Wall clock time and date at job start Tue Mar 31 2020 22:21:09 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 1.86798 * 120.00131 * 2 1 4 4 H 1.48504 * 109.47123 * 269.99655 * 3 2 1 5 5 H 1.48501 * 109.47018 * 29.99561 * 3 2 1 6 6 H 1.48501 * 109.47300 * 149.99490 * 3 2 1 7 7 C 1.38798 * 119.99985 * 179.97438 * 2 1 3 8 8 H 1.07998 * 119.99990 * 180.02562 * 7 2 1 9 9 S 1.76202 * 119.99764 * 0.02562 * 7 2 1 10 10 C 1.81001 * 99.99682 * 180.02562 * 9 7 2 11 11 C 1.50708 * 109.47180 * 180.02562 * 10 9 7 12 12 O 1.21288 * 119.99403 * 359.97438 * 11 10 9 13 13 N 1.34765 * 120.00312 * 179.97438 * 11 10 9 14 14 C 1.46505 * 120.00247 * 180.02562 * 13 11 10 15 15 C 1.53779 * 113.61157 * 204.99983 * 14 13 11 16 16 C 1.53790 * 87.07747 * 219.93304 * 15 14 13 17 17 C 1.53001 * 113.61238 * 139.98745 * 16 15 14 18 18 N 1.46491 * 109.47147 * 175.00127 * 17 16 15 19 19 C 1.38995 * 120.00432 * 179.97438 * 18 17 16 20 20 C 1.39069 * 119.68524 * 359.97438 * 19 18 17 21 21 C 1.38380 * 119.15738 * 179.97438 * 20 19 18 22 22 C 1.38757 * 118.53396 * 0.25426 * 21 20 19 23 23 C 1.38375 * 119.30154 * 359.47728 * 22 21 20 24 24 F 1.35104 * 119.59988 * 180.25841 * 23 22 21 25 25 N 1.32134 * 120.79616 * 0.53193 * 23 22 21 26 26 C 1.53777 * 87.07956 * 25.43559 * 16 15 14 27 27 H 0.97004 * 119.99466 * 0.02562 * 1 2 3 28 28 H 1.09003 * 109.47560 * 60.00497 * 10 9 7 29 29 H 1.09002 * 109.47569 * 299.99909 * 10 9 7 30 30 H 0.97005 * 120.00209 * 0.02562 * 13 11 10 31 31 H 1.08999 * 112.84330 * 336.19551 * 14 13 11 32 32 H 1.09005 * 113.61274 * 105.38751 * 15 14 13 33 33 H 1.08998 * 113.61850 * 334.48046 * 15 14 13 34 34 H 1.09004 * 113.61340 * 270.80025 * 16 15 14 35 35 H 1.08999 * 109.47326 * 54.99384 * 17 16 15 36 36 H 1.09006 * 109.46790 * 294.99452 * 17 16 15 37 37 H 0.97003 * 120.00140 * 359.97438 * 18 17 16 38 38 H 1.08000 * 120.42646 * 0.02562 * 20 19 18 39 39 H 1.08002 * 120.73050 * 179.97438 * 21 20 19 40 40 H 1.07994 * 120.34994 * 179.75200 * 22 21 20 41 41 H 1.08997 * 113.61761 * 89.11561 * 26 16 15 42 42 H 1.09003 * 113.61087 * 220.01565 * 26 16 15 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 2.2504 1.6177 0.0000 4 1 2.4980 2.0463 -1.4001 5 1 1.4478 2.6527 0.7000 6 1 3.5479 1.4402 0.7001 7 6 2.0103 -1.2020 0.0005 8 1 3.0903 -1.2020 0.0010 9 16 1.1292 -2.7279 0.0005 10 6 2.5158 -3.8914 0.0021 11 6 1.9873 -5.3028 0.0017 12 8 0.7910 -5.5022 0.0009 13 7 2.8440 -6.3431 0.0022 14 6 2.3302 -7.7151 0.0012 15 6 3.3096 -8.7400 0.5974 16 6 2.8722 -9.6941 -0.5266 17 6 4.0236 -10.5043 -1.1255 18 7 3.4924 -11.4629 -2.0976 19 6 4.3556 -12.3149 -2.7766 20 6 5.7225 -12.2514 -2.5284 21 6 6.5718 -13.1051 -3.2101 22 6 6.0246 -13.9936 -4.1247 23 6 4.6546 -14.0076 -4.3189 24 9 4.1148 -14.8738 -5.2041 25 7 3.8685 -13.1802 -3.6530 26 6 2.5107 -8.4415 -1.3421 27 1 -0.4849 0.8401 -0.0004 28 1 3.1237 -3.7310 0.8926 29 1 3.1252 -3.7318 -0.8874 30 1 3.8008 -6.1835 0.0032 31 1 1.3208 -7.7893 0.4057 32 1 3.0305 -9.0822 1.5939 33 1 4.3542 -8.4360 0.5302 34 1 2.0117 -10.3105 -0.2660 35 1 4.5416 -11.0416 -0.3311 36 1 4.7212 -9.8308 -1.6235 37 1 2.5382 -11.5031 -2.2675 38 1 6.1161 -11.5454 -1.8122 39 1 7.6376 -13.0773 -3.0375 40 1 6.6607 -14.6702 -4.6759 41 1 3.3368 -8.0559 -1.9395 42 1 1.5866 -8.5428 -1.9113 RHF calculation, no. of doubly occupied orbitals= 60 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) F: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988). 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 ZINC001112832828.mol2 42 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 22:21:09 Heat of formation + Delta-G solvation = -45.901422 kcal Electronic energy + Delta-G solvation = -24704.678133 eV Core-core repulsion = 20725.070478 eV Total energy + Delta-G solvation = -3979.607655 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.116 amu Computer time = 0.62 seconds Orbital eigenvalues (eV) -50.01432 -41.30945 -40.91970 -39.46314 -36.57444 -34.59691 -34.46634 -33.51375 -31.18867 -30.35371 -28.06326 -27.62157 -26.63503 -24.71376 -24.01547 -22.92468 -21.65720 -20.75471 -19.76051 -19.01556 -18.66279 -17.82620 -17.36359 -17.10408 -16.91376 -16.87696 -16.63285 -16.38431 -16.34012 -15.89360 -15.67096 -15.31706 -14.76049 -14.52037 -14.42129 -14.26502 -14.03573 -13.67441 -13.37735 -13.33701 -13.16476 -13.06884 -12.89522 -12.81765 -12.64029 -12.19913 -11.73428 -11.63804 -11.48884 -11.16131 -11.14252 -10.87874 -10.71197 -10.58925 -10.26976 -9.98756 -8.73800 -8.66788 -8.34672 -6.12878 0.10383 0.39468 1.27954 1.42659 1.48109 1.58208 1.61796 1.92021 2.27051 2.35819 2.75173 2.95758 2.99614 3.32848 3.50760 3.59559 3.74621 3.81702 3.88926 3.99411 4.00659 4.21441 4.31446 4.32568 4.36522 4.49315 4.52000 4.71227 4.80222 4.81581 4.86750 4.89778 5.00267 5.07216 5.14164 5.26736 5.33132 5.41851 5.56953 5.65352 5.97960 6.19770 6.43665 6.56520 6.96872 7.06696 7.29387 8.74525 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.025809 B = 0.001499 C = 0.001482 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1084.631339 B =18676.557192 C =18893.779451 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 0.999 3.001 4 H -0.268 1.268 5 H -0.278 1.278 6 H -0.257 1.257 7 C -0.546 4.546 8 H 0.084 0.916 9 S -0.156 6.156 10 C -0.130 4.130 11 C 0.533 3.467 12 O -0.570 6.570 13 N -0.700 5.700 14 C 0.106 3.894 15 C -0.113 4.113 16 C -0.106 4.106 17 C 0.142 3.858 18 N -0.720 5.720 19 C 0.420 3.580 20 C -0.246 4.246 21 C -0.002 4.002 22 C -0.254 4.254 23 C 0.321 3.679 24 F -0.129 7.129 25 N -0.618 5.618 26 C -0.147 4.147 27 H 0.271 0.729 28 H 0.111 0.889 29 H 0.109 0.891 30 H 0.418 0.582 31 H 0.087 0.913 32 H 0.088 0.912 33 H 0.116 0.884 34 H 0.102 0.898 35 H 0.088 0.912 36 H 0.081 0.919 37 H 0.404 0.596 38 H 0.167 0.833 39 H 0.182 0.818 40 H 0.163 0.837 41 H 0.096 0.904 42 H 0.054 0.946 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 20.031 -27.928 -2.129 34.434 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 -0.192 4.192 3 Si 0.821 3.179 4 H -0.194 1.194 5 H -0.204 1.204 6 H -0.181 1.181 7 C -0.694 4.694 8 H 0.102 0.898 9 S 0.071 5.929 10 C -0.281 4.281 11 C 0.319 3.681 12 O -0.448 6.448 13 N -0.353 5.353 14 C 0.001 3.999 15 C -0.151 4.151 16 C -0.125 4.125 17 C 0.019 3.981 18 N -0.351 5.351 19 C 0.183 3.817 20 C -0.271 4.271 21 C -0.027 4.027 22 C -0.278 4.278 23 C 0.168 3.832 24 F -0.108 7.108 25 N -0.343 5.343 26 C -0.186 4.186 27 H 0.080 0.920 28 H 0.129 0.871 29 H 0.128 0.872 30 H 0.256 0.744 31 H 0.105 0.895 32 H 0.106 0.894 33 H 0.135 0.865 34 H 0.120 0.880 35 H 0.106 0.894 36 H 0.099 0.901 37 H 0.239 0.761 38 H 0.184 0.816 39 H 0.199 0.801 40 H 0.181 0.819 41 H 0.114 0.886 42 H 0.072 0.928 Dipole moment (debyes) X Y Z Total from point charges 17.101 -28.088 -2.146 32.954 hybrid contribution 1.421 1.144 -0.433 1.875 sum 18.522 -26.944 -2.579 32.797 Atomic orbital electron populations 1.70192 1.08016 1.28585 1.48040 1.26139 0.95956 1.03363 0.93738 0.84947 0.78237 0.75984 0.78768 1.19373 1.20366 1.18055 1.23215 0.95377 0.91982 1.58833 0.89803 1.85611 1.10838 0.99394 1.97057 1.23391 1.03427 0.94487 1.06811 1.20122 0.86352 0.86865 0.74800 1.90690 1.17660 1.86137 1.50358 1.45732 1.10043 1.04708 1.74831 1.22623 0.99437 0.79483 0.98343 1.23281 1.00402 0.92854 0.98606 1.22451 0.98952 0.94417 0.96717 1.21579 0.95778 0.90023 0.90725 1.44775 1.08907 1.37784 1.43665 1.18196 0.89232 0.86910 0.87343 1.21812 0.91110 1.06472 1.07693 1.21689 1.02067 0.89373 0.89547 1.21795 0.92429 1.07018 1.06559 1.18074 0.88990 0.87826 0.88270 1.91583 1.87849 1.66195 1.65160 1.66108 1.42881 1.11122 1.14231 1.23595 1.02272 0.96039 0.96693 0.92028 0.87077 0.87246 0.74432 0.89521 0.89377 0.86543 0.88028 0.89358 0.90132 0.76132 0.81581 0.80052 0.81936 0.88586 0.92750 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 -55.94 13.22 21.65 0.29 -55.66 16 2 C 0.01 0.72 5.49 84.86 0.47 1.19 16 3 Si 1.00 43.17 29.55 68.60 2.03 45.20 16 4 H -0.27 -11.16 7.11 99.48 0.71 -10.45 