Wall clock time and date at job start Tue Mar 31 2020 22:44:04 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 1.31634 * 1 3 3 Si 1.86799 * 119.99826 * 2 1 4 4 H 1.48499 * 109.47098 * 180.02562 * 3 2 1 5 5 H 1.48507 * 109.47081 * 299.99438 * 3 2 1 6 6 H 1.48496 * 109.47496 * 59.99848 * 3 2 1 7 7 C 1.38803 * 120.00163 * 179.97438 * 2 1 3 8 8 H 1.08001 * 119.99773 * 179.97438 * 7 2 1 9 9 S 1.76198 * 119.99710 * 0.02562 * 7 2 1 10 10 C 1.81000 * 99.99715 * 179.97438 * 9 7 2 11 11 C 1.50703 * 109.47389 * 179.97438 * 10 9 7 12 12 O 1.21283 * 119.99488 * 359.97438 * 11 10 9 13 13 N 1.34777 * 120.00290 * 180.02562 * 11 10 9 14 14 C 1.46498 * 119.99828 * 180.27728 * 13 11 10 15 15 H 1.09000 * 110.01907 * 33.33167 * 14 13 11 16 16 C 1.54269 * 110.03103 * 271.88580 * 14 13 11 17 17 C 1.54882 * 104.19543 * 217.10663 * 16 14 13 18 18 C 1.54892 * 102.74961 * 37.94458 * 17 16 14 19 19 H 1.09001 * 110.48514 * 80.73996 * 18 17 16 20 20 C 1.53002 * 110.59738 * 203.32074 * 18 17 16 21 21 N 1.46899 * 109.47072 * 289.84070 * 20 18 17 22 22 C 1.46902 * 110.99504 * 179.97438 * 21 20 18 23 23 C 1.50702 * 109.47047 * 180.02562 * 22 21 20 24 24 C 1.41379 * 126.80778 * 94.70914 * 23 22 21 25 25 C 1.35445 * 103.98852 * 179.89108 * 24 23 22 26 26 O 1.34042 * 106.44691 * 0.36960 * 25 24 23 27 27 N 1.20924 * 111.56705 * 359.74945 * 26 25 24 28 28 C 1.53876 * 110.03388 * 154.72379 * 14 13 11 29 29 H 0.96991 * 119.99795 * 0.02562 * 1 2 3 30 30 H 1.08998 * 109.47444 * 59.99749 * 10 9 7 31 31 H 1.09002 * 109.47411 * 300.00028 * 10 9 7 32 32 H 0.97001 * 119.99727 * 359.97438 * 13 11 10 33 33 H 1.08997 * 110.48606 * 335.79133 * 16 14 13 34 34 H 1.09004 * 110.48130 * 98.42846 * 16 14 13 35 35 H 1.09004 * 110.75978 * 279.62431 * 17 16 14 36 36 H 1.09003 * 110.91199 * 156.33036 * 17 16 14 37 37 H 1.09002 * 109.47008 * 49.84223 * 20 18 17 38 38 H 1.09000 * 109.47168 * 169.83615 * 20 18 17 39 39 H 1.00899 * 111.00119 * 56.05214 * 21 20 18 40 40 H 1.09003 * 109.47366 * 299.99959 * 22 21 20 41 41 H 1.08999 * 109.47301 * 60.00472 * 22 21 20 42 42 H 1.08009 * 128.00279 * 0.02562 * 24 23 22 43 43 H 1.08005 * 126.77354 * 180.09416 * 25 24 23 44 44 H 1.09000 * 110.03305 * 238.57213 * 28 14 13 45 45 H 1.09000 * 110.02869 * 359.94632 * 28 14 13 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 1.3163 0.0000 0.0000 3 14 2.2503 1.6178 0.0000 4 1 3.7103 1.3464 -0.0006 5 1 1.8916 2.3964 -1.2126 6 1 1.8916 2.3965 1.2124 7 6 2.0104 -1.2020 0.0005 8 1 3.0904 -1.2020 0.0001 9 16 1.1294 -2.7279 0.0005 10 6 2.5159 -3.8914 0.0005 11 6 1.9876 -5.3027 0.0012 12 8 0.7913 -5.5023 0.0021 13 7 2.8444 -6.3431 0.0018 14 6 2.3306 -7.7150 -0.0037 15 1 1.4006 -7.7630 -0.5702 16 6 2.0950 -8.1969 1.4427 17 6 2.5045 -9.6904 1.4170 18 6 3.7335 -9.6917 0.4743 19 1 4.6275 -9.3770 1.0126 20 6 3.9398 -11.0780 -0.1393 21 7 4.3982 -12.0100 0.8996 22 6 4.6067 -13.3545 0.3457 23 6 5.0750 -14.2808 1.4383 24 6 4.2706 -15.1348 2.2273 25 6 5.1542 -15.7494 3.0496 26 8 6.3635 -15.2605 2.7406 27 7 6.2997 -14.4489 1.8465 28 6 3.3724 -8.6655 -0.6194 29 1 -0.4849 0.8400 -0.0004 30 1 3.1246 -3.7313 0.8905 31 1 3.1246 -3.7313 -0.8894 32 1 3.8011 -6.1834 0.0015 33 1 2.7244 -7.6406 2.1374 34 1 1.0440 -8.0941 1.7126 35 1 1.7023 -10.3039 1.0068 36 1 2.7815 -10.0351 2.4133 37 1 2.9982 -11.4342 -0.5571 38 1 4.6882 -11.0179 -0.9295 39 1 3.7520 -12.0346 1.6740 40 1 3.6695 -13.7263 -0.0685 41 1 5.3596 -13.3106 -0.4413 42 1 3.1997 -15.2681 2.1829 43 1 4.9283 -16.4845 3.8079 44 1 2.9477 -9.1753 -1.4842 45 1 4.2598 -8.1059 -0.9150 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 ZINC001332236904.mol2 45 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 22:44:04 Heat of formation + Delta-G solvation = -13.088148 kcal Electronic energy + Delta-G solvation = -25289.341117 eV Core-core repulsion = 21434.616657 eV Total energy + Delta-G solvation = -3854.724459 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 339.140 amu Computer time = 0.71 seconds Orbital eigenvalues (eV) -45.85371 -40.97383 -39.31425 -37.33452 -35.19731 -34.59056 -34.07887 -32.54650 -31.28903 -30.37449 -28.83682 -27.67705 -26.81607 -24.30256 -23.90835 -22.20103 -21.94997 -21.38363 -20.80349 -19.82131 -18.68605 -18.48769 -17.96581 -17.40143 -17.13062 -16.88670 -16.47017 -16.15931 -15.83308 -15.71512 -15.55681 -14.89235 -14.64555 -14.61134 -14.37754 -14.24983 -14.03572 -13.71939 -13.36299 -13.16515 -13.05296 -12.96565 -12.89545 -12.61457 -12.38194 -12.18457 -11.95992 -11.74747 -11.68785 -11.57492 -11.46649 -11.16306 -11.11399 -10.90198 -10.53453 -10.27851 -10.05448 -9.44319 -8.67136 -8.35413 -6.13388 0.66705 1.27128 1.29041 1.40978 1.47158 1.58461 1.62392 2.26039 2.32975 2.50848 2.98862 3.11651 3.31520 3.33982 3.55432 3.67581 3.74578 3.89358 4.01606 4.24846 4.29071 4.34566 4.37797 4.44899 4.46164 4.49734 4.50574 4.58551 4.59664 4.68640 4.73872 4.79099 4.86908 4.92707 5.06374 5.08923 5.18141 5.22069 5.28993 5.41610 5.47945 5.62781 5.95492 6.19534 6.36579 6.53838 7.06102 7.27640 7.40536 8.74152 Molecular weight = 339.14amu Principal moments of inertia in cm(-1) A = 0.036769 B = 0.001437 C = 0.001422 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 761.330341 B =19474.442587 C =19687.271231 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.911 5.911 2 C 0.014 3.986 3 Si 0.999 3.001 4 H -0.257 1.257 5 H -0.273 1.273 6 H -0.274 1.274 7 C -0.547 4.547 8 H 0.082 0.918 9 S -0.151 6.151 10 C -0.130 4.130 11 C 0.533 3.467 12 O -0.566 6.566 13 N -0.708 5.708 14 C 0.138 3.862 15 H 