Wall clock time and date at job start Tue Mar 31 2020 20:23:37 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 1.52999 * 1 3 3 H 1.09003 * 109.46729 * 2 1 4 4 N 1.46500 * 109.46926 * 119.99480 * 2 1 3 5 5 C 1.34776 * 120.00353 * 274.99969 * 4 2 1 6 6 O 1.21279 * 119.99639 * 0.02562 * 5 4 2 7 7 C 1.50700 * 120.00234 * 180.02562 * 5 4 2 8 8 S 1.80995 * 109.47215 * 180.02562 * 7 5 4 9 9 C 1.76201 * 99.99988 * 179.97438 * 8 7 5 10 10 H 1.08001 * 119.99966 * 359.97438 * 9 8 7 11 11 C 1.38794 * 119.99727 * 179.97438 * 9 8 7 12 12 N 1.31643 * 119.99726 * 180.02562 * 11 9 8 13 13 Si 1.86792 * 120.00463 * 359.97438 * 11 9 8 14 14 H 1.48508 * 109.47089 * 89.99864 * 13 11 9 15 15 H 1.48504 * 109.47500 * 210.00006 * 13 11 9 16 16 H 1.48500 * 109.47012 * 330.00168 * 13 11 9 17 17 C 1.52999 * 109.47241 * 239.99754 * 2 1 3 18 18 C 1.53500 * 114.20631 * 174.86712 * 17 2 1 19 19 N 1.47066 * 87.98318 * 220.34811 * 18 17 2 20 20 C 1.34780 * 136.05282 * 207.09005 * 19 18 17 21 21 O 1.21280 * 120.00013 * 359.97438 * 20 19 18 22 22 C 1.50697 * 119.99817 * 179.97438 * 20 19 18 23 23 H 1.08998 * 115.55059 * 325.58009 * 22 20 19 24 24 C 1.53003 * 117.50088 * 111.24980 * 22 20 19 25 25 C 1.52993 * 117.50034 * 179.90912 * 22 20 19 26 26 C 1.52991 * 138.59015 * 121.61548 * 25 22 20 27 27 C 1.52992 * 138.58737 * 23.39861 * 25 22 20 28 28 C 1.47064 * 87.88979 * 27.34240 * 19 18 17 29 29 H 1.08993 * 109.47409 * 64.94831 * 1 2 3 30 30 H 1.09007 * 109.47068 * 184.94591 * 1 2 3 31 31 H 1.09001 * 109.47255 * 304.94421 * 1 2 3 32 32 H 0.97001 * 119.99535 * 95.00966 * 4 2 1 33 33 H 1.09002 * 109.46544 * 299.99910 * 7 5 4 34 34 H 1.09000 * 109.46924 * 59.99546 * 7 5 4 35 35 H 0.97000 * 119.99756 * 180.02562 * 12 11 9 36 36 H 1.09001 * 113.41482 * 308.07016 * 17 2 1 37 37 H 1.08992 * 113.46380 * 105.56366 * 18 17 2 38 38 H 1.09003 * 113.52028 * 335.13413 * 18 17 2 39 39 H 1.08997 * 117.50173 * 214.97777 * 24 22 20 40 40 H 1.08999 * 117.50020 * 359.97438 * 24 22 20 41 41 H 1.08999 * 117.49845 * 336.60095 * 26 25 22 42 42 H 1.09000 * 117.50124 * 121.61849 * 26 25 22 43 43 H 1.09004 * 117.50239 * 238.38397 * 27 25 22 44 44 H 1.09002 * 117.49700 * 23.38669 * 27 25 22 45 45 H 1.08997 * 113.46962 * 87.43364 * 28 19 18 46 46 H 1.08996 * 113.47208 * 217.87953 * 28 19 18 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 7 2.0183 -0.6905 1.1962 5 6 2.1470 -0.0181 2.3572 6 8 1.8582 1.1585 2.4116 7 6 2.6498 -0.7283 3.5876 8 16 2.7099 0.4345 4.9732 9 6 3.3131 -0.6306 6.2406 10 1 3.5225 -1.6670 6.0207 11 6 3.5191 -0.1376 7.5216 12 7 3.9702 -0.9333 8.4684 13 14 3.1576 1.6551 7.9019 14 1 1.7465 1.7925 8.3441 15 1 4.0626 2.1244 8.9817 16 1 3.3760 2.4736 6.6823 17 6 2.0400 -0.7213 -1.2492 18 6 3.5645 -0.6771 -1.4232 19 7 3.3421 -0.4655 -2.8614 20 6 