16 5 H -0.28 -11.76 7.11 99.48 0.71 -11.05 16 6 H -0.26 -10.34 7.11 99.48 0.71 -9.63 16 7 C -0.55 -30.93 9.50 67.95 0.65 -30.28 16 8 H 0.08 4.37 7.80 -2.91 -0.02 4.35 16 9 S -0.16 -8.62 20.57 -56.49 -1.16 -9.78 16 10 C -0.13 -4.97 6.16 71.24 0.44 -4.53 16 11 C 0.53 18.81 7.85 87.66 0.69 19.50 16 12 O -0.57 -26.05 15.46 -3.05 -0.05 -26.09 16 13 N -0.70 -15.43 5.36 -440.03 -2.36 -17.79 16 14 C 0.11 1.96 4.24 45.52 0.19 2.16 16 15 C -0.11 -0.96 7.39 31.12 0.23 -0.73 16 16 C -0.11 -0.92 3.75 -10.27 -0.04 -0.96 16 17 C 0.14 0.90 4.73 86.38 0.41 1.31 16 18 N -0.72 -8.82 5.73 -345.12 -1.98 -10.80 16 19 C 0.42 6.61 7.65 133.04 1.02 7.63 16 20 C -0.25 -2.35 9.32 22.50 0.21 -2.14 16 21 C 0.00 -0.01 10.16 22.43 0.23 0.22 16 22 C -0.25 -3.03 10.08 22.43 0.23 -2.80 16 23 C 0.32 6.25 8.41 84.68 0.71 6.96 16 24 F -0.13 -2.76 17.29 44.97 0.78 -1.98 16 25 N -0.62 -13.35 10.40 -194.33 -2.02 -15.37 16 26 C -0.15 -2.21 7.43 31.12 0.23 -1.98 16 27 H 0.27 15.41 8.31 -92.71 -0.77 14.64 16 28 H 0.11 3.77 8.14 -2.39 -0.02 3.75 16 29 H 0.11 3.74 8.14 -2.39 -0.02 3.72 16 30 H 0.42 5.95 8.73 -92.70 -0.81 5.14 16 31 H 0.09 2.16 7.46 -2.39 -0.02 2.15 16 32 H 0.09 0.70 8.14 -2.38 -0.02 0.68 16 33 H 0.12 0.45 8.08 -2.39 -0.02 0.43 16 34 H 0.10 0.95 8.14 -2.38 -0.02 0.93 16 35 H 0.09 0.28 7.93 -2.39 -0.02 0.27 16 36 H 0.08 0.38 7.63 -2.38 -0.02 0.36 16 37 H 0.40 5.54 8.60 -92.71 -0.80 4.75 16 38 H 0.17 0.60 6.70 -2.91 -0.02 0.58 16 39 H 0.18 -0.05 8.06 -2.91 -0.02 -0.08 16 40 H 0.16 1.15 8.06 -2.91 -0.02 1.13 16 41 H 0.10 1.30 7.90 -2.39 -0.02 1.28 16 42 H 0.05 1.04 8.14 -2.39 -0.02 1.02 16 Total: -1.00 -83.42 377.02 0.65 -82.78 By element: Atomic # 1 Polarization: 14.50 SS G_CDS: -0.54 Total: 13.97 kcal Atomic # 6 Polarization: -10.13 SS G_CDS: 5.66 Total: -4.47 kcal Atomic # 7 Polarization: -93.55 SS G_CDS: -6.07 Total: -99.62 kcal Atomic # 8 Polarization: -26.05 SS G_CDS: -0.05 Total: -26.09 kcal Atomic # 9 Polarization: -2.76 SS G_CDS: 0.78 Total: -1.98 kcal Atomic # 14 Polarization: 43.17 SS G_CDS: 2.03 Total: 45.20 kcal Atomic # 16 Polarization: -8.62 SS G_CDS: -1.16 Total: -9.78 kcal Total: -83.42 0.65 -82.78 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. ZINC001112832828.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 36.874 kcal (2) G-P(sol) polarization free energy of solvation -83.421 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -46.547 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.645 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -82.776 kcal (6) G-S(sol) free energy of system = (1) + (5) -45.901 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.62 seconds