Wall clock time and date at job start Tue Mar 31 2020 13:55:50 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 1.31630 * 1 3 3 Si 1.86800 * 120.00086 * 2 1 4 4 H 1.48505 * 109.46819 * 239.99649 * 3 2 1 5 5 H 1.48494 * 109.47285 * 359.97438 * 3 2 1 6 6 H 1.48503 * 109.47086 * 119.99944 * 3 2 1 7 7 C 1.38803 * 119.99849 * 179.97438 * 2 1 3 8 8 H 1.07999 * 120.00074 * 179.97438 * 7 2 1 9 9 S 1.76199 * 119.99949 * 0.02562 * 7 2 1 10 10 C 1.81002 * 100.00182 * 179.97438 * 9 7 2 11 11 C 1.50703 * 109.47349 * 180.02562 * 10 9 7 12 12 O 1.21282 * 119.99654 * 359.97438 * 11 10 9 13 13 N 1.34775 * 119.99768 * 180.02562 * 11 10 9 14 14 C 1.46504 * 119.99561 * 179.97438 * 13 11 10 15 15 H 1.09000 * 109.71536 * 34.99304 * 14 13 11 16 16 C 1.53445 * 109.71426 * 155.60277 * 14 13 11 17 17 C 1.53239 * 109.00953 * 167.96552 * 16 14 13 18 18 C 1.53147 * 109.61730 * 290.42237 * 17 16 14 19 19 N 1.47003 * 108.88778 * 51.12352 * 18 17 16 20 20 N 1.28420 * 126.36647 * 162.30148 * 19 18 17 21 21 C 1.31913 * 110.22011 * 180.10955 * 20 19 18 22 22 C 1.47581 * 126.50610 * 180.02562 * 21 20 19 23 23 O 1.21490 * 119.99910 * 179.97438 * 22 21 20 24 24 O 1.34726 * 119.99881 * 359.95576 * 22 21 20 25 25 C 1.41691 * 106.98861 * 359.97438 * 21 20 19 26 26 C 1.34684 * 105.33559 * 359.97438 * 25 21 20 27 27 H 0.97005 * 119.99878 * 0.02562 * 1 2 3 28 28 H 1.09005 * 109.46889 * 299.99975 * 10 9 7 29 29 H 1.09000 * 109.47231 * 59.99947 * 10 9 7 30 30 H 0.96993 * 120.00373 * 359.97438 * 13 11 10 31 31 H 1.09000 * 109.54201 * 287.85222 * 16 14 13 32 32 H 1.09001 * 109.54154 * 48.11647 * 16 14 13 33 33 H 1.08996 * 109.42654 * 170.38690 * 17 16 14 34 34 H 1.08997 * 109.42996 * 50.46487 * 17 16 14 35 35 H 1.08993 * 109.56685 * 291.30036 * 18 17 16 36 36 H 1.08999 * 109.56315 * 170.94248 * 18 17 16 37 37 H 0.96706 * 116.99743 * 179.97438 * 24 22 21 38 38 H 1.07999 * 127.32640 * 180.02562 * 25 21 20 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 1.6177 0.0000 4 1 3.1041 1.6963 -1.2125 5 1 1.2854 2.7464 -0.0006 6 1 3.1041 1.6964 1.2125 7 6 2.0103 -1.2021 0.0005 8 1 3.0903 -1.2021 0.0001 9 16 1.1292 -2.7280 0.0005 10 6 2.5157 -3.8915 0.0005 11 6 1.9872 -5.3028 -0.0001 12 8 0.7909 -5.5023 0.0000 13 7 2.8440 -6.3432 0.0003 14 6 2.3301 -7.7152 0.0003 15 1 1.4142 -7.7648 -0.5885 16 6 3.3807 -8.6614 -0.5959 17 6 2.9637 -10.1094 -0.3175 18 6 3.0972 -10.4041 1.1794 19 7 2.3965 -9.3559 1.9352 20 7 2.0206 -9.4233 3.1613 21 6 1.4192 -8.3041 3.5159 22 6 0.8485 -7.9960 4.8416 23 8 0.3184 -6.9210 5.0398 24 8 0.9150 -8.9071 5.8319 25 6 1.4262 -7.4533 2.3829 26 6 2.0496 -8.1532 1.4158 27 1 -0.4850 0.8401 -0.0004 28 1 3.1243 -3.7315 -0.8895 29 1 3.1244 -3.7315 0.8905 30 1 3.8007 -6.1837 0.0006 31 1 3.4471 -8.5010 -1.6720 32 1 4.3497 -8.4663 -0.1365 33 1 3.6070 -10.7864 -0.8795 34 1 1.9280 -10.2539 -0.6250 35 1 4.1511 -10.4121 1.4573 36 1 2.6519 -11.3739 1.4016 37 1 0.5277 -8.6598 6.6828 38 1 1.0191 -6.4556 2.3106 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC001601075304.mol2 38 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 13:55:50 Heat of formation + Delta-G solvation = -79.091757 kcal Electronic energy + Delta-G solvation = -24711.572347 eV Core-core repulsion = 20873.690281 eV