Wall clock time and date at job start Wed Apr 1 2020 04:08:10 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 1.31416 * 1 3 3 Si 1.86798 * 120.00394 * 2 1 4 4 H 1.48506 * 109.46995 * 269.99737 * 3 2 1 5 5 H 1.48499 * 109.46893 * 29.99632 * 3 2 1 6 6 H 1.48500 * 109.46998 * 149.99886 * 3 2 1 7 7 C 1.38954 * 119.99629 * 179.97438 * 2 1 3 8 8 H 1.08002 * 120.00243 * 180.02562 * 7 2 1 9 9 N 1.37101 * 119.99792 * 0.02562 * 7 2 1 10 10 C 1.34783 * 119.99468 * 179.97438 * 9 7 2 11 11 O 1.21286 * 120.00233 * 359.97438 * 10 9 7 12 12 C 1.50697 * 119.99410 * 180.02562 * 10 9 7 13 13 N 1.46903 * 109.46882 * 179.97438 * 12 10 9 14 14 C 1.46963 * 110.99595 * 66.17766 * 13 12 10 15 15 C 1.53056 * 109.35944 * 183.16796 * 14 13 12 16 16 N 1.46956 * 109.38342 * 301.62902 * 15 14 13 17 17 C 1.38326 * 111.00090 * 183.17636 * 16 15 14 18 18 N 1.32474 * 120.53050 * 359.72856 * 17 16 15 19 19 C 1.32074 * 121.18857 * 179.71927 * 18 17 16 20 20 N 1.31289 * 122.18424 * 0.58829 * 19 18 17 21 21 C 1.33899 * 121.03753 * 359.69976 * 20 19 18 22 22 S 1.75747 * 131.28280 * 180.02562 * 21 20 19 23 23 C 1.75364 * 92.18603 * 179.97438 * 22 21 20 24 24 C 1.31882 * 111.38788 * 359.97438 * 23 22 21 25 25 C 1.39759 * 119.10250 * 359.97438 * 21 20 19 26 26 C 1.46962 * 110.87987 * 59.31148 * 16 15 14 27 27 C 1.46956 * 111.00102 * 189.99751 * 13 12 10 28 28 H 0.97003 * 119.98921 * 0.02562 * 1 2 3 29 29 H 0.96998 * 120.00030 * 359.97438 * 9 7 2 30 30 H 1.09001 * 109.47655 * 60.00069 * 12 10 9 31 31 H 1.08997 * 109.47272 * 299.99759 * 12 10 9 32 32 H 1.08992 * 109.47287 * 63.21185 * 14 13 12 33 33 H 1.08994 * 109.50466 * 303.13858 * 14 13 12 34 34 H 1.09002 * 109.48813 * 181.65179 * 15 14 13 35 35 H 1.09002 * 109.48870 * 61.61068 * 15 14 13 36 36 H 1.08005 * 118.91200 * 180.28401 * 19 18 17 37 37 H 1.07997 * 124.30163 * 180.02562 * 23 22 21 38 38 H 1.08002 * 122.58987 * 180.02562 * 24 23 22 39 39 H 1.09001 * 109.48625 * 60.64585 * 26 16 15 40 40 H 1.09003 * 109.48941 * 180.69193 * 26 16 15 41 41 H 1.09002 * 109.48806 * 56.84348 * 27 13 12 42 42 H 1.09003 * 109.49203 * 296.77991 * 27 13 12 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 1.3142 0.0000 0.0000 3 14 2.2483 1.6177 0.0000 4 1 2.4958 2.0463 -1.4001 5 1 1.4457 2.6526 0.7000 6 1 3.5458 1.4400 0.7001 7 6 2.0089 -1.2034 0.0005 8 1 3.0889 -1.2035 0.0010 9 7 1.3232 -2.3907 0.0005 10 6 1.9971 -3.5579 0.0005 11 8 3.2100 -3.5580 0.0001 12 6 1.2435 -4.8629 0.0000 13 7 2.1981 -5.9796 -0.0005 14 6 2.9614 -6.0203 1.2546 15 6 3.9965 -7.1455 1.1826 16 7 3.3118 -8.4236 0.9439 17 6 4.2106 -9.4751 0.9433 18 7 5.5027 -9.2559 1.1361 19 6 6.3715 -10.2506 1.1437 20 7 6.0086 -11.4976 0.9512 21 6 4.7256 -11.8188 0.7423 22 16 3.9498 -13.3703 0.4600 23 6 2.3649 -12.6305 0.3334 24 6 2.4302 -11.3231 0.4932 25 6 3.7641 -10.8045 0.7311 26 6 2.5487 -8.3825 -0.3114 27 6 1.5133 -7.2577 -0.2393 28 1 -0.4849 0.8402 -0.0004 29 1 0.3533 -2.3906 0.0005 30 1 0.6172 -4.9205 -0.8903 31 1 0.6165 -4.9208 0.8897 32 1 2.2823 -6.2037 2.0871 33 1 3.4698 -5.0676 1.4024 34 1 4.5442 -7.1966 2.1237 35 1 4.6924 -6.9478 0.3672 36 1 7.4159 -10.0305 1.3088 37 1 1.4514 -13.1764 0.1489 38 1 1.5581 -10.6875 0.4504 39 1 3.2278 -8.1988 -1.1440 40 1 2.0410 -9.3356 -0.4598 41 1 0.9656 -7.2066 -1.1804 42 1 0.8177 -7.4556 0.5763 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 ZINC000108851864.mol2 42 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 04:08:10 Heat of formation + Delta-G solvation = 45.204237 kcal Electronic energy + Delta-G solvation = -27402.677403 eV Core-core repulsion = 23509.170259 eV Total energy + Delta-G solvation = -3893.507144 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 347.116 amu Computer time = 0.76 seconds Orbital eigenvalues (eV) -42.44731 -40.69719 -39.58310 -37.24002 -36.91217 -35.82032 -33.74224 -33.24624 -32.12030 -31.21586 -29.60288 -27.26963 -26.35865 -25.54907 -24.29053 -24.17047 -22.29140 -21.17113 -20.96808 -19.87341 -19.74138 -18.96287 -17.79217 -17.18059 -16.82976 -16.62171 -16.61597 -16.36564 -16.24118 -15.79076 -15.67635 -15.55110 -15.26456 -15.05558 -14.89543 -14.76627 -13.93191 -13.84465 -13.50815 -13.30919 -13.23872 -12.98352 -12.74048 -12.41085 -12.40343 -12.29108 -12.26538 -12.15451 -12.11579 -11.89558 -11.84944 -11.44008 -10.56637 -10.39863 -10.25440 -9.98101 -9.70932 -9.24395 -9.08594 -8.45219 -5.93112 -0.62928 -0.21712 0.09641 0.85580 1.16363 1.38237 1.42115 1.54366 2.07709 2.13412 2.28940 2.59495 2.71492 3.08663 3.22008 3.26718 3.37690 3.45812 3.63828 3.77207 3.95772 4.04769 4.16821 4.21703 4.29257 4.34062 4.45917 4.50768 4.57573 4.61346 4.73793 4.81438 4.89010 4.94532 4.95725 5.08440 5.09915 5.28714 5.42665 5.71772 5.86474 5.89532 6.05032 6.16655 6.62943 6.96770 7.15343 7.59283 8.15398 8.72102 Molecular weight = 347.12amu Principal moments of inertia in cm(-1) A = 0.030047 B = 0.002038 C = 0.001928 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 931.641676 B =13735.376210 C =14516.369573 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.920 5.920 2 C -0.014 4.014 3 Si 0.990 3.010 4 H -0.272 1.272 5 H -0.271 1.271 6 H -0.274 1.274 7 C -0.329 4.329 8 H 0.078 0.922 9 N -0.575 5.575 10 C 0.441 3.559 11 O -0.615 6.615 12 C 0.060 3.940 13 N -0.538 5.538 14 C 0.060 