Wall clock time and date at job start Wed Apr 1 2020 04:37:48 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 S 1.81398 * 1 3 3 O 1.42103 * 110.54408 * 2 1 4 4 O 1.42098 * 110.54652 * 223.25251 * 2 1 3 5 5 N 1.65596 * 104.44972 * 111.62528 * 2 1 3 6 6 C 1.34968 * 126.03780 * 269.99657 * 5 2 1 7 7 C 1.35147 * 107.77668 * 179.97438 * 6 5 2 8 8 C 1.40176 * 107.91432 * 0.02562 * 7 6 5 9 9 N 1.30719 * 108.12354 * 359.97438 * 8 7 6 10 10 C 1.51188 * 107.95874 * 179.97438 * 8 7 6 11 11 N 1.48021 * 105.74455 * 342.39279 * 10 8 7 12 12 C 1.46899 * 110.99923 * 147.42243 * 11 10 8 13 13 C 1.50707 * 109.47329 * 69.87007 * 12 11 10 14 14 C 1.37639 * 120.12696 * 260.00305 * 13 12 11 15 15 C 1.38615 * 120.24485 * 179.74616 * 14 13 12 16 16 C 1.38659 * 120.50031 * 0.25596 * 15 14 13 17 17 C 1.37595 * 120.24970 * 0.02562 * 16 15 14 18 18 C 1.40699 * 120.12475 * 80.27295 * 13 12 11 19 19 C 1.41392 * 120.24717 * 0.02562 * 18 13 12 20 20 H 1.07998 * 120.00078 * 330.07584 * 19 18 13 21 21 C 1.39946 * 120.00306 * 150.07473 * 19 18 13 22 22 N 1.30818 * 120.00194 * 162.04784 * 21 19 18 23 23 Si 1.86804 * 119.99667 * 342.04818 * 21 19 18 24 24 H 1.48500 * 109.46965 * 95.39321 * 23 21 19 25 25 H 1.48497 * 109.46929 * 215.39142 * 23 21 19 26 26 H 1.48498 * 109.47070 * 335.39263 * 23 21 19 27 27 C 1.48020 * 104.15451 * 27.90647 * 11 10 8 28 28 H 1.08999 * 109.47142 * 308.37678 * 1 2 3 29 29 H 1.09002 * 109.46928 * 68.37348 * 1 2 3 30 30 H 1.09002 * 109.46949 * 188.36990 * 1 2 3 31 31 H 1.07996 * 126.11382 * 0.02562 * 6 5 2 32 32 H 1.08994 * 110.19791 * 223.32332 * 10 8 7 33 33 H 1.08994 * 110.19307 * 101.45531 * 10 8 7 34 34 H 1.09004 * 109.46912 * 309.87053 * 12 11 10 35 35 H 1.09003 * 109.47631 * 189.87175 * 12 11 10 36 36 H 1.08001 * 119.87435 * 0.02562 * 14 13 12 37 37 H 1.08003 * 119.74514 * 180.23160 * 15 14 13 38 38 H 1.08001 * 119.87306 * 179.97438 * 16 15 14 39 39 H 1.08000 * 120.12448 * 180.02562 * 17 16 15 40 40 H 0.97005 * 120.00228 * 179.97438 * 22 21 19 41 41 H 1.09001 * 110.19953 * 91.16638 * 27 11 10 42 42 H 1.09003 * 110.20037 * 213.03325 * 27 11 10 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 16 1.8140 0.0000 0.0000 3 8 2.3127 1.3307 0.0000 4 8 2.3127 -0.9691 -0.9117 5 7 2.2272 -0.5910 1.4907 6 6 2.4254 0.1402 2.6077 7 6 2.7451 -0.7115 3.6071 8 6 2.7431 -2.0116 3.0829 9 7 2.4326 -1.9383 1.8152 10 6 3.1012 -2.9652 4.2000 11 7 3.7200 -2.1327 5.2559 12 6 3.4242 -2.6699 6.5908 13 6 4.1694 -3.9650 6.7876 14 6 3.5191 -5.1675 6.6274 15 6 4.2035 -6.3601 6.8027 16 6 5.5469 -6.3567 7.1459 17 6 6.2157 -5.1664 7.3169 18 6 5.5311 -3.9494 7.1414 19 6 6.2079 -2.7201 7.3148 20 1 5.9018 -1.8510 6.7515 21 6 7.2744 -2.6296 8.2164 22 7 8.1170 -1.6322 8.1349 23 14 7.4947 -3.9329 9.5363 24 1 8.4570 -4.9598 9.0622 25 1 8.0160 -3.3003 10.7745 26 1 6.1863 -4.5748 9.8214 27 6 3.1045 -0.7991 5.0725 28 1 -0.3633 0.6380 0.8056 29 1 -0.3633 0.3788 -0.9553 30 1 -0.3633 -1.0167 0.1496 31 1 2.3425 1.2140 2.6887 32 1 3.8118 -3.7114 3.8445 33 1 2.2036 -3.4514 4.5819 34 1 2.3528 -2.8499 6.6807 35 1 3.7369 -1.9520 7.3490 36 1 2.4729 -5.1818 6.3597 37 1 3.6862 -7.2990 6.6713 38 1 6.0702 -7.2919 7.2804 39 1 7.2621 -5.1661 7.5838 40 1 8.8560 -1.5692 8.7600 41 1 2.2077 -0.7109 5.6858 42 1 3.8173 -0.0165 5.3326 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 ZINC001235525610.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 04:37:48 Heat of formation + Delta-G solvation = 38.895426 kcal Electronic energy + Delta-G solvation = -27641.738816 eV Core-core repulsion = 23715.665350 eV Total energy + Delta-G solvation = -3926.073466 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 347.109 amu Computer time = 0.78 seconds Orbital eigenvalues (eV) -42.90409 -39.99896 -38.58584 -38.43980 -37.40945 -35.37913 -33.80499 -32.42984 -32.09360 -31.03776 -30.52380 -28.75538 -27.68687 -26.50363 -24.09145 -23.06848 -21.67265 -21.53700 -20.99086 -20.49570 -19.17932 -19.10276 -17.92111 -17.47646 -17.01408 -16.82476 -16.52470 -16.17623 -16.04220 -15.59656 -15.16754 -15.00824 -14.78904 -14.44139 -14.22615 -14.17266 -14.02039 -13.93852 -13.73107 -13.54944 -13.46507 -13.34450 -13.31814 -13.12748 -13.00213 -12.57787 -12.46062 -12.31662 -12.28559 -11.95674 -11.72554 -11.45477 -11.17296 -11.02372 -10.87952 -10.07739 -9.34052 -9.28013 -9.10573 -8.75805 -6.30758 -1.28691 0.26214 0.86689 0.94927 0.98378 1.32444 1.42149 1.44989 1.53672 2.19093 2.19887 2.61122 2.72118 2.98192 3.10284 3.50105 3.61565 3.74908 3.93457 4.00262 4.21396 4.28248 4.29748 4.36234 4.49211 4.57259 4.60711 4.66733 4.73796 4.78215 4.83322 4.92135 4.99032 5.02909 5.12554 5.25201 5.32849 5.47080 5.75497 5.77929 6.01119 6.04671 6.14726 6.16974 6.25697 6.44668 6.61584 6.94962 7.03777 8.30841 Molecular weight = 347.11amu Principal moments of inertia in cm(-1) A = 0.018990 B = 0.002653 C = 0.002470 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1474.144990 B =10552.809018 C =11332.634891 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.620 4.620 2 S 2.605 3.395 3 O -0.957 6.957 4 O -0.966 6.966 5 N -0.741 5.741 6 C 0.100 3.900 7 C -0.240 4.240 8 C 0.077 3.923 9 N -0.259 5.259 10 C 0.129 3.871 11 N -0.513 5.513 12 C 0.120 3.880 13 C -0.181 4.181 14 C -0.075 4.075 15 C -0.234 4.234 