Wall clock time and date at job start Mon Mar 30 2020 05:19:38 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 1.52995 * 1 3 3 H 1.08998 * 109.57510 * 2 1 4 4 C 1.53099 * 109.68178 * 120.31624 * 2 1 3 5 5 C 1.52628 * 109.87424 * 182.93675 * 4 2 1 6 6 C 1.52580 * 110.69965 * 289.18475 * 5 4 2 7 7 H 1.08999 * 109.39249 * 310.71679 * 6 5 4 8 8 N 1.46901 * 109.38595 * 190.92180 * 6 5 4 9 9 C 1.46902 * 110.99844 * 154.79822 * 8 6 5 10 10 C 1.50702 * 109.47027 * 179.97438 * 9 8 6 11 11 O 1.21283 * 120.00262 * 0.02562 * 10 9 8 12 12 N 1.34777 * 119.99928 * 179.72353 * 10 9 8 13 13 C 1.46499 * 120.00199 * 180.27479 * 12 10 9 14 14 C 1.50694 * 109.47550 * 180.02562 * 13 12 10 15 15 H 1.08008 * 119.99963 * 0.02562 * 14 13 12 16 16 C 1.37878 * 120.00446 * 179.97438 * 14 13 12 17 17 N 1.31515 * 119.99703 * 0.02562 * 16 14 13 18 18 Si 1.86803 * 120.00230 * 180.02562 * 16 14 13 19 19 H 1.48504 * 109.46919 * 60.00155 * 18 16 14 20 20 H 1.48496 * 109.47105 * 180.02562 * 18 16 14 21 21 H 1.48501 * 109.47194 * 300.00219 * 18 16 14 22 22 C 1.53094 * 109.87900 * 70.82365 * 6 5 4 23 23 S 1.81740 * 109.58047 * 239.73967 * 2 1 3 24 24 H 1.08999 * 109.47090 * 180.25927 * 1 2 3 25 25 H 1.08997 * 109.47707 * 300.26067 * 1 2 3 26 26 H 1.08998 * 109.47184 * 60.26357 * 1 2 3 27 27 H 1.09001 * 109.38985 * 303.04736 * 4 2 1 28 28 H 1.08997 * 109.38673 * 62.84828 * 4 2 1 29 29 H 1.09000 * 109.15790 * 168.91602 * 5 4 2 30 30 H 1.09000 * 109.31557 * 49.54796 * 5 4 2 31 31 H 1.00895 * 111.00207 * 278.75165 * 8 6 5 32 32 H 1.09004 * 109.47131 * 60.00016 * 9 8 6 33 33 H 1.08994 * 109.47471 * 299.99766 * 9 8 6 34 34 H 0.97000 * 120.00317 * 0.28382 * 12 10 9 35 35 H 1.08998 * 109.47134 * 300.00670 * 13 12 10 36 36 H 1.09002 * 109.46857 * 59.99862 * 13 12 10 37 37 H 0.97000 * 119.99614 * 179.97438 * 17 16 14 38 38 H 1.08998 * 109.57818 * 56.73315 * 22 6 5 39 39 H 1.09002 * 109.57512 * 176.99259 * 22 6 5 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 1.5300 0.0000 0.0000 3 1 1.8951 1.0270 0.0000 4 6 2.0456 -0.7277 1.2444 5 6 3.5701 -0.6671 1.2865 6 6 4.1752 -1.5523 0.2010 7 1 3.7133 -2.5389 0.2394 8 7 5.6209 -1.6817 0.4271 9 6 6.1369 -2.9241 -0.1631 10 6 7.6197 -3.0214 0.0878 11 8 8.1904 -2.1427 0.6986 12 7 8.3105 -4.0880 -0.3612 13 6 9.7509 -4.1856 -0.1120 14 6 10.2794 -5.4624 -0.7132 15 1 9.6094 -6.1339 -1.2297 16 6 11.6184 -5.7729 -0.6049 17 7 12.4343 -4.9550 0.0235 18 14 12.2736 -7.3553 -1.3508 19 1 12.0230 -7.3534 -2.8146 20 1 13.7335 -7.4542 -1.0981 21 1 11.5848 -8.5164 -0.7322 22 6 3.9298 -0.9293 -1.1757 23 16 2.1390 -0.8629 -1.4790 24 1 -0.3633 -1.0276 0.0047 25 1 -0.3634 0.5178 0.8876 26 1 -0.3633 0.5097 -0.8923 27 1 1.6395 -0.2510 2.1366 28 1 1.7256 -1.7691 1.2131 29 1 3.9149 -1.0091 2.2623 30 1 3.8944 0.3621 1.1325 31 1 6.1161 -0.8787 0.0695 32 1 5.9499 -2.9212 -1.2370 33 1 5.6344 -3.7781 0.2909 34 1 7.8541 -4.7910 -0.8495 35 1 10.2568 -3.3338 -0.5665 36 1 9.9345 -4.1862 0.9624 37 1 13.3762 -5.1737 0.1000 38 1 4.3418 0.0796 -1.1987 39 1 4.4097 -1.5373 -1.9425 RHF calculation, no. of doubly occupied orbitals= 49 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 ZINC000689527990.