4.0236 -0.7190 -3.9963 21 8 5.1101 -1.2552 -3.9443 22 6 3.4353 -0.3360 -5.3298 23 1 2.3513 -0.4195 -5.4069 24 6 4.1131 0.7981 -6.1015 25 6 4.2586 -0.6483 -6.5810 26 6 4.1166 -1.4469 -7.8782 27 6 5.3689 -1.6077 -7.0140 28 6 2.0520 0.1501 -2.5160 29 1 -0.3634 0.4351 -0.9309 30 1 -0.3633 -1.0239 0.0886 31 1 -0.3634 0.5886 0.8424 32 1 2.2491 -1.6317 1.1527 33 1 1.9775 -1.5506 3.8326 34 1 3.6491 -1.1202 3.3980 35 1 4.1138 -0.5889 9.3637 36 1 1.6029 -1.7102 -1.3872 37 1 4.0550 -1.6231 -1.1943 38 1 4.0345 0.1721 -0.9271 39 1 3.4751 1.4604 -6.6866 40 1 4.9843 1.2675 -5.6445 41 1 3.4019 -2.2699 -7.8868 42 1 4.2196 -0.9037 -8.8175 43 1 6.2958 -1.1702 -7.3848 44 1 5.4783 -2.5363 -6.4539 45 1 2.1223 1.2177 -2.3077 46 1 1.2540 -0.0913 -3.2181 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 ZINC001571933101.mol2 46 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 20:23:37 Heat of formation + Delta-G solvation = -0.036124 kcal Electronic energy + Delta-G solvation = -25765.962341 eV Core-core repulsion = 21977.229771 eV Total energy + Delta-G solvation = -3788.732570 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 338.145 amu Computer time = 0.71 seconds Orbital eigenvalues (eV) -41.79918 -40.68057 -39.72315 -38.10466 -36.16681 -34.66876 -33.68200 -32.76866 -30.50397 -29.68258 -27.85063 -27.03174 -25.61281 -23.78054 -23.31430 -21.80892 -21.58823 -20.69792 -19.85105 -19.58517 -18.27225 -17.85025 -17.69186 -17.09310 -16.88831 -16.42907 -16.29897 -15.94808 -15.91734 -15.67307 -15.20874 -14.97156 -14.79145 -14.62449 -14.39130 -13.94448 -13.61635 -13.42335 -13.33615 -13.25304 -13.10837 -13.00352 -12.77284 -12.69197 -12.53981 -12.39452 -11.92524 -11.84113 -11.64756 -11.23527 -11.16771 -11.15163 -10.99040 -10.94647 -10.77164 -10.52837 -10.11128 -9.81719 -8.98300 -8.51373 -6.21852 1.00401 1.31498 1.36239 1.47090 1.56519 1.61092 1.65379 2.20934 2.25968 2.68391 2.71551 2.75052 2.86944 3.24474 3.28413 3.48861 3.68467 3.79482 3.89409 3.98004 4.04457 4.13065 4.25750 4.33594 4.43025 4.44640 4.48557 4.49879 4.54585 4.58657 4.64971 4.70796 4.74213 4.77131 4.79683 4.86014 4.98767 5.00664 5.05202 5.20209 5.23946 5.40818 5.54089 5.70671 6.11560 6.50795 6.62993 6.93840 7.04025 7.24265 8.61033 Molecular weight = 338.15amu Principal moments of inertia in cm(-1) A = 0.025215 B = 0.001816 C = 0.001762 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1110.173364 B =15417.476001 C =15883.351509 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.158 4.158 2 C 0.157 3.843 3 H 0.078 0.922 4 N -0.709 5.709 5 C 0.539 3.461 6 O -0.559 6.559 7 C -0.114 4.114 8 S -0.174 6.174 9 C -0.530 4.530 10 H 0.061 0.939 11 C 0.045 3.955 12 N -0.918 5.918 13 Si 0.915 3.085 14 H -0.261 1.261 15 H -0.260 1.260 16 H -0.236 1.236 17 C -0.111 4.111 