16 C -0.090 4.090 17 C -0.261 4.261 18 C 0.089 3.911 19 C -0.457 4.457 20 H 0.080 0.920 21 C 0.048 3.952 22 N -0.852 5.852 23 Si 0.956 3.044 24 H -0.273 1.273 25 H -0.285 1.285 26 H -0.251 1.251 27 C 0.113 3.887 28 H 0.164 0.836 29 H 0.171 0.829 30 H 0.149 0.851 31 H 0.233 0.767 32 H 0.082 0.918 33 H 0.095 0.905 34 H 0.061 0.939 35 H 0.074 0.926 36 H 0.129 0.871 37 H 0.124 0.876 38 H 0.114 0.886 39 H 0.085 0.915 40 H 0.287 0.713 41 H 0.085 0.915 42 H 0.085 0.915 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -19.670 4.135 -8.942 21.999 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 -0.776 4.776 2 S 2.705 3.295 3 O -0.947 6.947 4 O -0.956 6.956 5 N -0.630 5.630 6 C -0.037 4.037 7 C -0.251 4.251 8 C -0.098 4.098 9 N -0.079 5.079 10 C 0.000 4.000 11 N -0.237 5.237 12 C -0.006 4.006 13 C -0.183 4.183 14 C -0.093 4.093 15 C -0.253 4.253 16 C -0.109 4.109 17 C -0.281 4.281 18 C 0.086 3.914 19 C -0.487 4.487 20 H 0.098 0.902 21 C -0.166 4.166 22 N -0.479 5.479 23 Si 0.782 3.218 24 H -0.199 1.199 25 H -0.212 1.212 26 H -0.175 1.175 27 C -0.015 4.015 28 H 0.182 0.818 29 H 0.189 0.811 30 H 0.168 0.832 31 H 0.249 0.751 32 H 0.100 0.900 33 H 0.113 0.887 34 H 0.079 0.921 35 H 0.092 0.908 36 H 0.146 0.854 37 H 0.142 0.858 38 H 0.132 0.868 39 H 0.103 0.897 40 H 0.098 0.902 41 H 0.103 0.897 42 H 0.103 0.897 Dipole moment (debyes) X Y Z Total from point charges -18.449 4.087 -10.775 21.753 hybrid contribution -0.005 -0.025 1.479 1.479 sum -18.454 4.062 -9.296 21.059 Atomic orbital electron populations 1.30170 1.17570 1.14547 1.15341 1.05667 0.81138 0.72554 0.70103 1.93656 1.80444 1.36641 1.83927 1.93611 1.80112 1.62026 1.59899 1.58700 1.65766 1.11304 1.27224 1.22085 0.97989 0.99762 0.83903 1.21637 1.11419 0.93115 0.98967 1.23890 0.94930 0.98990 0.91948 1.77073 1.23834 0.93486 1.13521 1.21086 0.99286 0.93209 0.86466 1.65279 1.53432 1.01745 1.03242 1.20842 0.96569 0.94220 0.88960 1.19792 0.93267 0.94220 1.10999 1.20905 0.99123 0.91741 0.97573 1.20830 0.94596 0.97936 1.11896 1.20944 0.95460 0.96517 0.97943 1.21160 0.98627 0.94019 1.14271 1.17721 0.92006 0.92080 0.89616 1.19572 1.11055 0.97342 1.20743 0.90235 1.26740 0.92993 0.97136 0.99742 1.69754 1.11691 1.31827 1.34641 0.85627 0.80064 0.78546 0.77572 1.19897 1.21216 1.17475 1.21035 0.98860 0.92591 0.89029 0.81779 0.81075 0.83225 0.75092 0.90011 0.88735 0.92113 0.90803 0.85357 0.85802 0.86811 0.89666 0.90230 0.89745 0.89653 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 -0.62 -2.74 10.99 113.37 1.25 -1.49 16 2 S 2.61 45.95 6.35 -56.49 -0.36 45.59 16 3 O -0.96 -20.81 17.54 -127.65 -2.24 -23.05 16 4 O -0.97 -26.52 17.91 -127.65 -2.29 -28.81 16 5 N -0.74 -17.03 3.92 -57.68 -0.23 -17.25 16 6 C 0.10 2.08 11.00 83.50 0.92 2.99 16 7 C -0.24 -6.27 7.01 -19.97 -0.14 -6.41 16 8 C 0.08 2.29 8.24 43.35 0.36 2.65 16 9 N -0.26 -7.71 12.38 -46.86 -0.58 -8.29 16 10 C 0.13 3.92 5.90 85.50 0.50 4.43 16 11 N -0.51 -17.34 5.18 -901.94 -4.67 -22.01 16 12 C 0.12 4.10 3.99 85.56 0.34 4.44 16 13 C -0.18 -7.31 5.01 -19.40 -0.10 -7.41 16 14 C -0.07 -2.63 9.44 22.22 0.21 -2.42 16 15 C -0.23 -8.43 10.05 22.46 0.23 -8.20 16 16 C -0.09 -3.66 10.02 22.22 0.22 -3.44 16 17 C -0.26 -12.32 7.16 22.73 0.16 -12.16 16 18 C 0.09 4.29 5.10 -21.29 -0.11 4.18 16 19 C -0.46 -24.36 8.61 23.46 0.20 -24.16 16 20 H 0.08 4.52 7.17 -2.91 -0.02 4.50 16 21 C 0.05 2.52 5.41 85.26 0.46 2.98 16 22 N -0.85 -46.72 13.93 21.83 0.30 -46.41 16 23 Si 0.96 43.23 24.52 68.60 1.68 44.91 16 24 H -0.27 -12.13 6.71 99.48 0.67 -11.46 16 25 H -0.28 -12.25 7.11 99.48 0.71 -11.54 16 26 H -0.25 -11.42 6.86 99.48 0.68 -10.73 16 27 C 0.11 3.06 6.59 85.48 0.56 3.63 16 28 H 0.16 -0.07 8.14 -2.39 -0.02 -0.09 16 29 H 0.17 -0.11 8.14 -2.39 -0.02 -0.13 16 30 H 0.15 0.55 8.14 -2.39 -0.02 0.54 16 31 H 0.23 2.79 8.05 -2.91 -0.02 2.76 16 32 H 0.08 2.81 8.14 -2.39 -0.02 2.79 16 33 H 0.10 2.37 7.61 -2.39 -0.02 2.35 16 34 H 0.06 1.64 7.68 -2.38 -0.02 1.62 16 35 H 0.07 2.75 7.38 -2.39 -0.02 2.73 16 36 H 0.13 3.54 8.03 -2.91 -0.02 3.52 16 37 H 0.12 3.68 8.06 -2.91 -0.02 3.65 16 38 H 0.11 3.99 8.06 -2.91 -0.02 3.97 16 39 H 0.09 4.16 4.76 -2.91 -0.01 4.14 16 40 H 0.29 14.39 8.30 -92.70 -0.77 13.63 16 41 H 0.08 1.82 7.81 -2.39 -0.02 1.80 16 42 H 0.09 2.44 8.14 -2.39 -0.02 2.42 16 Total: -1.00 -76.95 360.55 -2.32 -79.27 By element: Atomic # 1 Polarization: 15.47 SS G_CDS: 0.99 Total: 16.45 kcal Atomic # 6 Polarization: -45.47 SS G_CDS: 5.07 Total: -40.40 kcal Atomic # 7 Polarization: -88.80 SS G_CDS: -5.18 Total: -93.97 kcal Atomic # 8 Polarization: -47.33 SS G_CDS: -4.53 Total: -51.86 kcal Atomic # 14 Polarization: 43.23 SS G_CDS: 1.68 Total: 44.91 kcal Atomic # 16 Polarization: 45.95 SS G_CDS: -0.36 Total: 45.59 kcal Total: -76.95 -2.32 -79.27 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. ZINC001235525610.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 118.167 kcal (2) G-P(sol) polarization free energy of solvation -76.952 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 41.215 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.319 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -79.271 kcal (6) G-S(sol) free energy of system = (1) + (5) 38.895 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.78 seconds