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 05:19:38 Heat of formation + Delta-G solvation = -79.639121 kcal Electronic energy + Delta-G solvation = -18406.777132 eV Core-core repulsion = 15473.490949 eV Total energy + Delta-G solvation = -2933.286183 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 272.130 amu Computer time = 1.43 seconds Orbital eigenvalues (eV) -40.61131 -38.88735 -36.25888 -35.87360 -34.34897 -32.61938 -29.94912 -29.30102 -27.30099 -25.33099 -24.16873 -22.54464 -21.81575 -21.29592 -19.00482 -17.89614 -17.61486 -17.12428 -16.85185 -16.36837 -15.91368 -15.78974 -15.23743 -14.93215 -14.90145 -14.85515 -14.31057 -14.08507 -13.89762 -13.75520 -13.17691 -12.96196 -12.94073 -12.68800 -12.61337 -12.26322 -12.24293 -12.00301 -11.88052 -11.63568 -11.51482 -10.83122 -10.79488 -10.71693 -9.83853 -9.51512 -8.64783 -8.29490 -6.46279 0.74575 1.42868 1.46924 1.53043 1.55184 1.77347 2.28597 2.49007 3.05261 3.22316 3.56587 3.75322 3.84058 3.92521 3.98768 4.19196 4.22057 4.35598 4.40949 4.49077 4.61836 4.65031 4.75883 4.87053 4.97515 5.04591 5.10502 5.20051 5.23786 5.24208 5.32648 5.48154 5.67417 5.84329 5.90094 6.23428 6.64823 6.92820 7.23238 7.50677 8.82494 Molecular weight = 272.13amu Principal moments of inertia in cm(-1) A = 0.049181 B = 0.002810 C = 0.002728 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 569.186438 B = 9961.649299 C =10261.194756 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.131 4.131 2 C -0.047 4.047 3 H 0.089 0.911 4 C -0.109 4.109 5 C -0.117 4.117 6 C 0.097 3.903 7 H 0.094 0.906 8 N -0.676 5.676 9 C 0.055 3.945 10 C 0.493 3.507 11 O -0.592 6.592 12 N -0.709 5.709 13 C 0.267 3.733 14 C -0.557 4.557 15 H 0.084 0.916 16 C 0.003 3.997 17 N -0.931 5.931 18 Si 0.985 3.015 19 H -0.262 1.262 20 H -0.286 1.286 21 H -0.262 1.262 22 C -0.108 4.108 23 S -0.290 6.290 24 H 0.064 0.936 25 H 0.089 0.911 26 H 0.060 0.940 27 H 0.093 0.907 28 H 0.076 0.924 29 H 0.075 0.925 30 H 0.061 0.939 31 H 0.347 0.653 32 H 0.083 0.917 33 H 0.122 0.878 34 H 0.409 0.591 35 H -0.013 1.013 36 H -0.014 1.014 37 H 0.269 0.731 38 H 0.085 0.915 39 H 0.102 0.898 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -25.212 6.877 -1.621 26.183 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 -0.189 4.189 2 C -0.175 4.175 3 H 0.108 0.892 4 C -0.148 4.148 5 C -0.155 4.155 6 C -0.014 4.014 7 H 0.113 0.887 8 N -0.307 5.307 9 C -0.077 4.077 10 C 0.280 3.720 11 O -0.473 6.473 12 N -0.359 5.359 13 C 0.144 3.856 14 C -0.595 4.595 15 H 0.102 0.898 16 C -0.197 4.197 17 N -0.570 5.570 18 Si 0.808 3.192 19 H -0.186 1.186 20 H -0.211 1.211 21 H -0.186 1.186 22 C -0.258 4.258 23 S -0.064 6.064 24 H 0.083 0.917 25 H 0.107 0.893 26 H 0.079 0.921 27 H 0.111 0.889 28 H 0.095 0.905 29 H 0.094 0.906 30 H 0.080 0.920 31 H 0.166 0.834 32 H 0.101 0.899 33 H 0.140 0.860 34 H 0.244 0.756 35 H 0.005 0.995 36 H 0.004 0.996 37 H 0.078 0.922 38 H 0.103 0.897 39 H 0.120 0.880 Dipole moment (debyes) X Y Z Total from point charges -25.249 6.859 -1.399 26.202 hybrid contribution 1.599 -0.033 -0.413 1.652 sum -23.650 6.827 -1.812 24.682 Atomic orbital electron populations 1.21613 0.90719 1.03251 1.03342 1.23320 1.00168 1.00728 0.93300 0.89232 1.21795 0.94217 1.01690 0.97119 1.21491 0.95087 0.99589 0.99304 1.21862 0.87290 1.00434 0.91813 