Wall clock time and date at job start Tue Mar 31 2020 11:02:40 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 1.31512 * 1 3 3 Si 1.86795 * 120.00385 * 2 1 4 4 H 1.48498 * 109.47129 * 270.00280 * 3 2 1 5 5 H 1.48504 * 109.47102 * 29.99931 * 3 2 1 6 6 H 1.48500 * 109.47674 * 149.99800 * 3 2 1 7 7 C 1.37879 * 120.00142 * 180.02562 * 2 1 3 8 8 H 1.07995 * 120.00407 * 180.02562 * 7 2 1 9 9 S 1.76201 * 119.99624 * 359.72014 * 7 2 1 10 10 O 1.42095 * 106.40610 * 293.54037 * 9 7 2 11 11 O 1.42107 * 106.40066 * 66.46317 * 9 7 2 12 12 N 1.65601 * 107.21751 * 180.02562 * 9 7 2 13 13 C 1.46501 * 120.00017 * 57.45373 * 12 9 7 14 14 C 1.50696 * 109.54112 * 292.08381 * 13 12 9 15 15 C 1.38236 * 119.99792 * 125.46217 * 14 13 12 16 16 C 1.38241 * 119.99573 * 179.73937 * 15 14 13 17 17 C 1.38237 * 120.00051 * 0.53113 * 16 15 14 18 18 C 1.38235 * 119.99985 * 359.74564 * 17 16 15 19 19 C 1.38236 * 120.00042 * 359.97438 * 18 17 16 20 20 C 1.53183 * 109.54530 * 171.90421 * 13 12 9 21 21 C 1.53276 * 109.06162 * 297.03110 * 20 13 12 22 22 O 1.42903 * 109.46426 * 302.44293 * 21 20 13 23 23 C 1.42905 * 114.09399 * 61.16057 * 22 21 20 24 24 C 1.53090 * 109.41660 * 298.84107 * 23 22 21 25 25 H 0.97008 * 119.99533 * 359.97438 * 1 2 3 26 26 H 0.97004 * 119.99857 * 237.45414 * 12 9 7 27 27 H 1.07998 * 120.00458 * 359.97438 * 15 14 13 28 28 H 1.08004 * 120.00153 * 180.29277 * 16 15 14 29 29 H 1.07997 * 119.99711 * 179.76386 * 17 16 15 30 30 H 1.07998 * 119.99670 * 180.02562 * 18 17 16 31 31 H 1.08001 * 120.00073 * 180.02562 * 19 18 17 32 32 H 1.08997 * 109.51737 * 57.01784 * 20 13 12 33 33 H 1.08991 * 109.51937 * 177.20820 * 20 13 12 34 34 H 1.08999 * 109.46131 * 182.44754 * 21 20 13 35 35 H 1.09004 * 109.46971 * 62.44572 * 21 20 13 36 36 H 1.09005 * 109.47750 * 178.86467 * 23 22 21 37 37 H 1.08994 * 109.49444 * 58.83271 * 23 22 21 38 38 H 1.09003 * 109.52776 * 297.70941 * 24 23 22 39 39 H 1.08999 * 109.52331 * 177.51877 * 24 23 22 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 1.3151 0.0000 0.0000 3 14 2.2492 1.6176 0.0000 4 1 2.4967 2.0463 -1.4001 5 1 1.4467 2.6526 0.7000 6 1 3.5468 1.4401 0.7001 7 6 2.0045 -1.1941 -0.0005 8 1 3.0845 -1.1941 -0.0001 9 16 1.1235 -2.7200 0.0062 10 8 0.4566 -2.7928 1.2589 11 8 0.4461 -2.7977 -1.2406 12 7 2.2482 -3.9354 0.0046 13 6 3.2508 -4.0071 1.0704 14 6 4.1994 -2.8425 0.9492 15 6 4.4060 -2.0041 2.0288 16 6 5.2804 -0.9389 1.9192 17 6 5.9397 -0.7057 0.7268 18 6 5.7287 -1.5407 -0.3545 19 6 4.8588 -2.6093 -0.2432 20 6 4.0323 -5.3192 0.9514 21 6 3.0703 -6.4950 1.1546 22 8 2.4328 -6.3741 2.4279 23 6 1.6502 -5.1879 2.5782 24 6 2.5537 -3.9605 2.4336 25 1 -0.4850 0.8402 0.0004 26 1 2.2432 -4.5999 -0.7021 27 1 3.8873 -2.1835 2.9589 28 1 5.4454 -0.2867 2.7641 29 1 6.6198 0.1287 0.6401 30 1 6.2442 -1.3587 -1.2859 31 1 4.6943 -3.2619 -1.0878 32 1 4.4866 -5.3841 -0.0372 33 1 4.8107 -5.3498 1.7138 34 1 3.6273 -7.4311 1.1145 35 1 2.3156 -6.4871 0.3681 36 1 1.1844 -5.1822 3.5637 37 1 0.8770 -5.1626 1.8105 38 1 3.3024 -3.9638 3.2258 39 1 1.9515 -3.0546 2.5040 RHF calculation, no. of doubly occupied orbitals= 55 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 ZINC001192988100.