18 C 0.098 3.902 19 N -0.648 5.648 20 C 0.559 3.441 21 O -0.586 6.586 22 C -0.137 4.137 23 H 0.151 0.849 24 C -0.088 4.088 25 C -0.230 4.230 26 C -0.102 4.102 27 C -0.137 4.137 28 C 0.117 3.883 29 H 0.094 0.906 30 H 0.070 0.930 31 H 0.036 0.964 32 H 0.415 0.585 33 H 0.112 0.888 34 H 0.110 0.890 35 H 0.276 0.724 36 H 0.132 0.868 37 H 0.071 0.929 38 H 0.079 0.921 39 H 0.137 0.863 40 H 0.086 0.914 41 H 0.106 0.894 42 H 0.119 0.881 43 H 0.099 0.901 44 H 0.080 0.920 45 H 0.101 0.899 46 H 0.116 0.884 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -7.706 0.569 -34.740 35.588 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 -0.217 4.217 2 C 0.053 3.947 3 H 0.096 0.904 4 N -0.363 5.363 5 C 0.325 3.675 6 O -0.437 6.437 7 C -0.265 4.265 8 S 0.053 5.947 9 C -0.678 4.678 10 H 0.079 0.921 11 C -0.161 4.161 12 N -0.556 5.556 13 Si 0.737 3.263 14 H -0.186 1.186 15 H -0.185 1.185 16 H -0.160 1.160 17 C -0.131 4.131 18 C -0.025 4.025 19 N -0.382 5.382 20 C 0.350 3.650 21 O -0.466 6.466 22 C -0.157 4.157 23 H 0.169 0.831 24 C -0.125 4.125 25 C -0.230 4.230 26 C -0.138 4.138 27 C -0.174 4.174 28 C -0.005 4.005 29 H 0.112 0.888 30 H 0.089 0.911 31 H 0.055 0.945 32 H 0.252 0.748 33 H 0.131 0.869 34 H 0.128 0.872 35 H 0.086 0.914 36 H 0.150 0.850 37 H 0.089 0.911 38 H 0.097 0.903 39 H 0.155 0.845 40 H 0.104 0.896 41 H 0.124 0.876 42 H 0.137 0.863 43 H 0.117 0.883 44 H 0.098 0.902 45 H 0.119 0.881 46 H 0.134 0.866 Dipole moment (debyes) X Y Z Total from point charges -7.431 2.145 -34.660 35.513 hybrid contribution 0.953 -1.539 1.248 2.199 sum -6.479 0.606 -33.412 34.040 Atomic orbital electron populations 1.22134 0.93569 1.02994 1.02961 1.20924 0.95186 0.96512 0.82107 0.90428 1.45815 1.67412 1.14689 1.08370 1.19826 0.76734 0.86532 0.84430 1.90689 1.50666 1.17314 1.85071 1.23300 1.06057 1.02338 0.94822 1.84661 1.86902 1.18424 1.04762 1.22486 1.50330 0.98195 0.96778 0.92095 1.25586 0.93238 1.02322 0.94926 1.70028 1.44595 1.37767 1.03181 0.85851 0.79559 0.80321 0.80539 1.18596 1.18484 1.15990 1.23231 0.94197 1.01873 0.93750 1.23100 0.97590 1.02145 0.79636 1.49648 1.23138 1.60034 1.05425 1.19890 0.83174 0.77378 0.84509 1.90694 1.22891 1.45556 1.87455 1.21932 1.00338 1.06382 0.87051 0.83116 1.22768 1.01504 0.88993 0.99237 1.21486 1.05767 0.98557 0.97208 1.22854 0.98747 1.00104 0.92120 1.22603 0.93541 0.99055 1.02176 1.23273 0.84584 0.98502 0.94190 0.88761 0.91069 0.94516 0.74808 0.86942 0.87155 0.91413 0.84959 0.91056 0.90307 0.84467 0.89561 0.87581 0.86289 0.88309 0.90182 0.88102 0.86629 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 -0.16 -2.09 9.48 71.98 0.68 -1.41 16 2 C 0.16 2.35 2.34 44.99 0.11 2.45 16 3 H 0.08 1.48 7.43 -2.39 -0.02 1.46 16 4 N -0.71 -13.93 4.96 -442.53 -2.19 -16.12 16 5 C 0.54 16.92 7.81 