0.88746 1.60316 1.03494 1.04144 1.62793 1.21815 0.89512 0.95921 1.00416 1.21408 0.90748 0.81439 0.78449 1.90645 1.72479 1.41296 1.42852 1.46184 1.10177 1.23036 1.56551 1.18509 0.76847 0.95996 0.94210 1.21600 0.94830 1.05771 1.37276 0.89771 1.26082 0.97004 1.01295 0.95298 1.70135 1.05158 1.38949 1.42741 0.85207 0.76877 0.78035 0.79099 1.18630 1.21136 1.18629 1.24253 0.94590 1.04951 1.01966 1.87036 1.06994 1.78637 1.33736 0.91726 0.89255 0.92081 0.88852 0.90521 0.90602 0.92000 0.83390 0.89876 0.86028 0.75574 0.99541 0.99627 0.92250 0.89665 0.87980 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 -0.13 -1.33 9.23 71.98 0.66 -0.66 16 2 C -0.05 -0.61 3.11 30.63 0.10 -0.52 16 3 H 0.09 1.16 8.14 -2.39 -0.02 1.14 16 4 C -0.11 -1.35 5.05 30.50 0.15 -1.20 16 5 C -0.12 -1.91 5.21 30.33 0.16 -1.75 16 6 C 0.10 1.78 2.32 44.81 0.10 1.88 16 7 H 0.09 1.69 7.70 -2.39 -0.02 1.67 16 8 N -0.68 -16.74 5.86 -496.13 -2.91 -19.65 16 9 C 0.06 1.41 5.96 85.56 0.51 1.92 16 10 C 0.49 19.26 7.87 87.66 0.69 19.95 16 11 O -0.59 -29.13 16.20 -3.04 -0.05 -29.18 16 12 N -0.71 -29.52 5.55 -466.79 -2.59 -32.11 16 13 C 0.27 14.71 5.43 85.63 0.46 15.18 16 14 C -0.56 -30.28 9.28 25.60 0.24 -30.04 16 15 H 0.08 4.10 7.60 -2.91 -0.02 4.08 16 16 C 0.00 0.16 5.46 84.65 0.46 0.62 16 17 N -0.93 -56.42 13.29 21.45 0.28 -56.14 16 18 Si 0.98 42.25 29.54 68.60 2.03 44.28 16 19 H -0.26 -10.61 7.11 99.48 0.71 -9.90 16 20 H -0.29 -12.20 7.11 99.48 0.71 -11.49 16 21 H -0.26 -10.62 7.11 99.48 0.71 -9.91 16 22 C -0.11 -1.89 5.70 72.01 0.41 -1.47 16 23 S -0.29 -5.19 21.70 -56.49 -1.23 -6.41 16 24 H 0.06 0.69 8.14 -2.39 -0.02 0.67 16 25 H 0.09 0.60 8.14 -2.39 -0.02 0.58 16 26 H 0.06 0.66 8.14 -2.39 -0.02 0.64 16 27 H 0.09 0.88 8.14 -2.39 -0.02 0.86 16 28 H 0.08 0.99 8.05 -2.39 -0.02 0.97 16 29 H 0.08 1.41 8.14 -2.39 -0.02 1.39 16 30 H 0.06 1.04 8.08 -2.39 -0.02 1.02 16 31 H 0.35 9.25 8.18 -89.70 -0.73 8.51 16 32 H 0.08 1.69 7.37 -2.38 -0.02 1.68 16 33 H 0.12 2.59 8.05 -2.39 -0.02 2.57 16 34 H 0.41 13.83 8.32 -92.71 -0.77 13.06 16 35 H -0.01 -0.83 8.14 -2.39 -0.02 -0.85 16 36 H -0.01 -0.89 8.14 -2.39 -0.02 -0.91 16 37 H 0.27 15.22 8.31 -92.71 -0.77 14.45 16 38 H 0.08 1.49 8.14 -2.39 -0.02 1.48 16 39 H 0.10 1.80 7.38 -2.39 -0.02 1.78 16 Total: -1.00 -70.85 330.38 -0.98 -71.82 By element: Atomic # 1 Polarization: 23.95 SS G_CDS: -0.46 Total: 23.49 kcal Atomic # 6 Polarization: -0.05 SS G_CDS: 3.95 Total: 3.90 kcal Atomic # 7 Polarization: -102.68 SS G_CDS: -5.21 Total: -107.89 kcal Atomic # 8 Polarization: -29.13 SS G_CDS: -0.05 Total: -29.18 kcal Atomic # 14 Polarization: 42.25 SS G_CDS: 2.03 Total: 44.28 kcal Atomic # 16 Polarization: -5.19 SS G_CDS: -1.23 Total: -6.41 kcal Total: -70.85 -0.98 -71.82 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. ZINC000689527990.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 -7.815 kcal (2) G-P(sol) polarization free energy of solvation -70.848 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -78.663 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.976 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -71.824 kcal (6) G-S(sol) free energy of system = (1) + (5) -79.639 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.43 seconds