Wall clock time and date at job start Tue Mar 31 2020 18:14:39 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 C 1.52997 * 1 3 3 H 1.09004 * 109.47214 * 2 1 4 4 C 1.50704 * 109.47204 * 120.00315 * 2 1 3 5 5 H 1.08000 * 119.99720 * 120.00051 * 4 2 1 6 6 C 1.37881 * 119.99886 * 299.99713 * 4 2 1 7 7 N 1.31508 * 119.99647 * 179.97438 * 6 4 2 8 8 Si 1.86798 * 119.99944 * 359.97438 * 6 4 2 9 9 H 1.48504 * 109.46811 * 90.00028 * 8 6 4 10 10 H 1.48496 * 109.46898 * 209.99904 * 8 6 4 11 11 H 1.48497 * 109.47085 * 330.00238 * 8 6 4 12 12 N 1.46907 * 109.46940 * 240.00148 * 2 1 3 13 13 C 1.46901 * 110.99697 * 306.04828 * 12 2 1 14 14 C 1.38381 * 110.99927 * 69.99925 * 12 2 1 15 15 N 1.31473 * 126.44008 * 293.15931 * 14 12 2 16 16 N 1.28423 * 110.50709 * 179.97438 * 15 14 12 17 17 N 1.28909 * 110.31641 * 359.97438 * 16 15 14 18 18 N 1.35309 * 126.43862 * 113.11474 * 14 12 2 19 19 C 1.46502 * 127.37904 * 0.02562 * 18 14 12 20 20 C 1.53001 * 109.47124 * 264.70546 * 19 18 14 21 21 S 1.81403 * 109.47227 * 180.02562 * 20 19 18 22 22 C 1.76193 * 103.00228 * 179.97438 * 21 20 19 23 23 C 1.38979 * 120.07961 * 359.72454 * 22 21 20 24 24 C 1.38082 * 119.92155 * 179.76918 * 23 22 21 25 25 C 1.38310 * 120.07687 * 0.48185 * 24 23 22 26 26 C 1.38302 * 120.15965 * 359.77249 * 25 24 23 27 27 C 1.38078 * 120.08124 * 359.97438 * 26 25 24 28 28 H 1.08998 * 109.47344 * 59.99668 * 1 2 3 29 29 H 1.08995 * 109.47289 * 180.02562 * 1 2 3 30 30 H 1.09007 * 109.46980 * 300.00151 * 1 2 3 31 31 H 0.97006 * 119.99972 * 179.97438 * 7 6 4 32 32 H 1.09002 * 109.46869 * 191.65416 * 13 12 2 33 33 H 1.09000 * 109.46916 * 311.64792 * 13 12 2 34 34 H 1.08995 * 109.47256 * 71.65242 * 13 12 2 35 35 H 1.09003 * 109.47125 * 24.70493 * 19 18 14 36 36 H 1.09003 * 109.47246 * 144.70537 * 19 18 14 37 37 H 1.09003 * 109.47076 * 299.99977 * 20 19 18 38 38 H 1.08990 * 109.47386 * 60.00085 * 20 19 18 39 39 H 1.08005 * 120.03748 * 359.97438 * 23 22 21 40 40 H 1.07992 * 119.96216 * 180.22887 * 24 23 22 41 41 H 1.07998 * 119.91838 * 179.74358 * 25 24 23 42 42 H 1.07998 * 119.95755 * 179.97438 * 26 25 24 43 43 H 1.08001 * 120.03829 * 179.97438 * 27 26 25 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 6 1.5300 0.0000 0.0000 3 1 1.8933 1.0277 0.0000 4 6 2.0323 -0.7105 1.2305 5 1 2.6533 -1.5886 1.1312 6 6 1.6993 -0.2394 2.4828 7 7 2.1373 -0.8598 3.5565 8 14 0.6260 1.2798 2.6542 9 1 -0.8019 0.8744 2.6994 10 1 0.9774 1.9952 3.9071 11 1 0.8493 2.1772 1.4924 12 7 2.0196 -0.6925 -1.1995 13 6 1.4341 -2.0354 -1.3079 14 6 1.7683 0.0515 -2.3389 15 7 0.5874 0.3268 -2.8471 16 7 0.7094 1.0393 -3.9086 17 7 1.9542 1.2686 -4.1531 18 7 2.6917 0.6329 -3.1390 19 6 4.1480 0.6060 -2.9819 20 6 4.6045 1.8653 -2.2424 21 16 6.4079 1.8324 -2.0486 22 6 6.7419 3.3352 -1.1916 23 6 5.7002 4.1913 -0.8548 24 6 5.9652 5.3660 -0.1790 25 6 7.2665 5.6958 0.1538 26 6 8.3062 4.8488 -0.1844 27 6 8.0482 3.6700 -0.8556 28 1 -0.3634 0.5139 -0.8899 29 1 -0.3633 -1.0276 0.0005 30 1 -0.3633 0.5139 0.8900 31 1 1.9033 -0.5282 4.4375 32 1 1.9609 -2.6004 -2.0769 33 1 1.5264 -2.5502 -0.3515 34 1 0.3809 -1.9521 -1.5755 35 1 4.4355 -0.2759 -2.4094 36 1 4.6189 0.5708 -3.9644 37 1 4.3170 2.7472 -2.8149 38 1 4.1338 1.9005 -1.2601 39 1 4.6843 3.9366 -1.1183 40 1 5.1559 6.0299 0.0864 41 1 7.4713 6.6171 0.6787 42 1 9.3211 5.1097 0.0767 43 1 8.8606 3.0093 -1.1198 RHF calculation, no. of doubly occupied orbitals= 59 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) 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 ZINC001650041008.mol2 43 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 18:14:39 Heat of formation + Delta-G solvation = 155.486924 kcal Electronic energy + Delta-G solvation = -26219.100223 eV Core-core repulsion = 22621.746009 eV Total energy + Delta-G solvation = -3597.354214 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 333.132 amu Computer time = 0.86 seconds Orbital eigenvalues (eV) -44.16406 -39.87461 -39.51977 -37.01809 -34.95916 -32.82098 -32.69052 -31.97365 -31.80033 -31.22847 -27.53099 -27.28613 -26.23907 -24.03117 -23.83401 -23.65372 -23.07859 -21.52282 -18.97783 -18.86593 -18.55365 -17.89695 -17.38052 -17.21646 -16.85434 -16.40130 -16.09141 -15.66867 -15.54860 -15.45410 -14.83781 -14.77516 -14.51323 -14.27430 -14.20337 -14.08276 -13.98331 -13.63644 -13.51320 -13.26912 -12.96097 -12.65826 -12.56539 -12.50286 -12.23534 -12.12366 -12.04839 -11.73322 -11.55153 -11.37544 -11.22994 -11.20263 -10.83978 -10.78413 -10.00133 -9.89350 -8.46566 -8.34014 -6.37456 -0.28918 0.08927 0.18756 0.35526 0.85162 1.06238 1.20112 1.25061 1.30603 1.36904 2.24090 2.54816 2.71192 2.99950 3.14360 3.32367 3.46707 3.79268 3.83595 3.92950 4.02177 4.07692 4.19510 4.28145 4.32680 4.43871 4.44546 4.47540 4.51180 4.53248 4.54960 4.67856 4.73788 4.85067 4.97401 4.99885 5.07126 5.21571 5.23552 5.39809 5.42694 5.50992 5.63990 5.91918 5.93022 6.36332 6.68849 7.25889 7.30125 8.80978 Molecular weight = 333.13amu Principal moments of inertia in cm(-1) A = 0.009054 B = 0.004525 C = 0.003495 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 3091.979560 B = 6186.821668 C = 8009.793310 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.185 4.185 2 C 0.204 3.796 3 H 0.024 0.976 4 C -0.500 4.500 5 H 0.064 0.936 6 C 0.035 3.965 7 N -0.931 5.931 8 Si 0.928 3.072 9 H -0.266 1.266 10 H -0.295 1.295 11 H -0.265 1.265 