Wall clock time and date at job start Tue Mar 31 2020 03:54:01 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 1.31521 * 1 3 3 Si 1.86798 * 119.99515 * 2 1 4 4 H 1.48500 * 109.47168 * 240.00272 * 3 2 1 5 5 H 1.48496 * 109.47557 * 0.02562 * 3 2 1 6 6 H 1.48504 * 109.46895 * 120.00306 * 3 2 1 7 7 C 1.37873 * 120.00368 * 180.02562 * 2 1 3 8 8 H 1.07996 * 120.00044 * 179.97438 * 7 2 1 9 9 S 1.76201 * 119.99747 * 359.97438 * 7 2 1 10 10 O 1.42096 * 106.40266 * 66.46464 * 9 7 2 11 11 O 1.42099 * 106.40440 * 293.54313 * 9 7 2 12 12 N 1.65598 * 107.21734 * 180.02562 * 9 7 2 13 13 C 1.47082 * 120.88125 * 90.00167 * 12 9 7 14 14 C 1.53243 * 108.52229 * 231.16139 * 13 12 9 15 15 N 1.46895 * 109.34053 * 306.17241 * 14 13 12 16 16 C 1.39001 * 111.00005 * 187.25000 * 15 14 13 17 17 C 1.39335 * 120.09360 * 179.97438 * 16 15 14 18 18 N 1.31919 * 119.88981 * 180.02562 * 17 16 15 19 19 C 1.32271 * 120.08514 * 0.02562 * 18 17 16 20 20 C 1.38163 * 120.19710 * 359.97438 * 19 18 17 21 21 N 1.32254 * 120.10199 * 359.97438 * 20 19 18 22 22 C 1.46899 * 111.27335 * 63.10229 * 15 14 13 23 23 C 1.47080 * 120.88184 * 269.98036 * 12 9 7 24 24 H 0.96994 * 120.00171 * 359.97438 * 1 2 3 25 25 H 1.09004 * 109.62928 * 111.45626 * 13 12 9 26 26 H 1.08993 * 109.62829 * 350.87034 * 13 12 9 27 27 H 1.08999 * 109.49168 * 186.20703 * 14 13 12 28 28 H 1.09004 * 109.51303 * 66.14146 * 14 13 12 29 29 H 1.08003 * 120.05849 * 0.02562 * 17 16 15 30 30 H 1.08008 * 119.90778 * 180.02562 * 19 18 17 31 31 H 1.07995 * 119.94994 * 180.27794 * 20 19 18 32 32 H 1.09002 * 109.49252 * 56.84840 * 22 15 14 33 33 H 1.08998 * 109.50024 * 176.93633 * 22 15 14 34 34 H 1.09004 * 109.62886 * 248.54220 * 23 12 9 35 35 H 1.08996 * 109.63019 * 9.12428 * 23 12 9 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 1.3152 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 3.1028 1.6966 -1.2125 5 1 1.2841 2.7465 0.0006 6 1 3.1029 1.6965 1.2125 7 6 2.0047 -1.1940 -0.0005 8 1 3.0846 -1.1939 -0.0010 9 16 1.1237 -2.7199 -0.0005 10 8 0.4512 -2.7950 -1.2500 11 8 0.4520 -2.7955 1.2494 12 7 2.2485 -3.9353 -0.0005 13 6 2.7612 -4.4894 1.2618 14 6 4.2928 -4.4780 1.2119 15 7 4.7452 -5.1728 -0.0006 16 6 6.1268 -5.3260 -0.0008 17 6 6.7589 -5.9633 -1.0665 18 7 8.0702 -6.1070 -1.0623 19 6 8.7844 -5.6475 -0.0481 20 6 8.1612 -5.0149 1.0104 21 7 6.8471 -4.8659 1.0135 22 6 4.2925 -4.4782 -1.2133 23 6 2.7609 -4.4896 -1.2628 24 1 -0.4850 0.8400 0.0004 25 1 2.4065 -5.5129 1.3833 26 1 2.4175 -3.8782 2.0962 27 1 4.6891 -4.9855 2.0914 28 1 4.6489 -3.4479 1.1950 29 1 6.1763 -6.3391 -1.8946 30 1 9.8579 -5.7663 -0.0478 31 1 8.7486 -4.6373 1.8342 32 1 4.6481 -3.4480 -1.1965 33 1 4.6886 -4.9859 -2.0927 34 1 2.4062 -5.5132 -1.3840 35 1 2.4170 -3.8787 -2.0974 RHF calculation, no. of doubly occupied orbitals= 52 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 ZINC001192933561.mol2 35 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 03:54:01 Heat of formation + Delta-G solvation = -45.611498 kcal Electronic energy + Delta-G solvation = -22412.146659 eV Core-core repulsion = 18957.198828 eV Total energy + Delta-G solvation = -3454.947832 eV No. of doubly occupied orbitals = 52 Molecular weight (most abundant/longest-lived isotopes) = 298.089 amu Computer time = 0.52 seconds Orbital eigenvalues (eV) -42.24065 -39.80507 -37.49356 -36.20362 -36.09571 -35.19090 -34.77976 -32.26408 -31.36451 -28.28077 -27.57765 -26.13127 -24.20253 -24.07675 -21.91135 -20.50200 -19.51609 -18.64851 -18.47802 -17.96789 -17.46548 -16.93499 -16.70855 -16.35131 -16.07270 -15.60161 -15.47893 -15.27511 -15.21503 -14.54884 -13.99469 -13.86165 -13.52633 -13.45170 -13.07133 -13.03745 -12.73510 -12.53432 -12.44228 -12.36172 -12.31886 -12.29394 -12.15913 -11.76667 -11.26885 -11.20391 -10.95196 -10.06526 -9.89270 -9.24874 -8.76848 -7.50865 -0.12741 0.18493 0.25523 1.30474 1.31863 1.45059 2.16553 2.28348 2.55203 2.77192 2.80805 3.30126 3.43657 3.57478 3.74552 3.79644 3.88018 4.08769 4.22614 4.28443 4.31001 4.32807 4.46378 4.52995 4.57107 4.65748 4.76445 4.86812 5.03224 5.05097 5.24743 5.33525 5.49613 5.86083 5.87096 5.93745 6.41955 6.75808 6.86832 8.18209 Molecular weight = 298.09amu Principal moments of inertia in cm(-1) A = 0.020465 B = 0.004834 C = 0.004337 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1367.868746 B = 5791.349093 C = 6455.238541 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.892 5.892 2 C 0.074 3.926 3 Si 0.985 3.015 4 H -0.252 1.252 5 H -0.261 1.261 6 H -0.253 1.253 7 C -1.039 5.039 8 H 0.112 0.888 9 S 2.721 3.279 10 O -1.036 7.036 11 O -1.039 7.039 12 N -1.013 6.013 13 C 0.125 3.875 14 C 0.064 3.936 15 N -0.465 5.465 16 C 0.253 3.747 17 C 0.035 3.965 18 N -0.439 5.439 19 C 0.013 3.987 20 C 0.079 3.921 21 N -0.504 5.504 22 C 0.049 3.951 23 C 0.123 3.877 24 H 0.299 0.701 25 H 0.087 0.913 26 H 0.084 0.916 27 H 0.105 0.895 28 H 0.042 0.958 29 H 0.187 0.813 30 H 0.202 0.798 31 H 0.200 0.800 32 H 0.043 0.957 33 H 0.128 0.872 34 H 0.094 0.906 35 H 0.091 0.909 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 17.464 -9.314 -0.328 19.795 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 -0.523 5.523 2 C -0.140 4.140 3 Si 0.803 3.197 4 H -0.175 1.175 5 H -0.185 1.185 6 H -0.177 1.177 7 C -1.172 5.172 8 H 0.130 0.870 9 S 2.823 3.177 10 O -1.026 7.026 11 O -1.029 7.029 12 N -0.851 5.851 13 C -0.001 4.001 14 C -0.065 4.065 15 N -0.183 5.183 16 C 0.018 3.982 17 C -0.130 4.130 18 N -0.153 5.153 19 C -0.146 4.146 20 C -0.082 4.082 21 N -0.225 5.225 22 C -0.078 4.078 23 C -0.002 4.002 24 H 0.110 0.890 25 H 0.106 0.894 26 H 0.102 0.898 27 H 0.123 0.877 28 H 0.060 0.940 29 H 0.204 0.796 30 H 0.218 0.782 31 H 0.217 0.783 32 H 0.061 0.939 33 H 0.146 0.854 34 H 0.113 0.887 35 H 0.109 0.891 Dipole moment (debyes) X Y Z Total from point charges 16.020 -9.851 -0.345 18.809 hybrid contribution 0.647 1.836 0.237 1.961 sum 16.667 -8.015 -0.108 18.495 Atomic orbital electron populations 1.69973 1.08641 1.32408 1.41304 1.25939 0.95324 1.05112 0.87593 0.85242 0.78901 0.74992 0.80573 1.17526 1.18534 1.17701 1.30924 1.06728 1.12838 1.66752 0.86951 0.99991 0.72653 0.73535 0.71532 1.93298 1.74269 1.88260 1.46772 1.93297 1.74409 1.88262 1.46919 1.57865 