Wall clock time and date at job start Mon Mar 30 2020 06:40:20 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 1.31514 * 1 3 3 Si 1.86792 * 120.00258 * 2 1 4 4 H 1.48501 * 109.47429 * 272.76325 * 3 2 1 5 5 H 1.48493 * 109.47335 * 32.76539 * 3 2 1 6 6 H 1.48506 * 109.47061 * 152.76913 * 3 2 1 7 7 C 1.37880 * 119.99339 * 180.02562 * 2 1 3 8 8 H 1.07993 * 120.00320 * 354.27282 * 7 2 1 9 9 C 1.50705 * 119.99918 * 174.28030 * 7 2 1 10 10 C 1.52997 * 115.54818 * 90.78696 * 9 7 2 11 11 S 1.81394 * 109.47253 * 40.03567 * 10 9 7 12 12 O 1.42104 * 109.47004 * 69.32455 * 11 10 9 13 13 C 1.81406 * 103.00130 * 185.70808 * 11 10 9 14 14 C 1.52995 * 109.47303 * 305.00400 * 13 11 10 15 15 C 1.53000 * 109.47286 * 179.97438 * 14 13 11 16 16 C 1.53000 * 109.46903 * 59.99684 * 15 14 13 17 17 C 1.53002 * 109.47487 * 299.99967 * 16 15 14 18 18 C 1.53000 * 109.47063 * 184.99976 * 13 11 10 19 19 C 1.53005 * 117.49444 * 305.12178 * 9 7 2 20 20 C 1.52999 * 60.02818 * 252.47534 * 19 9 7 21 21 H 0.97009 * 119.99764 * 359.97438 * 1 2 3 22 22 H 1.09008 * 109.46922 * 160.03432 * 10 9 7 23 23 H 1.08999 * 109.47527 * 280.03082 * 10 9 7 24 24 H 1.08999 * 109.46541 * 65.00149 * 13 11 10 25 25 H 1.09006 * 109.46778 * 299.99220 * 14 13 11 26 26 H 1.09000 * 109.47437 * 59.99633 * 14 13 11 27 27 H 1.08997 * 109.47230 * 299.99782 * 15 14 13 28 28 H 1.08994 * 109.47138 * 179.97438 * 15 14 13 29 29 H 1.09008 * 109.46768 * 180.02562 * 16 15 14 30 30 H 1.08999 * 109.47301 * 60.00520 * 16 15 14 31 31 H 1.09006 * 109.46962 * 300.00729 * 17 16 15 32 32 H 1.08992 * 109.47454 * 180.02562 * 17 16 15 33 33 H 1.09007 * 109.47054 * 299.99951 * 18 13 11 34 34 H 1.08997 * 109.47098 * 60.00135 * 18 13 11 35 35 H 1.09000 * 117.50036 * 359.97438 * 19 9 7 36 36 H 1.09001 * 117.49310 * 144.97232 * 19 9 7 37 37 H 1.09003 * 117.49834 * 107.50406 * 20 19 9 38 38 H 1.09002 * 117.49549 * 252.52426 * 20 19 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 1.3151 0.0000 0.0000 3 14 2.2492 1.6176 0.0000 4 1 2.4383 2.0801 -1.3984 5 1 1.4772 2.6350 0.7577 6 1 3.5748 1.4238 0.6407 7 6 2.0044 -1.1942 -0.0005 8 1 1.4684 -2.1271 0.0924 9 6 3.5058 -1.1975 -0.1306 10 6 4.2824 -1.1497 1.1868 11 16 3.4620 -2.2075 2.4109 12 8 3.6131 -3.5700 2.0367 13 6 4.4080 -1.8882 3.9255 14 6 5.8921 -2.1541 3.6656 15 6 6.6900 -1.8842 4.9428 16 6 6.1942 -2.8065 6.0583 17 6 4.7101 -2.5405 6.3184 18 6 3.9121 -2.8109 5.0406 19 6 4.1121 -0.4740 -1.3348 20 6 4.1145 -2.0030 -1.2811 21 1 -0.4850 0.8401 0.0004 22 1 5.2994 -1.5059 1.0221 23 1 4.3117 -0.1240 1.5543 24 1 4.2723 -0.8493 4.2263 25 1 6.0277 -3.1931 3.3648 26 1 6.2453 -1.4967 2.8711 27 1 6.5543 -0.8452 5.2433 28 1 7.7471 -2.0741 4.7578 29 1 6.7624 -2.6138 6.9685 30 1 6.3300 -3.8455 5.7580 31 1 4.5744 -1.5015 6.6187 32 1 4.3570 -3.1973 7.1133 33 1 2.8547 -2.6213 5.2258 34 1 4.0477 -3.8497 4.7398 35 1 3.4251 0.0040 -2.0330 36 1 5.0641 0.0363 -1.1882 37 1 3.4291 -2.5310 -1.9440 38 1 5.0681 -2.4987 -1.0989 RHF calculation, no. of doubly occupied orbitals= 46 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 ZINC000088272328.mol2 38 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 06:40:20 Heat of formation + Delta-G solvation = -58.143103 kcal Electronic energy + Delta-G solvation = -17756.075002 eV Core-core repulsion = 15110.110398 eV Total energy + Delta-G solvation = -2645.964604 eV No. of doubly occupied orbitals = 46 Molecular weight (most abundant/longest-lived isotopes) = 256.124 amu Computer time = 0.37 seconds Orbital eigenvalues (eV) -39.11970 -38.70434 -36.50425 -34.19991 -31.88572 -31.67797 -29.62695 -27.43111 -23.64901 -23.53421 -23.32562 -20.99425 -20.66700 -18.66634 -17.97413 -16.89726 -16.79817 -15.88025 -15.79306 -15.31086 -15.13828 -15.06598 -14.73273 -14.57241 -14.13257 -13.71707 -13.49475 -13.21619 -13.08235 -12.95309 -12.43275 -12.26618 -12.10077 -12.07454 -11.96176 -11.69598 -11.54198 -11.38929 -11.08873 -11.06366 -10.70039 -10.50079 -10.07985 -8.72775 -8.21526 -6.33976 0.82125 1.47908 1.52037 1.64403 2.09302 2.47549 2.99979 3.13920 3.23617 3.72649 3.75050 3.98928 4.04207 4.25449 4.29673 4.32362 4.42423 4.47551 4.55409 4.58721 4.62987 4.67828 4.79715 4.81035 4.92333 5.01777 5.03647 5.13242 5.20377 5.24784 5.25587 5.31203 5.33735 5.40412 5.52204 5.75997 6.36181 6.75676 7.38625 8.92773 Molecular weight = 256.12amu Principal moments of inertia in cm(-1) A = 0.026980 B = 0.006916 C = 0.006665 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1037.550579 B = 4047.534701 C = 4199.870070 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.933 5.933 2 C 0.043 3.957 3 Si 0.927 3.073 4 H -0.280 1.280 5 H -0.285 1.285 6 H -0.217 1.217 7 C -0.509 4.509 8 H 0.036 0.964 9 C 0.001 3.999 10 C -0.393 4.393 11 S 1.274 4.726 12 O -0.916 6.916 13 C -0.421 4.421 14 C -0.117 4.117 15 C -0.111 4.111 16 C -0.122 4.122 17 C -0.109 4.109 18 C -0.101 4.101 19 C -0.181 4.181 20 C -0.189 4.189 21 H 0.271 0.729 22 H 0.075 0.925 23 H 0.132 0.868 24 H 0.149 0.851 25 H 0.032 0.968 26 H 0.066 0.934 27 H 0.080 0.920 28 H 0.063 0.937 29 H 0.080 0.920 30 H 0.043 0.957 31 H 0.082 0.918 32 H 0.072 0.928 33 H 0.085 0.915 34 H 0.036 0.964 35 H 0.079 0.921 36 H 0.103 0.897 37 H 0.072 0.928 38 H 0.084 0.916 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 11.306 3.082 12.258 16.958 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 -0.570 5.570 2 C -0.157 4.157 3 Si 0.751 3.249 4 H -0.206 1.206 5 H -0.212 1.212 6 H -0.140 1.140 7 C -0.547 4.547 8 H 0.054 0.946 9 C -0.001 4.001 10 C -0.532 4.532 11 S 1.478 4.522 12 O -0.911 6.911 13 C -0.538 4.538 14 C -0.155 4.155 15 C -0.150 4.150 16 C -0.159 4.159 17 C -0.148 4.148 18 C -0.139 4.139 19 C -0.219 4.219 20 C -0.226 4.226 21 H 0.080 0.920 22 H 0.093 0.907 23 H 0.150 0.850 24 H 0.167 0.833 25 H 0.051 0.949 26 H 0.085 0.915 27 H 0.099 0.901 28 H 0.082 0.918 29 H 0.098 0.902 30 H 0.062 0.938 31 H 0.100 0.900 32 H 0.091 0.909 33 H 0.103 0.897 34 H 0.055 0.945 35 H 0.097 0.903 36 H 0.121 0.879 37 H 0.091 0.909 38 H 0.102 0.898 Dipole moment (debyes) X Y Z Total from point charges 10.360 2.525 12.141 16.159 hybrid contribution 1.922 -0.301 -1.023 2.198 sum 12.283 2.223 11.118 16.715 Atomic orbital electron populations 1.70035 1.08343 1.28615 1.50031 1.25710 0.95022 1.02465 0.92524 0.86079 0.81328 0.78576 0.78963 1.20643 1.21153 1.13976 1.20317 0.88491 