Wall clock time and date at job start Tue Mar 31 2020 05:55:35 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 1.52997 * 1 3 3 C 1.53004 * 109.46842 * 2 1 4 4 C 1.52997 * 109.47299 * 303.10035 * 3 2 1 5 5 C 1.52992 * 109.47321 * 183.09520 * 3 2 1 6 6 N 1.46500 * 109.46892 * 63.09426 * 3 2 1 7 7 C 1.46503 * 120.00232 * 244.02755 * 6 3 2 8 8 C 1.50691 * 109.47174 * 262.76687 * 7 6 3 9 9 H 1.08002 * 120.00447 * 359.97438 * 8 7 6 10 10 C 1.37879 * 119.99891 * 180.02562 * 8 7 6 11 11 N 1.31513 * 120.00142 * 359.97438 * 10 8 7 12 12 Si 1.86808 * 119.99972 * 179.97438 * 10 8 7 13 13 H 1.48503 * 109.47051 * 89.99677 * 12 10 8 14 14 H 1.48494 * 109.47159 * 209.99593 * 12 10 8 15 15 H 1.48496 * 109.47002 * 329.99634 * 12 10 8 16 16 C 1.34786 * 119.99786 * 64.02938 * 6 3 2 17 17 O 1.21692 * 119.99811 * 1.86059 * 16 6 3 18 18 C 1.46581 * 119.99903 * 181.85671 * 16 6 3 19 19 C 1.36650 * 125.45877 * 171.72548 * 18 16 6 20 20 C 1.37472 * 113.29801 * 179.97438 * 19 18 16 21 21 C 1.33819 * 115.09986 * 0.02562 * 20 19 18 22 22 S 1.70614 * 110.95573 * 359.97438 * 21 20 19 23 23 H 1.09011 * 109.46656 * 180.02562 * 1 2 3 24 24 H 1.08997 * 109.47029 * 299.99168 * 1 2 3 25 25 H 1.08998 * 109.47693 * 60.00292 * 1 2 3 26 26 H 1.09004 * 109.47253 * 240.00545 * 2 1 3 27 27 H 1.08998 * 109.47693 * 119.99708 * 2 1 3 28 28 H 1.08997 * 109.47533 * 180.02562 * 4 3 2 29 29 H 1.09006 * 109.46680 * 299.99265 * 4 3 2 30 30 H 1.09000 * 109.47440 * 59.99361 * 4 3 2 31 31 H 1.09008 * 109.47091 * 305.44016 * 5 3 2 32 32 H 1.09000 * 109.47532 * 65.43914 * 5 3 2 33 33 H 1.09006 * 109.47289 * 185.44088 * 5 3 2 34 34 H 1.08992 * 109.46768 * 22.76849 * 7 6 3 35 35 H 1.09005 * 109.46743 * 142.76735 * 7 6 3 36 36 H 0.96998 * 120.00261 * 180.02562 * 11 10 8 37 37 H 1.07999 * 123.34590 * 0.25799 * 19 18 16 38 38 H 1.07994 * 122.44895 * 180.02562 * 20 19 18 39 39 H 1.08004 * 124.52034 * 180.02562 * 21 20 19 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 6 2.0399 1.4426 0.0000 4 6 1.4672 2.1860 -1.2084 5 6 3.5679 1.4434 -0.0779 6 7 1.6133 2.1112 1.2317 7 6 0.6947 3.2506 1.1664 8 6 1.4816 4.5344 1.2249 9 1 2.5583 4.5047 1.3035 10 6 0.8269 5.7469 1.1793 11 7 -0.4843 5.7832 1.0842 12 14 1.8024 7.3384 1.2527 13 1 2.1623 7.7623 -0.1243 14 1 0.9798 8.3939 1.8964 15 1 3.0404 7.1241 2.0441 16 6 2.0661 1.6782 2.4251 17 8 2.8556 0.7536 2.4773 18 6 1.6077 2.3211 3.6601 19 6 1.8640 1.8777 4.9270 20 6 1.3130 2.6733 5.9033 21 6 0.6283 3.7316 5.4539 22 16 0.6401 3.7866 3.7487 23 1 -0.3633 -1.0278 0.0005 24 1 -0.3633 0.5137 0.8900 25 1 -0.3634 0.5138 -0.8900 26 1 1.8933 -0.5138 -0.8901 27 1 1.8934 -0.5138 0.8900 28 1 1.8308 3.2135 -1.2087 29 1 1.7846 1.6885 -2.1248 30 1 0.3786 2.1854 -1.1529 31 1 3.9731 0.8327 0.7290 32 1 3.8830 1.0333 -1.0374 33 1 3.9361 2.4647 0.0193 34 1 0.1328 3.2111 0.2333 35 1 0.0039 3.2090 2.0086 36 1 -0.9449 6.6362 1.0518 37 1 2.4457 0.9931 5.1400 38 1 1.4245 2.4598 6.9561 39 1 0.1349 4.4549 6.0863 RHF calculation, no. of doubly occupied orbitals= 50 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 ZINC000187522966.mol2 39 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 05:55:35 Heat of formation + Delta-G solvation = -15.126001 kcal Electronic energy + Delta-G solvation = -21337.822358 eV Core-core repulsion = 18371.844924 eV Total energy + Delta-G solvation = -2965.977435 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 281.119 amu Computer time = 0.43 seconds Orbital eigenvalues (eV) -41.29719 -38.62590 -37.39889 -35.69791 -33.86251 -31.43432 -30.10257 -29.54610 -27.94129 -25.76422 -24.88446 -24.08155 -22.66026 -19.92340 -19.74931 -18.71537 -18.26603 -17.14602 -16.62679 -16.36870 -16.06132 -15.87828 -15.46788 -14.74517 -14.42432 -14.26863 -14.11278 -13.81647 -13.59414 -13.34889 -13.31145 -12.99877 -12.84629 -12.78802 -12.76677 -12.60189 -12.36506 -12.16842 -12.00024 -11.74415 -11.59024 -11.45828 -10.71358 -10.63560 -10.40541 -9.68916 -9.31697 -9.09444 -8.18066 -6.23800 -0.13945 1.01284 1.39332 1.46198 1.52265 1.54568 1.66787 2.27271 2.42502 2.48696 3.13464 3.74435 4.03097 4.11387 4.21425 4.31714 4.42523 4.62648 4.63905 4.69313 4.74248 4.80590 4.83362 4.95638 4.97771 5.06352 5.09129 5.19289 5.24646 5.29122 5.37058 5.46653 5.48133 5.58487 5.67975 5.71391 5.97553 6.02659 6.57057 6.83211 7.32835 7.43270 8.85221 Molecular weight = 281.12amu Principal moments of inertia in cm(-1) A = 0.013131 B = 0.010208 C = 0.006872 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2131.882751 B = 2742.333486 C = 4073.623132 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.145 4.145 2 C -0.125 4.125 3 C 0.169 3.831 4 C -0.143 4.143 5 C -0.153 4.153 6 N -0.583 5.583 7 C 0.230 3.770 8 C -0.531 4.531 9 H 0.047 0.953 10 C 0.051 3.949 11 N -0.896 5.896 12 Si 0.928 3.072 13 H -0.275 1.275 14 H -0.276 1.276 15 H -0.276 1.276 16 C 0.583 3.417 17 O -0.582 6.582 18 C -0.317 4.317 19 C -0.084 4.084 20 C -0.164 4.164 21 C -0.324 4.324 22 S 0.353 5.647 23 H 0.065 0.935 24 H 0.029 0.971 25 H 0.067 0.933 26 H 0.090 0.910 27 H 0.053 0.947 28 H 0.053 0.947 29 H 0.087 0.913 30 H 0.063 0.937 31 H 0.059 0.941 32 H 0.083 0.917 33 H 0.037 0.963 34 H 0.056 0.944 35 H 0.034 0.966 36 H 0.271 0.729 37 H 0.143 0.857 38 H 0.153 0.847 39 H 0.173 0.827 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 0.001 -5.023 0.264 5.029 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 -0.202 4.202 2 C -0.164 4.164 3 C 0.085 3.915 4 C -0.200 4.200 5 C -0.211 4.211 6 N -0.313 5.313 7 C 0.108 3.892 8 C -0.573 4.573 9 H 0.065 0.935 10 C -0.153 4.153 11 N -0.533 5.533 12 Si 0.754 3.246 13 H -0.201 1.201 14 H -0.202 1.202 15 H -0.201 1.201 16 C 0.372 3.628 17 O -0.466 6.466 18 C -0.438 4.438 19 C -0.119 4.119 20 C -0.195 4.195 21 C -0.462 4.462 22 S 0.628 5.372 23 H 0.084 0.916 24 H 0.048 0.952 25 H 0.085 0.915 26 H 0.109 0.891 27 H 0.072 0.928 28 H 0.072 0.928 29 H 0.106 0.894 30 H 0.081 0.919 31 H 0.078 0.922 32 H 0.102 0.898 33 H 0.056 0.944 34 H 0.073 0.927 35 H 0.051 0.949 36 H 0.081 0.919 37 H 0.161 0.839 38 H 0.171 0.829 39 H 0.190 0.810 Dipole moment (debyes) X Y Z Total from point charges -0.440 -4.332 -0.770 4.422 hybrid contribution 1.068 0.256 1.411 1.788 sum 0.628 -4.076 0.641 4.173 Atomic orbital electron populations 1.21745 0.95334 1.01689 1.01413 1.21856 0.96560 0.95198 1.02754 1.20542 0.94511 0.92506 0.83932 1.22085 1.01242 1.00463 0.96226 1.22145 0.94847 1.01269 1.02861 1.48189 1.46035 1.32051 1.04992 