1.61617 1.53494 1.12134 1.21568 0.92930 1.00389 0.85217 1.22284 0.94344 0.97502 0.92367 1.59010 1.05567 1.48478 1.05236 1.21058 0.90074 0.94574 0.92457 1.23506 0.91434 0.99047 0.98968 1.68412 1.06519 1.14556 1.25819 1.24127 1.03115 0.97008 0.90380 1.24179 0.89701 0.94578 0.99735 1.68411 1.08988 1.18029 1.27056 1.22765 0.95907 0.97444 0.91643 1.21602 0.92423 1.00995 0.85188 0.89041 0.89444 0.89755 0.87712 0.93973 0.79611 0.78151 0.78336 0.93902 0.85400 0.88742 0.89083 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 18. 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 -0.89 -52.97 13.19 21.45 0.28 -52.69 16 2 C 0.07 4.07 5.46 84.65 0.46 4.53 16 3 Si 0.98 41.20 29.54 68.60 2.03 43.23 16 4 H -0.25 -9.90 7.11 99.48 0.71 -9.20 16 5 H -0.26 -10.23 7.11 99.48 0.71 -9.53 16 6 H -0.25 -10.05 7.11 99.48 0.71 -9.35 16 7 C -1.04 -56.83 9.75 67.73 0.66 -56.17 16 8 H 0.11 5.62 7.81 -2.91 -0.02 5.59 16 9 S 2.72 144.99 4.98 -56.49 -0.28 144.71 16 10 O -1.04 -60.55 16.80 -128.00 -2.15 -62.70 16 11 O -1.04 -61.51 16.80 -128.00 -2.15 -63.66 16 12 N -1.01 -39.85 3.33 -512.15 -1.71 -41.56 16 13 C 0.12 4.19 6.53 86.35 0.56 4.75 16 14 C 0.06 1.86 4.83 86.39 0.42 2.28 16 15 N -0.47 -12.12 4.66 -700.51 -3.26 -15.38 16 16 C 0.25 6.15 6.40 133.04 0.85 7.01 16 17 C 0.03 0.72 10.33 84.94 0.88 1.60 16 18 N -0.44 -9.02 10.49 -194.66 -2.04 -11.06 16 19 C 0.01 0.20 11.21 84.61 0.95 1.15 16 20 C 0.08 1.33 11.22 84.61 0.95 2.28 16 21 N -0.50 -12.20 8.85 -192.64 -1.71 -13.91 16 22 C 0.05 1.26 5.42 86.39 0.47 1.73 16 23 C 0.12 3.85 6.53 86.35 0.56 4.42 16 24 H 0.30 16.00 8.31 -92.71 -0.77 15.22 16 25 H 0.09 2.57 8.14 -2.39 -0.02 2.55 16 26 H 0.08 3.07 7.22 -2.39 -0.02 3.06 16 27 H 0.10 2.78 7.66 -2.39 -0.02 2.76 16 28 H 0.04 1.37 8.14 -2.39 -0.02 1.35 16 29 H 0.19 3.02 7.15 -2.91 -0.02 3.00 16 30 H 0.20 1.54 8.06 -2.91 -0.02 1.52 16 31 H 0.20 1.87 8.06 -2.91 -0.02 1.85 16 32 H 0.04 1.23 8.14 -2.39 -0.02 1.21 16 33 H 0.13 2.28 6.65 -2.39 -0.02 2.27 16 34 H 0.09 2.50 8.14 -2.38 -0.02 2.49 16 35 H 0.09 3.04 7.22 -2.39 -0.02 3.02 16 Total: -1.00 -78.50 308.32 -3.11 -81.61 By element: Atomic # 1 Polarization: 16.72 SS G_CDS: 1.11 Total: 17.83 kcal Atomic # 6 Polarization: -33.19 SS G_CDS: 6.76 Total: -26.43 kcal Atomic # 7 Polarization: -126.16 SS G_CDS: -8.43 Total: -134.59 kcal Atomic # 8 Polarization: -122.06 SS G_CDS: -4.30 Total: -126.36 kcal Atomic # 14 Polarization: 41.20 SS G_CDS: 2.03 Total: 43.23 kcal Atomic # 16 Polarization: 144.99 SS G_CDS: -0.28 Total: 144.71 kcal Total: -78.50 -3.11 -81.61 kcal The number of atoms in the molecule is 35 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. ZINC001192933561.mol2 35 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 35.995 kcal (2) G-P(sol) polarization free energy of solvation -78.495 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -42.501 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.111 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -81.606 kcal (6) G-S(sol) free energy of system = (1) + (5) -45.611 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.52 seconds