0.93379 1.52506 0.94581 1.18869 0.93166 1.01890 0.86187 1.27215 1.05330 1.12138 1.08503 1.70865 1.07634 0.87032 0.86679 1.92893 1.83323 1.32437 1.82492 1.27811 1.04127 1.07972 1.13883 1.21623 0.94284 1.00013 0.99585 1.21508 0.98608 1.00869 0.93973 1.21566 0.96717 0.98803 0.98828 1.21514 0.94386 1.02988 0.95894 1.21256 1.01034 0.97121 0.94507 1.23017 1.02028 0.94046 1.02808 1.22911 1.01235 0.93892 1.04610 0.91977 0.90658 0.84960 0.83297 0.94932 0.91544 0.90119 0.91833 0.90178 0.93820 0.89959 0.90908 0.89667 0.94506 0.90266 0.87874 0.90924 0.89773 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 N -0.93 -53.45 13.96 21.45 0.30 -53.16 16 2 C 0.04 2.29 5.46 84.66 0.46 2.75 16 3 Si 0.93 39.00 25.04 68.60 1.72 40.72 16 4 H -0.28 -11.90 7.11 99.48 0.71 -11.19 16 5 H -0.29 -11.75 7.11 99.48 0.71 -11.04 16 6 H -0.22 -7.79 5.41 99.48 0.54 -7.26 16 7 C -0.51 -27.14 8.14 25.60 0.21 -26.93 16 8 H 0.04 2.22 8.06 -2.91 -0.02 2.20 16 9 C 0.00 0.03 1.12 -52.90 -0.06 -0.03 16 10 C -0.39 -14.65 5.11 71.98 0.37 -14.28 16 11 S 1.27 47.83 11.53 -56.49 -0.65 47.18 16 12 O -0.92 -45.26 18.13 -148.98 -2.70 -47.96 16 13 C -0.42 -11.31 2.71 30.59 0.08 -11.23 16 14 C -0.12 -3.15 4.97 30.59 0.15 -2.99 16 15 C -0.11 -2.27 5.92 30.59 0.18 -2.09 16 16 C -0.12 -2.36 5.92 30.59 0.18 -2.18 16 17 C -0.11 -2.09 5.93 30.61 0.18 -1.91 16 18 C -0.10 -2.56 5.20 30.61 0.16 -2.40 16 19 C -0.18 -7.29 7.61 30.60 0.23 -7.06 16 20 C -0.19 -8.18 9.89 30.62 0.30 -7.88 16 21 H 0.27 14.44 8.31 -92.70 -0.77 13.67 16 22 H 0.07 2.63 7.04 -2.39 -0.02 2.61 16 23 H 0.13 4.20 6.41 -2.39 -0.02 4.19 16 24 H 0.15 3.05 8.14 -2.39 -0.02 3.03 16 25 H 0.03 1.05 8.14 -2.38 -0.02 1.03 16 26 H 0.07 1.71 6.66 -2.39 -0.02 1.70 16 27 H 0.08 1.39 8.14 -2.39 -0.02 1.37 16 28 H 0.06 1.20 8.14 -2.39 -0.02 1.18 16 29 H 0.08 1.22 8.14 -2.38 -0.02 1.20 16 30 H 0.04 0.97 8.14 -2.39 -0.02 0.95 16 31 H 0.08 1.31 8.14 -2.38 -0.02 1.29 16 32 H 0.07 1.23 8.14 -2.39 -0.02 1.21 16 33 H 0.08 1.92 8.14 -2.38 -0.02 1.90 16 34 H 0.04 1.13 8.14 -2.39 -0.02 1.11 16 35 H 0.08 3.35 7.13 -2.39 -0.02 3.34 16 36 H 0.10 3.51 8.14 -2.39 -0.02 3.49 16 37 H 0.07 3.31 8.14 -2.39 -0.02 3.29 16 38 H 0.08 3.34 8.09 -2.39 -0.02 3.32 16 Total: -1.00 -68.83 305.66 1.96 -66.87 By element: Atomic # 1 Polarization: 21.73 SS G_CDS: 0.84 Total: 22.57 kcal Atomic # 6 Polarization: -78.68 SS G_CDS: 2.45 Total: -76.23 kcal Atomic # 7 Polarization: -53.45 SS G_CDS: 0.30 Total: -53.16 kcal Atomic # 8 Polarization: -45.26 SS G_CDS: -2.70 Total: -47.96 kcal Atomic # 14 Polarization: 39.00 SS G_CDS: 1.72 Total: 40.72 kcal Atomic # 16 Polarization: 47.83 SS G_CDS: -0.65 Total: 47.18 kcal Total: -68.83 1.96 -66.87 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. ZINC000088272328.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 8.732 kcal (2) G-P(sol) polarization free energy of solvation -68.835 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -60.103 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.960 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -66.875 kcal (6) G-S(sol) free energy of system = (1) + (5) -58.143 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.37 seconds