Total energy + Delta-G solvation = -3837.882066 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 325.093 amu Computer time = 0.56 seconds Orbital eigenvalues (eV) -44.04995 -41.06268 -40.66444 -37.89331 -37.19619 -35.61632 -34.57596 -33.12927 -31.66584 -30.80286 -29.09191 -27.65320 -26.28975 -24.51997 -23.38465 -22.03799 -21.74141 -20.60007 -19.79475 -18.87924 -18.46006 -17.95692 -17.77940 -17.32556 -17.05650 -16.87042 -16.44821 -16.24233 -15.83412 -15.49041 -14.96573 -14.88631 -14.62620 -14.59306 -14.46961 -13.97285 -13.54289 -13.18112 -13.16290 -12.86287 -12.75691 -12.67980 -12.50595 -12.27264 -12.09863 -12.05381 -11.88973 -11.71749 -11.12159 -10.98869 -10.40002 -10.28169 -10.26164 -10.15782 -8.65085 -8.33660 -6.11469 0.12136 0.80200 1.22319 1.29332 1.44069 1.47763 1.57345 1.59150 1.95267 2.02015 2.25762 2.29823 3.00441 3.13572 3.32700 3.39044 3.57423 3.79023 3.84813 3.99649 4.27667 4.29325 4.32136 4.32728 4.43252 4.51829 4.58796 4.68136 4.77056 4.96891 5.06007 5.12661 5.16673 5.36619 5.40931 5.42126 5.66155 6.20143 6.45334 6.62522 6.92796 7.07455 7.21569 8.75297 Molecular weight = 325.09amu Principal moments of inertia in cm(-1) A = 0.014183 B = 0.003214 C = 0.002738 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1973.716397 B = 8709.033154 C =10225.002926 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.912 5.912 2 C 0.013 3.987 3 Si 0.998 3.002 4 H -0.259 1.259 5 H -0.280 1.280 6 H -0.264 1.264 7 C -0.548 4.548 8 H 0.083 0.917 9 S -0.151 6.151 10 C -0.130 4.130 11 C 0.537 3.463 12 O -0.553 6.553 13 N -0.703 5.703 14 C 0.215 3.785 15 H 0.097 0.903 16 C -0.125 4.125 17 C -0.125 4.125 18 C 0.103 3.897 19 N -0.256 5.256 20 N -0.229 5.229 21 C -0.041 4.041 22 C 0.577 3.423 23 O -0.541 6.541 24 O -0.493 6.493 25 C -0.177 4.177 26 C 0.008 3.992 27 H 0.271 0.729 28 H 0.116 0.884 29 H 0.104 0.896 30 H 0.420 0.580 31 H 0.112 0.888 32 H 0.097 0.903 33 H 0.146 0.854 34 H 0.077 0.923 35 H 0.123 0.877 36 H 0.122 0.878 37 H 0.435 0.565 38 H 0.131 0.869 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 13.699 -26.213 0.000 29.577 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 0.819 3.181 4 H -0.183 1.183 5 H -0.205 1.205 6 H -0.189 1.189 7 C -0.696 4.696 8 H 0.102 0.898 9 S 0.076 5.924 10 C -0.282 4.282 11 C 0.323 3.677 12 O -0.430 6.430 13 N -0.357 5.357 14 C 0.108 3.892 15 H 0.115 0.885 16 C -0.162 4.162 17 C -0.163 4.163 18 C -0.014 4.014 19 N -0.049 5.049 20 N -0.068 5.068 21 C -0.197 4.197 22 C 0.420 3.580 23 O -0.430 6.430 24 O -0.306 6.306 25 C -0.205 4.205 26 C -0.117 4.117 27 H 0.080 0.920 28 H 0.134 0.866 29 H 0.122 0.878 30 H 0.259 0.741 31 H 0.131 0.869 32 H 0.115 0.885 33 H 0.164 0.836 34 H 0.096 0.904 35 H 0.141 0.859 36 H 0.140 0.860 37 H 0.297 0.703 38 H 0.149 0.851 Dipole moment (debyes) X Y Z Total from point charges 11.969 -27.426 0.052 29.924 hybrid contribution 0.887 2.703 0.795 2.954 sum 12.856 -24.723 0.847 27.879 Atomic orbital electron populations 1.70185 1.08017 1.28640 1.47979 1.26131 0.95938 1.03342 0.93739 0.85015 0.77816 0.75715 0.79522 1.18344 1.20472 1.18855 1.23187 0.95370 0.92076 1.58926 0.89848 1.85616 1.10481 0.99236 1.97043 1.23376 1.03612 0.94362 1.06809 1.20076 0.86344 0.86652 0.74594 1.90726 