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 11:02:40 Heat of formation + Delta-G solvation = -128.568332 kcal Electronic energy + Delta-G solvation = -25936.053223 eV Core-core repulsion = 22355.103654 eV Total energy + Delta-G solvation = -3580.949569 eV No. of doubly occupied orbitals = 55 Molecular weight (most abundant/longest-lived isotopes) = 311.102 amu Computer time = 0.91 seconds Orbital eigenvalues (eV) -41.41313 -39.39561 -37.37911 -36.49249 -36.06936 -35.07577 -32.45180 -31.96261 -31.40871 -30.71334 -28.06675 -25.77169 -24.96343 -22.92406 -22.49724 -21.14390 -20.55117 -19.10264 -18.34285 -18.12236 -17.37023 -16.87324 -16.67008 -16.49950 -16.05751 -15.85561 -15.61180 -15.48702 -14.95960 -14.30883 -14.30508 -14.12822 -14.05805 -13.80517 -13.60017 -13.13578 -13.01346 -12.77752 -12.58011 -12.45060 -12.39230 -12.18225 -12.04927 -12.03656 -11.77153 -11.45642 -11.19376 -11.12472 -10.86621 -10.65832 -10.11194 -9.63311 -9.40652 -8.67449 -7.31698 0.37445 0.61481 0.67798 1.31983 1.33762 1.49267 2.23677 2.67300 2.85614 3.01154 3.18267 3.62710 3.65991 3.86036 3.90363 4.12330 4.22269 4.27653 4.33659 4.37195 4.43396 4.56759 4.67001 4.72190 4.80425 4.84300 4.86997 4.94535 4.97824 5.14169 5.21016 5.27382 5.32018 5.37560 5.44084 5.70668 5.74471 5.85886 6.12839 6.25840 6.30650 6.38207 6.93152 8.28757 Molecular weight = 311.10amu Principal moments of inertia in cm(-1) A = 0.014176 B = 0.008626 C = 0.006379 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1974.744673 B = 3245.124181 C = 4388.446943 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.900 5.900 2 C 0.081 3.919 3 Si 0.964 3.036 4 H -0.263 1.263 5 H -0.272 1.272 6 H -0.234 1.234 7 C -1.018 5.018 8 H 0.140 0.860 9 S 2.712 3.288 10 O -1.028 7.028 11 O -1.058 7.058 12 N -1.111 6.111 13 C 0.228 3.772 14 C -0.099 4.099 15 C -0.115 4.115 16 C -0.131 4.131 17 C -0.128 4.128 18 C -0.132 4.132 19 C -0.108 4.108 20 C -0.137 4.137 21 C 0.053 3.947 22 O -0.394 6.394 23 C 0.073 3.927 24 C -0.184 4.184 25 H 0.292 0.708 26 H 0.413 0.587 27 H 0.127 0.873 28 H 0.135 0.865 29 H 0.139 0.861 30 H 0.140 0.860 31 H 0.129 0.871 32 H 0.101 0.899 33 H 0.096 0.904 34 H 0.124 0.876 35 H 0.048 0.952 36 H 0.099 0.901 37 H 0.034 0.966 38 H 0.098 0.902 39 H 0.087 0.913 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 14.185 -6.309 2.831 15.780 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 -0.532 5.532 2 C -0.131 4.131 3 Si 0.783 3.217 4 H -0.188 1.188 5 H -0.197 1.197 6 H -0.156 1.156 7 C -1.152 5.152 8 H 0.157 0.843 9 S 2.815 3.185 10 O -1.017 7.017 11 O -1.048 7.048 12 N -0.869 5.869 13 C 0.140 3.860 14 C -0.100 4.100 15 C -0.133 4.133 16 C -0.149 4.149 17 C -0.146 4.146 18 C -0.150 4.150 19 C -0.126 4.126 20 C -0.176 4.176 21 C -0.024 4.024 22 O -0.313 6.313 23 C -0.004 4.004 24 C -0.223 4.223 25 H 0.102 0.898 26 H 0.247 0.753 27 H 0.145 0.855 28 H 0.152 0.848 29 H 0.157 0.843 30 H 0.158 0.842 31 H 0.147 0.853 32 H 0.119 0.881 33 H 0.115 0.885 34 H 0.141 0.859 35 H 0.066 0.934 36 H 0.117 0.883 37 H 0.052 0.948 38 H 0.116 0.884 39 H 0.105 0.895 Dipole moment (debyes) X Y Z Total from point charges 13.058 -6.419 3.126 14.882 hybrid contribution 0.020 1.350 -0.705 1.523 sum 13.078 -5.069 2.421 14.233 Atomic orbital electron populations 1.70021 1.08700 1.31612 1.42898 1.25738 0.94893 1.04585 0.87868 0.85485 0.80317 0.76132 0.79749 1.18751 1.19678 1.15634 1.31126 1.08306 1.11049 1.64765 0.84267 1.00090 0.72563 0.74315 0.71579 1.93289 1.74794 