3.940 15 C 0.087 3.913 16 N -0.467 5.467 17 C 0.400 3.600 18 N -0.583 5.583 19 C 0.330 3.670 20 N -0.532 5.532 21 C 0.070 3.930 22 S 0.177 5.823 23 C -0.182 4.182 24 C -0.108 4.108 25 C -0.202 4.202 26 C 0.061 3.939 27 C 0.057 3.943 28 H 0.277 0.723 29 H 0.396 0.604 30 H 0.117 0.883 31 H 0.071 0.929 32 H 0.042 0.958 33 H 0.074 0.926 34 H 0.086 0.914 35 H 0.044 0.956 36 H 0.229 0.771 37 H 0.216 0.784 38 H 0.176 0.824 39 H 0.044 0.956 40 H 0.125 0.875 41 H 0.112 0.888 42 H 0.061 0.939 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -0.595 -27.308 0.563 27.320 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 -0.561 5.561 2 C -0.213 4.213 3 Si 0.814 3.186 4 H -0.197 1.197 5 H -0.196 1.196 6 H -0.199 1.199 7 C -0.459 4.459 8 H 0.096 0.904 9 N -0.212 5.212 10 C 0.228 3.772 11 O -0.501 6.501 12 C -0.070 4.070 13 N -0.264 5.264 14 C -0.069 4.069 15 C -0.040 4.040 16 N -0.184 5.184 17 C 0.152 3.848 18 N -0.305 5.305 19 C 0.038 3.962 20 N -0.251 5.251 21 C -0.180 4.180 22 S 0.435 5.565 23 C -0.316 4.316 24 C -0.137 4.137 25 C -0.218 4.218 26 C -0.064 4.064 27 C -0.071 4.071 28 H 0.086 0.914 29 H 0.230 0.770 30 H 0.135 0.865 31 H 0.088 0.912 32 H 0.060 0.940 33 H 0.092 0.908 34 H 0.105 0.895 35 H 0.062 0.938 36 H 0.245 0.755 37 H 0.233 0.767 38 H 0.193 0.807 39 H 0.063 0.937 40 H 0.143 0.857 41 H 0.130 0.870 42 H 0.079 0.921 Dipole moment (debyes) X Y Z Total from point charges 1.430 -28.451 0.574 28.492 hybrid contribution -1.048 2.573 0.324 2.797 sum 0.382 -25.878 0.898 25.896 Atomic orbital electron populations 1.69671 1.06719 1.29177 1.50553 1.25997 0.96543 1.02290 0.96491 0.84966 0.77888 0.77134 0.78590 1.19731 1.19593 1.19908 1.19622 0.92610 0.84026 1.49648 0.90447 1.41934 1.09322 1.04667 1.65317 1.20820 0.88314 0.85987 0.82080 1.90473 1.15785 1.87755 1.56093 1.21713 0.93388 0.88039 1.03899 1.61705 1.26147 1.03000 1.35530 1.22204 0.95923 0.98715 0.90017 1.21885 0.94774 0.85131 1.02171 1.58958 1.22539 1.03153 1.33750 1.20219 0.87913 0.89883 0.86813 1.68338 1.01929 1.38000 1.22217 1.25308 1.00669 0.81713 0.88534 1.68108 1.16051 1.22627 1.18295 1.24358 0.93243 1.00306 1.00082 1.84243 0.97669 1.01380 1.73158 1.25708 1.01952 0.97579 1.06362 1.20910 0.94903 0.95740 1.02135 1.20454 0.96632 0.93312 1.11442 1.22653 0.95799 1.01511 0.86413 1.22350 0.94814 0.86356 1.03571 0.91375 0.76974 0.86488 0.91151 0.93973 0.90757 0.89547 0.93768 0.75512 0.76692 0.80732 0.93730 0.85744 0.87018 0.92100 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 -0.92 -49.22 13.05 21.66 0.28 -48.94 16 2 C -0.01 -0.72 5.50 84.93 0.47 -0.26 16 3 Si 0.99 42.94 29.55 68.60 2.03 44.96 