12 N -0.458 5.458 13 C 0.037 3.963 14 C 0.428 3.572 15 N -0.366 5.366 16 N -0.057 5.057 17 N -0.086 5.086 18 N -0.359 5.359 19 C 0.146 3.854 20 C -0.126 4.126 21 S -0.073 6.073 22 C -0.104 4.104 23 C -0.153 4.153 24 C -0.113 4.113 25 C -0.126 4.126 26 C -0.101 4.101 27 C -0.110 4.110 28 H 0.061 0.939 29 H 0.069 0.931 30 H 0.038 0.962 31 H 0.268 0.732 32 H 0.083 0.917 33 H 0.090 0.910 34 H 0.047 0.953 35 H 0.130 0.870 36 H 0.141 0.859 37 H 0.100 0.900 38 H 0.079 0.921 39 H 0.113 0.887 40 H 0.137 0.863 41 H 0.151 0.849 42 H 0.158 0.842 43 H 0.142 0.858 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 11.029 8.598 -10.784 17.660 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 -0.244 4.244 2 C 0.097 3.903 3 H 0.042 0.958 4 C -0.538 4.538 5 H 0.082 0.918 6 C -0.165 4.165 7 N -0.570 5.570 8 Si 0.756 3.244 9 H -0.192 1.192 10 H -0.223 1.223 11 H -0.190 1.190 12 N -0.185 5.185 13 C -0.109 4.109 14 C 0.062 3.938 15 N -0.223 5.223 16 N -0.053 5.053 17 N -0.073 5.073 18 N -0.157 5.157 19 C 0.023 3.977 20 C -0.275 4.275 21 S 0.170 5.830 22 C -0.217 4.217 23 C -0.177 4.177 24 C -0.132 4.132 25 C -0.147 4.147 26 C -0.121 4.121 27 C -0.133 4.133 28 H 0.080 0.920 29 H 0.088 0.912 30 H 0.057 0.943 31 H 0.078 0.922 32 H 0.102 0.898 33 H 0.109 0.891 34 H 0.066 0.934 35 H 0.148 0.852 36 H 0.159 0.841 37 H 0.118 0.882 38 H 0.098 0.902 39 H 0.131 0.869 40 H 0.155 0.845 41 H 0.169 0.831 42 H 0.176 0.824 43 H 0.160 0.840 Dipole moment (debyes) X Y Z Total from point charges 11.394 8.151 -11.953 18.416 hybrid contribution -1.673 1.376 1.583 2.683 sum 9.722 9.527 -10.371 17.112 Atomic orbital electron populations 1.22817 0.98547 1.02694 1.00344 1.19598 0.90987 0.93605 0.86077 0.95811 1.20832 1.31367 1.13319 0.88305 0.91778 1.25404 0.96778 0.98761 0.95558 1.69946 1.46770 1.41731 0.98540 0.86190 0.80048 0.81117 0.76998 1.19239 1.22286 1.19001 1.59429 1.58939 1.03371 0.96777 1.22481 0.98167 0.85871 1.04386 1.23526 0.84310 0.93345 0.92660 1.74973 1.21860 1.18024 1.07466 1.77886 1.10373 1.08714 1.08347 1.82442 0.98616 1.17195 1.09045 1.51713 1.09682 1.36189 1.18147 1.21830 0.71776 0.99096 1.04952 1.23876 0.97109 1.02104 1.04445 1.85062 1.03565 1.24080 1.70291 1.21912 0.97622 0.98240 1.03894 1.21307 0.97917 0.96363 1.02070 1.21363 0.98414 0.96122 0.97321 1.21575 0.92167 1.00921 0.99992 1.21488 1.00862 0.93106 0.96636 1.21044 0.94236 0.98413 0.99634 0.91985 0.91202 0.94315 0.92215 0.89840 0.89093 0.93430 0.85230 0.84110 0.88158 0.90212 0.86917 0.84535 0.83108 0.82447 0.84009 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 C -0.19 -7.73 7.88 71.98 0.57 -7.16 16 2 C 0.20 8.88 1.87 44.17 0.08 8.96 16 3 H 0.02 1.11 7.11 -2.39 -0.02 1.09 16 4 C -0.50 -25.50 8.38 25.60 0.21 -25.29 16 5 H 0.06 3.55 7.44 -2.91 -0.02 3.52 16 6 C 0.03 1.87 5.45 84.66 0.46 2.33 16 7 N -0.93 -53.88 13.96 21.45 0.30 -53.58 16 8 Si 0.93 43.00 24.37 68.60 1.67 44.68 16 9 H -0.27 -11.90 6.87 99.48 0.68 -11.22 16 10 H -0.30 -13.69 7.11 99.48 0.71 -12.98 16 11 H -0.27 -11.89 6.53 99.48 0.65 -11.24 16 12 N -0.46 -16.90 4.68 -712.07 -3.34 -20.24 16 13 C 0.04 1.23 8.49 127.69 1.08 2.32 16 14 C 0.43 14.99 6.33 260.65 1.65 16.64 16 15 N -0.37 -13.67 9.76 -58.70 -0.57 -14.24 16 16 N -0.06 -2.07 13.38 37.02 0.50 -1.57 16 17 N -0.09 -2.79 13.93 37.02 0.52 -2.27 16 18 N -0.36 -10.79 3.69 -349.61 -1.29 -12.08 16 19 C 0.15 3.33 6.52 86.38 0.56 3.90 16 20 C -0.13 -3.04 4.66 71.98 0.34 -2.70 16 21 S -0.07 -1.66 21.92 -56.49 -1.24 -2.90 16 22 C -0.10 -2.52 6.11 22.62 0.14 -2.38 16 23 C -0.15 -3.83 9.36 22.41 0.21 -3.62 16 24 C -0.11 -2.41 10.04 22.25 0.22 -2.19 16 25 C -0.13 -2.21 10.04 22.30 0.22 -1.99 16 26 C -0.10 -1.71 10.04 22.25 0.22 -1.49 16 27 C -0.11 -2.23 9.79 22.41 0.22 -2.01 16 28 H 0.06 2.50 6.00 -2.39 -0.01 2.48 16 29 H 0.07 2.78 6.59 -2.39 -0.02 2.76 16 30 H 0.04 1.68 3.27 -2.38 -0.01 1.67 16 31 H 0.27 14.72 8.31 -92.70 -0.77 13.95 16 32 H 0.08 2.27 8.14 -2.39 -0.02 2.25 16 33 H 0.09 3.26 6.62 -2.39 -0.02 3.24 16 34 H 0.05 1.55 6.66 -2.39 -0.02 1.53 16 35 H 0.13 2.93 8.10 -2.39 -0.02 2.91 16 36 H 0.14 2.38 8.14 -2.39 -0.02 2.36 16 37 H 0.10 2.33 7.73 -2.39 -0.02 2.31 16 38 H 0.08 2.35 7.76 -2.40 -0.02 2.34 16 39 H 0.11 2.92 5.88 -2.91 -0.02 2.90 16 40 H 0.14 2.46 8.06 -2.91 -0.02 2.44 16 41 H 0.15 1.76 8.06 -2.91 -0.02 1.74 16 42 H 0.16 1.63 8.06 -2.91 -0.02 1.61 16 43 H 0.14 2.37 8.06 -2.91 -0.02 2.35 16 Total: -1.00 -62.55 361.18 3.70 -58.86 By element: Atomic # 1 Polarization: 17.06 SS G_CDS: 0.95 Total: 18.01 kcal Atomic # 6 Polarization: -20.86 SS G_CDS: 6.20 Total: -14.67 kcal Atomic # 7 Polarization: -100.09 SS G_CDS: -3.89 Total: -103.98 kcal Atomic # 14 Polarization: 43.00 SS G_CDS: 1.67 Total: 44.68 kcal Atomic # 16 Polarization: -1.66 SS G_CDS: -1.24 Total: -2.90 kcal Total: -62.55 3.70 -58.86 kcal The number of atoms in the molecule is 43 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. ZINC001650041008.mol2 43 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 214.344 kcal (2) G-P(sol) polarization free energy of solvation -62.555 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 151.789 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.698 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -58.857 kcal (6) G-S(sol) free energy of system = (1) + (5) 155.487 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.86 seconds