214 4.214 19 N -0.556 5.556 20 Si 0.927 3.073 21 H -0.194 1.194 22 H -0.210 1.210 23 H -0.200 1.200 24 N -0.151 5.151 25 C -0.162 4.162 26 C 0.409 3.591 27 O -0.413 6.413 28 O -0.313 6.313 29 H 0.120 0.880 30 H 0.097 0.903 31 H 0.113 0.887 32 H 0.144 0.856 33 H 0.094 0.906 34 H 0.117 0.883 35 H 0.131 0.869 36 H 0.072 0.928 37 H 0.096 0.904 38 H 0.053 0.947 39 H 0.077 0.923 40 H 0.067 0.933 41 H 0.075 0.925 42 H 0.293 0.707 Dipole moment (debyes) X Y Z Total from point charges -6.247 9.186 16.693 20.051 hybrid contribution -0.675 -1.040 0.725 1.437 sum -6.922 8.145 17.418 20.436 Atomic orbital electron populations 1.20470 0.83439 1.04667 1.04426 1.26102 1.05010 0.96727 1.03403 1.82300 0.93626 1.06253 1.61935 1.27716 1.03241 0.92175 1.05328 1.20507 0.82182 0.95665 0.92169 0.87863 1.22748 0.95489 1.04781 0.91639 1.22829 0.96001 1.00894 0.95171 1.22576 0.89188 0.96582 0.94595 1.48657 1.30063 1.50870 1.04903 1.20941 0.83407 0.80567 0.81068 1.90490 1.35408 1.45935 1.74378 1.18865 0.94265 0.93085 0.93992 0.95201 1.21595 0.97402 0.98646 1.00119 1.21873 0.96729 1.26496 1.18761 0.95748 1.26936 0.98091 0.93673 1.02737 1.70911 1.11790 1.40537 1.32379 0.83086 0.74230 0.76631 0.73321 1.19424 1.20967 1.20041 1.66806 1.16048 1.19194 1.13096 1.19338 0.88741 0.92958 1.15157 1.19568 0.83393 0.84651 0.71534 1.90859 1.15981 1.86433 1.48015 1.84710 1.42816 1.19118 1.84632 0.88016 0.90285 0.88651 0.85564 0.90600 0.88340 0.86895 0.92798 0.90408 0.94691 0.92300 0.93251 0.92498 0.70739 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 -0.07 -1.53 8.81 71.24 0.63 -0.90 16 2 C -0.19 -5.29 6.40 25.01 0.16 -5.13 16 3 S 0.30 7.41 22.88 -56.49 -1.29 6.11 16 4 C 0.00 -0.11 5.41 88.58 0.48 0.37 16 5 C 0.20 5.73 3.32 44.60 0.15 5.88 16 6 H 0.10 2.65 8.14 -2.39 -0.02 2.63 16 7 C -0.11 -1.94 6.46 31.78 0.21 -1.73 16 8 C -0.11 -1.89 7.10 32.06 0.23 -1.66 16 9 C 0.09 2.69 6.16 86.93 0.54 3.23 16 10 N -0.61 -22.43 3.02 -791.76 -2.39 -24.83 16 11 C 0.55 26.51 6.52 87.66 0.57 27.08 16 12 O -0.58 -31.59 16.20 -3.04 -0.05 -31.64 16 13 C 0.02 1.02 1.79 -12.28 -0.02 0.99 16 14 H 0.03 1.60 6.25 -2.38 -0.01 1.58 16 15 C -0.12 -5.63 8.88 71.98 0.64 -5.00 16 16 C -0.60 -36.61 8.27 25.60 0.21 -36.40 16 17 H 0.02 1.61 7.33 -2.91 -0.02 1.58 16 18 C -0.01 -0.85 5.12 84.66 0.43 -0.41 16 19 N -0.92 -55.12 13.04 21.45 0.28 -54.84 16 20 Si 1.10 53.46 29.92 68.60 2.05 55.51 16 21 H -0.27 -12.45 7.11 99.48 0.71 -11.74 16 22 H -0.28 -13.37 7.11 99.48 0.71 -12.67 16 23 H -0.27 -12.70 7.11 99.48 0.71 -11.99 16 24 N -0.44 -16.41 10.55 -180.90 -1.91 -18.32 16 25 C -0.03 -1.00 6.71 40.52 0.27 -0.73 16 26 C 0.57 19.22 8.31 70.15 0.58 19.80 16 27 O -0.52 -17.49 15.49 19.66 0.30 -17.19 16 28 O -0.50 -15.62 13.37 -57.15 -0.76 -16.39 16 29 H 0.10 1.50 8.14 -2.38 -0.02 1.48 16 30 H 0.08 1.91 7.81 -2.39 -0.02 1.89 16 31 H 0.10 1.92 7.81 -2.39 -0.02 1.90 16 32 H 0.13 1.29 8.14 -2.39 -0.02 1.27 16 33 H 0.08 1.52 7.84 -2.39 -0.02 1.50 16 34 H 0.10 1.34 8.14 -2.39 -0.02 1.32 16 35 H 0.11 1.38 8.14 -2.39 -0.02 1.36 16 36 H 0.05 1.73 8.14 -2.39 -0.02 1.71 16 37 H 0.08 2.26 7.58 -2.39 -0.02 2.24 16 38 H 0.03 1.67 8.13 -2.39 -0.02 1.65 16 39 H 0.06 2.28 8.14 -2.39 -0.02 2.26 16 40 H 0.05 2.48 6.41 -2.38 -0.02 2.47 16 41 H 0.26 15.60 6.12 -92.71 -0.57 15.03 16 42 H 0.43 8.37 9.11 -74.06 -0.67 7.70 16 Total: -1.00 -84.91 366.46 1.90 -83.02 By element: Atomic # 1 Polarization: 12.59 SS G_CDS: 0.60 Total: 13.18 kcal Atomic # 6 Polarization: 0.30 SS G_CDS: 5.07 Total: 5.38 kcal Atomic # 7 Polarization: -93.96 SS G_CDS: -4.02 Total: -97.99 kcal Atomic # 8 Polarization: -64.71 SS G_CDS: -0.51 Total: -65.21 kcal Atomic # 14 Polarization: 53.46 SS G_CDS: 2.05 Total: 55.51 kcal Atomic # 16 Polarization: 7.41 SS G_CDS: -1.29 Total: 6.11 kcal Total: -84.91 1.90 -83.02 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. ZINC001608065856.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 -31.880 kcal (2) G-P(sol) polarization free energy of solvation -84.914 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -116.794 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.897 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -83.017 kcal (6) G-S(sol) free energy of system = (1) + (5) -114.897 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.66 seconds