16 4 H -0.27 -11.47 7.11 99.48 0.71 -10.76 16 5 H -0.27 -11.13 7.11 99.48 0.71 -10.42 16 6 H -0.27 -11.99 7.11 99.48 0.71 -11.28 16 7 C -0.33 -18.55 9.68 84.04 0.81 -17.74 16 8 H 0.08 4.67 7.16 -2.91 -0.02 4.65 16 9 N -0.57 -28.96 5.29 -306.98 -1.62 -30.58 16 10 C 0.44 20.43 7.48 87.65 0.66 21.09 16 11 O -0.62 -33.41 13.92 -3.05 -0.04 -33.45 16 12 C 0.06 1.96 5.45 85.56 0.47 2.43 16 13 N -0.54 -16.50 4.44 -900.27 -4.00 -20.50 16 14 C 0.06 1.93 5.26 86.31 0.45 2.39 16 15 C 0.09 2.58 4.80 86.31 0.41 2.99 16 16 N -0.47 -11.41 4.71 -699.13 -3.30 -14.70 16 17 C 0.40 10.12 6.45 133.95 0.86 10.99 16 18 N -0.58 -15.60 8.82 -196.43 -1.73 -17.34 16 19 C 0.33 7.63 12.26 180.95 2.22 9.85 16 20 N -0.53 -12.99 10.47 -196.05 -2.05 -15.04 16 21 C 0.07 1.56 7.69 84.75 0.65 2.21 16 22 S 0.18 2.55 23.23 -56.49 -1.31 1.24 16 23 C -0.18 -1.76 11.02 66.99 0.74 -1.02 16 24 C -0.11 -1.47 8.97 23.20 0.21 -1.26 16 25 C -0.20 -4.31 5.75 -20.27 -0.12 -4.43 16 26 C 0.06 1.23 5.32 86.31 0.46 1.69 16 27 C 0.06 1.16 5.61 86.31 0.48 1.64 16 28 H 0.28 13.89 8.31 -92.71 -0.77 13.12 16 29 H 0.40 18.86 7.90 -92.71 -0.73 18.13 16 30 H 0.12 3.20 8.03 -2.39 -0.02 3.18 16 31 H 0.07 2.03 8.12 -2.39 -0.02 2.01 16 32 H 0.04 1.26 8.14 -2.39 -0.02 1.24 16 33 H 0.07 3.04 5.85 -2.39 -0.01 3.02 16 34 H 0.09 2.56 7.85 -2.39 -0.02 2.54 16 35 H 0.04 1.50 8.06 -2.39 -0.02 1.48 16 36 H 0.23 3.58 8.06 -2.91 -0.02 3.55 16 37 H 0.22 0.37 8.06 -2.91 -0.02 0.34 16 38 H 0.18 1.62 6.45 -2.91 -0.02 1.60 16 39 H 0.04 1.06 8.14 -2.39 -0.02 1.04 16 40 H 0.12 1.70 4.61 -2.39 -0.01 1.69 16 41 H 0.11 1.80 8.07 -2.39 -0.02 1.78 16 42 H 0.06 1.09 8.14 -2.39 -0.02 1.07 16 Total: -1.00 -73.17 356.98 -2.62 -75.79 By element: Atomic # 1 Polarization: 27.63 SS G_CDS: 0.35 Total: 27.98 kcal Atomic # 6 Polarization: 21.79 SS G_CDS: 8.78 Total: 30.57 kcal Atomic # 7 Polarization: -134.67 SS G_CDS: -12.42 Total: -147.10 kcal Atomic # 8 Polarization: -33.41 SS G_CDS: -0.04 Total: -33.45 kcal Atomic # 14 Polarization: 42.94 SS G_CDS: 2.03 Total: 44.96 kcal Atomic # 16 Polarization: 2.55 SS G_CDS: -1.31 Total: 1.24 kcal Total: -73.17 -2.62 -75.79 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. ZINC000108851864.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 120.994 kcal (2) G-P(sol) polarization free energy of solvation -73.171 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 47.822 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.618 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.790 kcal (6) G-S(sol) free energy of system = (1) + (5) 45.204 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.76 seconds