1.19571 0.88878 0.82658 0.98127 1.21404 0.93378 0.91072 1.51411 0.93457 1.25244 0.95385 1.00617 0.94014 1.69944 1.07580 1.27345 1.48477 0.86002 0.79298 0.80773 0.78544 1.20053 1.20153 1.20137 1.17194 0.80396 0.82098 0.83066 1.90602 1.36834 1.31631 1.87576 1.24940 1.15132 1.05885 0.97867 1.20724 1.00085 1.00854 0.90249 1.19962 1.02459 0.96002 1.01037 1.26876 1.07012 1.04108 1.08157 1.86036 1.41212 1.17056 0.92891 0.91608 0.95200 0.91458 0.89139 0.92803 0.92792 0.89413 0.91864 0.92233 0.89834 0.94416 0.92660 0.94910 0.91935 0.83946 0.82909 0.80971 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 -0.14 -4.27 9.35 71.98 0.67 -3.60 16 2 C -0.13 -3.95 4.89 30.59 0.15 -3.81 16 3 C 0.17 6.00 0.73 3.60 0.00 6.01 16 4 C -0.14 -4.62 6.79 71.98 0.49 -4.13 16 5 C -0.15 -5.38 8.22 71.98 0.59 -4.78 16 6 N -0.58 -24.44 1.80 -783.86 -1.41 -25.85 16 7 C 0.23 10.32 4.10 85.63 0.35 10.68 16 8 C -0.53 -25.55 6.63 25.60 0.17 -25.38 16 9 H 0.05 2.43 7.81 -2.91 -0.02 2.41 16 10 C 0.05 2.45 5.03 84.66 0.43 2.87 16 11 N -0.90 -43.94 13.29 21.45 0.28 -43.66 16 12 Si 0.93 39.29 29.54 68.60 2.03 41.32 16 13 H -0.27 -11.51 7.11 99.48 0.71 -10.80 16 14 H -0.28 -11.40 7.11 99.48 0.71 -10.69 16 15 H -0.28 -11.95 7.11 99.48 0.71 -11.24 16 16 C 0.58 26.06 6.97 86.42 0.60 26.66 16 17 O -0.58 -27.16 13.13 -4.32 -0.06 -27.22 16 18 C -0.32 -13.53 6.23 24.08 0.15 -13.38 16 19 C -0.08 -3.16 10.02 21.72 0.22 -2.94 16 20 C -0.16 -5.41 10.15 21.08 0.21 -5.20 16 21 C -0.32 -11.09 10.92 66.81 0.73 -10.36 16 22 S 0.35 14.50 15.89 -56.49 -0.90 13.60 16 23 H 0.06 1.66 8.14 -2.38 -0.02 1.64 16 24 H 0.03 1.02 7.69 -2.39 -0.02 1.00 16 25 H 0.07 1.82 6.37 -2.39 -0.02 1.80 16 26 H 0.09 2.32 8.14 -2.38 -0.02 2.30 16 27 H 0.05 1.96 6.46 -2.39 -0.02 1.95 16 28 H 0.05 1.99 7.56 -2.39 -0.02 1.97 16 29 H 0.09 2.22 8.14 -2.38 -0.02 2.20 16 30 H 0.06 2.07 4.99 -2.39 -0.01 2.06 16 31 H 0.06 2.32 6.03 -2.38 -0.01 2.30 16 32 H 0.08 2.33 8.14 -2.39 -0.02 2.31 16 33 H 0.04 1.43 8.14 -2.38 -0.02 1.41 16 34 H 0.06 2.53 5.50 -2.39 -0.01 2.52 16 35 H 0.03 1.58 4.48 -21.23 -0.10 1.48 16 36 H 0.27 12.72 8.31 -92.71 -0.77 11.95 16 37 H 0.14 5.05 8.06 -2.91 -0.02 5.03 16 38 H 0.15 3.97 8.06 -2.91 -0.02 3.95 16 39 H 0.17 4.91 8.06 -2.91 -0.02 4.89 16 Total: -1.00 -54.39 315.09 5.67 -48.71 By element: Atomic # 1 Polarization: 19.48 SS G_CDS: 0.96 Total: 20.44 kcal Atomic # 6 Polarization: -32.12 SS G_CDS: 4.77 Total: -27.35 kcal Atomic # 7 Polarization: -68.38 SS G_CDS: -1.12 Total: -69.50 kcal Atomic # 8 Polarization: -27.16 SS G_CDS: -0.06 Total: -27.22 kcal Atomic # 14 Polarization: 39.29 SS G_CDS: 2.03 Total: 41.32 kcal Atomic # 16 Polarization: 14.50 SS G_CDS: -0.90 Total: 13.60 kcal Total: -54.39 5.67 -48.71 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. ZINC000187522966.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 33.588 kcal (2) G-P(sol) polarization free energy of solvation -54.387 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -20.799 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 5.673 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -48.714 kcal (6) G-S(sol) free energy of system = (1) + (5) -15.126 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.43 seconds