1.17227 1.85886 1.49151 1.45695 1.10484 1.03863 1.75694 1.19684 1.00516 0.81818 0.87161 0.88481 1.22075 0.97429 0.92847 1.03891 1.22008 1.05208 0.96932 0.92195 1.22909 0.98623 0.88640 0.91204 1.46461 1.39041 1.13121 1.06227 1.73476 1.13251 1.21944 0.98106 1.20711 1.10338 0.94556 0.94048 1.19295 0.74653 0.80680 0.83355 1.90958 1.43289 1.25999 1.82709 1.84573 1.75578 1.45599 1.24871 1.21305 1.05532 1.01451 0.92213 1.21927 1.03225 0.87843 0.98716 0.92035 0.86584 0.87753 0.74134 0.86937 0.88468 0.83648 0.90433 0.85870 0.86015 0.70258 0.85150 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 -56.99 13.22 21.65 0.29 -56.70 16 2 C 0.01 0.76 5.49 84.86 0.47 1.23 16 3 Si 1.00 44.13 29.55 68.60 2.03 46.15 16 4 H -0.26 -10.73 7.11 99.48 0.71 -10.02 16 5 H -0.28 -12.09 7.11 99.48 0.71 -11.38 16 6 H -0.26 -11.14 7.11 99.48 0.71 -10.44 16 7 C -0.55 -31.61 9.50 67.96 0.65 -30.96 16 8 H 0.08 4.43 7.80 -2.91 -0.02 4.41 16 9 S -0.15 -8.46 20.57 -56.49 -1.16 -9.63 16 10 C -0.13 -5.09 6.16 71.24 0.44 -4.65 16 11 C 0.54 19.02 7.10 87.66 0.62 19.64 16 12 O -0.55 -24.91 14.62 -3.04 -0.04 -24.95 16 13 N -0.70 -15.82 5.01 -445.21 -2.23 -18.06 16 14 C 0.22 4.12 2.82 44.43 0.13 4.25 16 15 H 0.10 2.26 7.59 -2.39 -0.02 2.24 16 16 C -0.12 -0.81 5.49 30.82 0.17 -0.64 16 17 C -0.13 -0.35 5.92 30.72 0.18 -0.16 16 18 C 0.10 0.69 7.17 86.33 0.62 1.31 16 19 N -0.26 -5.03 3.74 -333.32 -1.25 -6.28 16 20 N -0.23 -5.97 12.04 -48.10 -0.58 -6.55 16 21 C -0.04 -1.32 7.17 42.45 0.30 -1.01 16 22 C 0.58 18.14 8.34 70.29 0.59 18.72 16 23 O -0.54 -20.96 17.71 19.87 0.35 -20.61 16 24 O -0.49 -10.92 13.44 -56.36 -0.76 -11.68 16 25 C -0.18 -5.99 10.06 22.31 0.22 -5.77 16 26 C 0.01 0.19 6.27 41.21 0.26 0.45 16 27 H 0.27 15.76 8.31 -92.70 -0.77 14.99 16 28 H 0.12 3.93 8.14 -2.39 -0.02 3.91 16 29 H 0.10 3.79 8.14 -2.40 -0.02 3.77 16 30 H 0.42 6.30 8.59 -92.71 -0.80 5.51 16 31 H 0.11 0.40 8.14 -2.39 -0.02 0.38 16 32 H 0.10 0.36 8.09 -2.39 -0.02 0.34 16 33 H 0.15 -0.66 8.14 -2.39 -0.02 -0.68 16 34 H 0.08 0.39 8.11 -2.39 -0.02 0.37 16 35 H 0.12 0.30 8.14 -2.39 -0.02 0.28 16 36 H 0.12 0.49 8.14 -2.39 -0.02 0.48 16 37 H 0.44 4.97 9.11 -74.05 -0.67 4.30 16 38 H 0.13 5.46 6.95 -2.91 -0.02 5.44 16 Total: -1.00 -92.97 346.11 0.95 -92.02 By element: Atomic # 1 Polarization: 14.23 SS G_CDS: -0.34 Total: 13.89 kcal Atomic # 6 Polarization: -2.24 SS G_CDS: 4.64 Total: 2.40 kcal Atomic # 7 Polarization: -83.82 SS G_CDS: -3.77 Total: -87.59 kcal Atomic # 8 Polarization: -56.79 SS G_CDS: -0.45 Total: -57.24 kcal Atomic # 14 Polarization: 44.13 SS G_CDS: 2.03 Total: 46.15 kcal Atomic # 16 Polarization: -8.46 SS G_CDS: -1.16 Total: -9.63 kcal Total: -92.97 0.95 -92.02 kcal The number of atoms in the molecule is 38 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. ZINC001601075304.mol2 38 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 12.925 kcal (2) G-P(sol) polarization free energy of solvation -92.966 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -80.041 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.949 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -92.017 kcal (6) G-S(sol) free energy of system = (1) + (5) -79.092 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.56 seconds