1.88079 1.45575 1.93302 1.75161 1.88580 1.47754 1.55578 1.49039 1.45833 1.36457 1.18903 0.86425 0.94658 0.86064 1.20120 0.97836 0.97189 0.94902 1.21300 0.97799 0.95023 0.99199 1.21344 0.97180 0.97559 0.98857 1.21415 1.00255 0.99705 0.93221 1.21368 0.98996 0.95212 0.99453 1.21072 0.96158 0.98490 0.96915 1.22452 0.98469 0.91568 1.05101 1.22844 0.95099 0.99165 0.85276 1.87851 1.66195 1.41622 1.35633 1.22386 0.92342 0.83630 1.02018 1.23013 1.00724 1.01316 0.97205 0.89784 0.75281 0.85542 0.84758 0.84338 0.84215 0.85305 0.88094 0.88544 0.85851 0.93366 0.88259 0.94764 0.88351 0.89453 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 21. 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 -0.90 -53.46 13.19 21.45 0.28 -53.17 16 2 C 0.08 4.44 5.46 84.66 0.46 4.90 16 3 Si 0.96 41.14 29.54 68.60 2.03 43.17 16 4 H -0.26 -10.85 7.11 99.48 0.71 -10.15 16 5 H -0.27 -11.23 7.11 99.48 0.71 -10.52 16 6 H -0.23 -9.09 7.11 99.48 0.71 -8.38 16 7 C -1.02 -53.37 8.60 67.73 0.58 -52.79 16 8 H 0.14 6.54 3.68 -2.91 -0.01 6.53 16 9 S 2.71 140.91 4.83 -56.49 -0.27 140.64 16 10 O -1.03 -57.38 13.73 -128.00 -1.76 -59.14 16 11 O -1.06 -63.45 18.02 -128.00 -2.31 -65.75 16 12 N -1.11 -41.62 4.31 -154.70 -0.67 -42.29 16 13 C 0.23 7.26 0.54 2.98 0.00 7.26 16 14 C -0.10 -3.20 2.64 -19.87 -0.05 -3.25 16 15 C -0.11 -3.70 8.35 22.27 0.19 -3.51 16 16 C -0.13 -3.84 10.05 22.27 0.22 -3.62 16 17 C -0.13 -3.49 10.05 22.27 0.22 -3.26 16 18 C -0.13 -3.67 9.82 22.27 0.22 -3.45 16 19 C -0.11 -3.26 7.71 22.27 0.17 -3.09 16 20 C -0.14 -3.18 4.79 30.75 0.15 -3.03 16 21 C 0.05 1.23 6.67 72.07 0.48 1.71 16 22 O -0.39 -11.65 10.77 -148.98 -1.60 -13.25 16 23 C 0.07 2.46 6.36 72.01 0.46 2.92 16 24 C -0.18 -6.31 3.07 30.69 0.09 -6.21 16 25 H 0.29 15.88 8.31 -92.70 -0.77 15.11 16 26 H 0.41 13.20 7.95 -96.74 -0.77 12.43 16 27 H 0.13 3.92 5.90 -2.91 -0.02 3.90 16 28 H 0.13 3.28 8.06 -2.91 -0.02 3.26 16 29 H 0.14 2.98 8.06 -2.91 -0.02 2.96 16 30 H 0.14 3.10 8.06 -2.91 -0.02 3.07 16 31 H 0.13 3.48 7.98 -2.91 -0.02 3.46 16 32 H 0.10 1.91 7.89 -2.39 -0.02 1.90 16 33 H 0.10 2.03 8.14 -2.39 -0.02 2.01 16 34 H 0.12 2.09 8.14 -2.39 -0.02 2.07 16 35 H 0.05 1.16 7.28 -2.38 -0.02 1.15 16 36 H 0.10 3.11 8.14 -2.38 -0.02 3.09 16 37 H 0.03 1.31 6.95 -2.39 -0.02 1.29 16 38 H 0.10 2.85 7.08 -2.39 -0.02 2.83 16 39 H 0.09 3.68 5.31 -2.39 -0.01 3.67 16 Total: -1.00 -74.74 316.73 -0.78 -75.52 By element: Atomic # 1 Polarization: 39.36 SS G_CDS: 0.32 Total: 39.68 kcal Atomic # 6 Polarization: -68.61 SS G_CDS: 3.20 Total: -65.41 kcal Atomic # 7 Polarization: -95.07 SS G_CDS: -0.38 Total: -95.46 kcal Atomic # 8 Polarization: -132.47 SS G_CDS: -5.67 Total: -138.14 kcal Atomic # 14 Polarization: 41.14 SS G_CDS: 2.03 Total: 43.17 kcal Atomic # 16 Polarization: 140.91 SS G_CDS: -0.27 Total: 140.64 kcal Total: -74.74 -0.78 -75.52 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. ZINC001192988100.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 -53.044 kcal (2) G-P(sol) polarization free energy of solvation -74.743 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -127.786 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.782 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.525 kcal (6) G-S(sol) free energy of system = (1) + (5) -128.568 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.91 seconds