0.067 0.933 16 C -0.134 4.134 17 C -0.110 4.110 18 C -0.079 4.079 19 H 0.081 0.919 20 C 0.073 3.927 21 N -0.694 5.694 22 C 0.138 3.862 23 C 0.003 3.997 24 C -0.241 4.241 25 C -0.048 4.048 26 O 0.083 5.917 27 N -0.391 5.391 28 C -0.115 4.115 29 H 0.271 0.729 30 H 0.108 0.892 31 H 0.109 0.891 32 H 0.415 0.585 33 H 0.066 0.934 34 H 0.050 0.950 35 H 0.074 0.926 36 H 0.077 0.923 37 H 0.046 0.954 38 H 0.076 0.924 39 H 0.347 0.653 40 H 0.074 0.926 41 H 0.081 0.919 42 H 0.195 0.805 43 H 0.258 0.742 44 H 0.086 0.914 45 H 0.085 0.915 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 11.806 -33.980 3.435 36.136 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 -0.548 5.548 2 C -0.191 4.191 3 Si 0.821 3.179 4 H -0.181 1.181 5 H -0.199 1.199 6 H -0.199 1.199 7 C -0.695 4.695 8 H 0.100 0.900 9 S 0.076 5.924 10 C -0.282 4.282 11 C 0.319 3.681 12 O -0.445 6.445 13 N -0.362 5.362 14 C 0.033 3.967 15 H 0.085 0.915 16 C -0.173 4.173 17 C -0.148 4.148 18 C -0.098 4.098 19 H 0.100 0.900 20 C -0.056 4.056 21 N -0.327 5.327 22 C 0.009 3.991 23 C -0.156 4.156 24 C -0.263 4.263 25 C -0.129 4.129 26 O 0.017 5.983 27 N -0.096 5.096 28 C -0.153 4.153 29 H 0.080 0.920 30 H 0.126 0.874 31 H 0.127 0.873 32 H 0.252 0.748 33 H 0.085 0.915 34 H 0.069 0.931 35 H 0.093 0.907 36 H 0.095 0.905 37 H 0.064 0.936 38 H 0.095 0.905 39 H 0.166 0.834 40 H 0.092 0.908 41 H 0.099 0.901 42 H 0.212 0.788 43 H 0.274 0.726 44 H 0.105 0.895 45 H 0.104 0.896 Dipole moment (debyes) X Y Z Total from point charges 11.536 -33.537 2.991 35.592 hybrid contribution 0.002 1.028 0.039 1.028 sum 11.539 -32.510 3.030 34.629 Atomic orbital electron populations 1.70188 1.07975 1.28555 1.48070 1.26124 0.95958 1.03295 0.93704 0.84903 0.78591 0.76325 0.78107 1.18077 1.19878 1.19900 1.23246 0.95347 0.92050 1.58811 0.89969 1.85558 1.10610 0.99226 1.97041 1.23388 1.03523 0.94588 1.06676 1.20072 0.86337 0.86718 0.74955 1.90681 1.17422 1.86093 1.50261 1.45999 1.10037 1.04965 1.75153 1.21703 0.97957 0.80131 0.96865 0.91456 1.22731 1.00948 0.97490 0.96159 1.22503 0.97442 0.94488 1.00335 1.21887 0.98414 0.93810 0.95713 0.90014 1.21978 0.99227 0.90825 0.93543 1.60376 1.53906 1.07013 1.11369 1.20175 1.00774 0.86103 0.92085 1.23883 0.89251 1.00978 1.01492 1.23138 1.03453 1.00598 0.99061 1.26888 0.82502 1.01255 1.02221 1.84824 1.32691 1.41460 1.39278 1.73894 1.23157 1.08498 1.04067 1.22385 0.98314 0.96066 0.98537 0.91980 0.87410 0.87275 0.74796 0.91539 0.93130 0.90684 0.90473 0.93618 0.90519 0.83409 0.90820 0.90068 0.78810 0.72601 0.89531 0.89648 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 -0.91 -56.29 13.22 21.65 0.29 -56.01 16 2 C 0.01 0.80 5.49 84.86 0.47 1.26 16 3 Si 1.00 43.86 29.55 68.60 2.03 45.89 16 4 H -0.26 -10.56 7.11 99.48 0.71 -9.85 16 5 H -0.27 -11.63 7.11 99.48 0.71 -10.92 16 6 H -0.27 -11.65 7.11 99.48 0.71 -10.94 16 7 C -0.55 -31.49 9.50 67.96 0.65 -30.85 16 8 H 0.08 4.41 7.80 -2.91 -0.02 4.38 16 9 S -0.15 -8.50 20.57 -56.49 -1.16 -9.66 16 10 C -0.13 -5.23 6.16 71.24 0.44 -4.79 16 11 C 0.53 19.83 7.85 87.66 0.69 20.52 16 12 O -0.57 -26.46 15.51 -3.04 -0.05 -26.50 16 13 N -0.71 -17.86 5.03 -439.09 -2.21 -20.07 16 14 C 0.14 3.03 3.25 45.72 0.15 3.18 16 15 H 0.07 1.84 7.56 -2.39 -0.02 1.82 16 16 C -0.13 -2.81 6.53 31.67 0.21 -2.60 16 17 C -0.11 -1.50 5.70 31.88 0.18 -1.32 16 18 C -0.08 -0.96 3.08 -9.72 -0.03 -0.99 16 19 H 0.08 1.14 8.14 -2.39 -0.02 1.12 16 20 C 0.07 0.75 5.03 86.30 0.43 1.19 16 21 N -0.69 -8.37 6.49 -517.91 -3.36 -11.73 16 22 C 0.14 1.57 6.27 85.56 0.54 2.11 16 23 C 0.00 0.04 6.84 43.58 0.30 0.34 16 24 C -0.24 -1.92 11.12 22.40 0.25 -1.67 16 25 C -0.05 -0.30 12.30 67.17 0.83 0.52 16 26 O 0.08 1.23 11.20 71.61 0.80 2.03 16 27 N -0.39 -7.44 12.07 -49.54 -0.60 -8.04 16 28 C -0.11 -1.59 6.14 31.32 0.19 -1.40 16 29 H 0.27 15.48 8.31 -92.72 -0.77 14.71 16 30 H 0.11 3.91 8.14 -2.40 -0.02 3.89 16 31 H 0.11 3.93 8.14 -2.39 -0.02 3.91 16 32 H 0.41 7.66 8.32 -92.71 -0.77 6.89 16 33 H 0.07 1.46 8.05 -2.39 -0.02 1.44 16 34 H 0.05 1.27 8.14 -2.39 -0.02 1.25 16 35 H 0.07 0.92 7.97 -2.38 -0.02 0.90 16 36 H 0.08 0.96 8.04 -2.39 -0.02 0.94 16 37 H 0.05 0.40 8.03 -2.39 -0.02 0.38 16 38 H 0.08 0.81 8.14 -2.39 -0.02 0.79 16 39 H 0.35 3.75 8.01 -89.69 -0.72 3.03 16 40 H 0.07 0.53 8.14 -2.39 -0.02 0.51 16 41 H 0.08 1.05 8.14 -2.39 -0.02 1.03 16 42 H 0.19 0.43 8.06 -2.91 -0.02 0.41 16 43 H 0.26 -0.98 8.06 -2.91 -0.02 -1.00 16 44 H 0.09 1.06 7.84 -2.39 -0.02 1.04 16 45 H 0.08 1.04 7.62 -2.39 -0.02 1.02 16 Total: -1.00 -82.40 390.90 0.54 -81.86 By element: Atomic # 1 Polarization: 17.21 SS G_CDS: -0.48 Total: 16.73 kcal Atomic # 6 Polarization: -19.78 SS G_CDS: 5.28 Total: -14.50 kcal Atomic # 7 Polarization: -89.96 SS G_CDS: -5.88 Total: -95.84 kcal Atomic # 8 Polarization: -25.23 SS G_CDS: 0.75 Total: -24.48 kcal Atomic # 14 Polarization: 43.86 SS G_CDS: 2.03 Total: 45.89 kcal Atomic # 16 Polarization: -8.50 SS G_CDS: -1.16 Total: -9.66 kcal Total: -82.40 0.54 -81.86 kcal The number of atoms in the molecule is 45 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. ZINC001332236904.mol2 45 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 68.777 kcal (2) G-P(sol) polarization free energy of solvation -82.404 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -13.627 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.539 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -81.865 kcal (6) G-S(sol) free energy of system = (1) + (5) -13.088 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.71 seconds