87.66 0.68 17.60 16 6 O -0.56 -22.08 15.52 -3.03 -0.05 -22.13 16 7 C -0.11 -4.13 6.16 71.24 0.44 -3.69 16 8 S -0.17 -8.64 18.55 -56.49 -1.05 -9.69 16 9 C -0.53 -30.77 10.04 67.95 0.68 -30.09 16 10 H 0.06 3.74 8.03 -2.91 -0.02 3.71 16 11 C 0.04 2.61 5.50 84.85 0.47 3.08 16 12 N -0.92 -55.95 13.97 21.65 0.30 -55.65 16 13 Si 0.92 44.85 27.74 68.60 1.90 46.75 16 14 H -0.26 -12.45 7.11 99.48 0.71 -11.74 16 15 H -0.26 -12.01 7.11 99.48 0.71 -11.30 16 16 H -0.24 -11.51 6.74 99.48 0.67 -10.84 16 17 C -0.11 -1.07 3.52 -10.37 -0.04 -1.10 16 18 C 0.10 1.59 8.07 83.19 0.67 2.26 16 19 N -0.65 -10.55 3.69 -857.70 -3.16 -13.71 16 20 C 0.56 11.99 7.86 87.66 0.69 12.68 16 21 O -0.59 -18.29 17.02 -3.03 -0.05 -18.34 16 22 C -0.14 -1.90 6.01 -11.54 -0.07 -1.97 16 23 H 0.15 1.17 8.14 -2.39 -0.02 1.16 16 24 C -0.09 -1.04 10.24 30.62 0.31 -0.73 16 25 C -0.23 -3.41 5.06 -52.17 -0.26 -3.68 16 26 C -0.10 -1.04 10.53 30.59 0.32 -0.71 16 27 C -0.14 -2.23 10.16 30.59 0.31 -1.92 16 28 C 0.12 0.91 7.99 83.28 0.67 1.57 16 29 H 0.09 0.71 8.14 -2.39 -0.02 0.69 16 30 H 0.07 0.79 8.14 -2.38 -0.02 0.77 16 31 H 0.04 0.74 8.14 -2.39 -0.02 0.72 16 32 H 0.42 5.84 8.60 -92.71 -0.80 5.04 16 33 H 0.11 3.73 8.14 -2.39 -0.02 3.71 16 34 H 0.11 3.71 8.14 -2.39 -0.02 3.69 16 35 H 0.28 15.59 8.31 -92.71 -0.77 14.82 16 36 H 0.13 0.86 8.14 -2.39 -0.02 0.84 16 37 H 0.07 1.29 8.14 -2.39 -0.02 1.27 16 38 H 0.08 1.45 8.11 -2.39 -0.02 1.43 16 39 H 0.14 0.79 8.14 -2.39 -0.02 0.77 16 40 H 0.09 1.28 8.14 -2.39 -0.02 1.26 16 41 H 0.11 0.88 8.14 -2.39 -0.02 0.86 16 42 H 0.12 0.75 8.14 -2.39 -0.02 0.73 16 43 H 0.10 1.49 8.14 -2.38 -0.02 1.47 16 44 H 0.08 1.59 8.14 -2.39 -0.02 1.57 16 45 H 0.10 0.69 8.00 -2.39 -0.02 0.67 16 46 H 0.12 0.24 8.14 -2.39 -0.02 0.22 16 Total: -1.00 -83.08 403.76 1.51 -81.57 By element: Atomic # 1 Polarization: 12.83 SS G_CDS: 0.14 Total: 12.97 kcal Atomic # 6 Polarization: -11.31 SS G_CDS: 5.66 Total: -5.65 kcal Atomic # 7 Polarization: -80.43 SS G_CDS: -5.05 Total: -85.48 kcal Atomic # 8 Polarization: -40.37 SS G_CDS: -0.10 Total: -40.47 kcal Atomic # 14 Polarization: 44.85 SS G_CDS: 1.90 Total: 46.75 kcal Atomic # 16 Polarization: -8.64 SS G_CDS: -1.05 Total: -9.69 kcal Total: -83.08 1.51 -81.57 kcal The number of atoms in the molecule is 46 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. ZINC001571933101.mol2 46 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 81.529 kcal (2) G-P(sol) polarization free energy of solvation -83.075 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -1.546 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.510 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -81.566 kcal (6) G-S(sol) free energy of system = (1) + (5) -0.036 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.71 seconds