Wall clock time and date at job start Mon Mar 30 2020 04:53:02 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 1.86803 * 119.99576 * 2 1 4 4 H 1.48500 * 109.46986 * 90.00007 * 3 2 1 5 5 H 1.48496 * 109.47029 * 210.00024 * 3 2 1 6 6 H 1.48499 * 109.47352 * 329.99854 * 3 2 1 7 7 C 1.37871 * 120.00147 * 179.97438 * 2 1 3 8 8 H 1.08002 * 120.00147 * 179.97438 * 7 2 1 9 9 C 1.50700 * 120.00083 * 0.02562 * 7 2 1 10 10 N 1.46506 * 109.46957 * 180.02562 * 9 7 2 11 11 C 1.34775 * 119.99880 * 179.97438 * 10 9 7 12 12 O 1.21283 * 119.99917 * 0.02562 * 11 10 9 13 13 C 1.50703 * 120.00072 * 179.97438 * 11 10 9 14 14 N 1.46898 * 109.46886 * 180.02562 * 13 11 10 15 15 C 1.46904 * 110.99459 * 180.02562 * 14 13 11 16 16 C 1.53002 * 109.46707 * 179.97438 * 15 14 13 17 17 H 1.08996 * 109.57933 * 299.99648 * 16 15 14 18 18 C 1.53100 * 109.57450 * 179.74279 * 16 15 14 19 19 C 1.52567 * 109.96598 * 177.30292 * 18 16 15 20 20 C 1.52578 * 110.84240 * 70.48385 * 19 18 16 21 21 C 1.53099 * 109.95834 * 289.37172 * 20 19 18 22 22 S 1.81749 * 108.84028 * 63.02281 * 21 20 19 23 23 H 0.97005 * 119.99661 * 179.97438 * 1 2 3 24 24 H 1.08994 * 109.46850 * 299.99881 * 9 7 2 25 25 H 1.08998 * 109.47115 * 59.99805 * 9 7 2 26 26 H 0.97002 * 120.00079 * 0.02562 * 10 9 7 27 27 H 1.08995 * 109.46839 * 300.00362 * 13 11 10 28 28 H 1.08998 * 109.46706 * 59.99946 * 13 11 10 29 29 H 1.00898 * 111.00098 * 303.95179 * 14 13 11 30 30 H 1.09000 * 109.46992 * 299.99659 * 15 14 13 31 31 H 1.09001 * 109.47155 * 59.99916 * 15 14 13 32 32 H 1.09003 * 109.39179 * 297.32100 * 18 16 15 33 33 H 1.09004 * 109.39190 * 57.02096 * 18 16 15 34 34 H 1.09001 * 109.12684 * 310.15075 * 19 18 16 35 35 H 1.08998 * 109.17034 * 190.83974 * 19 18 16 36 36 H 1.09004 * 109.39114 * 169.22443 * 20 19 18 37 37 H 1.08997 * 109.39083 * 49.51825 * 20 19 18 38 38 H 1.09005 * 109.57588 * 303.21961 * 21 20 19 39 39 H 1.08997 * 109.58191 * 182.83158 * 21 20 19 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 2.2490 1.6178 0.0000 4 1 2.4965 2.0465 1.4001 5 1 3.5466 1.4403 -0.7000 6 1 1.4465 2.6527 -0.7001 7 6 2.0045 -1.1940 0.0005 8 1 3.0845 -1.1940 0.0001 9 6 1.2511 -2.4991 0.0005 10 7 2.2032 -3.6126 0.0018 11 6 1.7540 -4.8833 0.0025 12 8 0.5616 -5.1050 0.0017 13 6 2.7334 -6.0287 0.0032 14 7 1.9989 -7.3009 0.0033 15 6 2.9235 -8.4425 0.0046 16 6 2.1234 -9.7466 0.0053 17 1 1.4944 -9.7888 0.8945 18 6 3.0847 -10.9382 0.0002 19 6 2.2973 -12.2432 0.0684 20 6 1.5557 -12.4987 -1.2404 21 6 0.4004 -11.5052 -1.3890 22 16 1.0814 -9.8227 -1.4819 23 1 -0.4850 -0.8401 -0.0004 24 1 0.6241 -2.5566 0.8903 25 1 0.6248 -2.5571 -0.8896 26 1 3.1569 -3.4353 0.0028 27 1 3.3600 -5.9714 -0.8867 28 1 3.3600 -5.9704 0.8932 29 1 1.3622 -7.3508 0.7845 30 1 3.5520 -8.4019 -0.8850 31 1 3.5508 -8.4010 0.8950 32 1 3.6761 -10.9221 -0.9153 33 1 3.7505 -10.8697 0.8605 34 1 1.5764 -12.1831 0.8837 35 1 2.9855 -13.0670 0.2577 36 1 1.1614 -13.5149 -1.2404 37 1 2.2451 -12.3796 -2.0762 38 1 -0.2621 -11.5839 -0.5269 39 1 -0.1555 -11.7250 -2.3004 RHF calculation, no. of doubly occupied orbitals= 49 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 ZINC000087685318.mol2 39 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 04:53:02 Heat of formation + Delta-G solvation = -85.280366 kcal Electronic energy + Delta-G solvation = -18248.601361 eV Core-core repulsion = 15315.070555 eV Total energy + Delta-G solvation = -2933.530805 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 272.130 amu Computer time = 0.49 seconds Orbital eigenvalues (eV) -40.63076 -38.34989 -36.79454 -36.25813 -34.45578 -32.98362 -30.03201 -28.77258 -26.94095 -25.00728 -24.12829 -22.69756 -21.60370 -21.39589 -19.45257 -18.26541 -17.72936 -17.08938 -16.77523 -16.06994 -15.91856 -15.67027 -15.50382 -15.33163 -14.82601 -14.56642 -14.45992 -14.30921 -14.12384 -13.50754 -13.35030 -13.10254 -13.07927 -12.78218 -12.55342 -12.18667 -12.16102 -11.89456 -11.81023 -11.28783 -11.02750 -10.78401 -10.77088 -10.43959 -9.96978 -9.41584 -8.80892 -8.50574 -6.56402 0.88048 1.55214 1.64614 1.69596 1.75296 1.82205 2.27010 2.56662 3.07393 3.18157 3.67769 3.79152 3.86244 3.91475 4.04771 4.19080 4.22004 4.31489 4.41111 4.43887 4.55265 4.68361 4.71822 4.77682 4.81930 4.94866 4.97865 5.06555 5.11451 5.14515 5.36037 5.44448 5.53044 5.86658 6.07954 6.25002 6.30674 6.81976 7.24212 7.42926 8.58500 Molecular weight = 272.13amu Principal moments of inertia in cm(-1) A = 0.055860 B = 0.002745 C = 0.002664 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 501.133760 B =10197.773980 C =10507.048072 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.931 5.931 2 C -0.035 4.035 3 Si 1.133 2.867 4 H -0.269 1.269 5 H -0.260 1.260 6 H -0.286 1.286 7 C -0.629 4.629 8 H 0.077 0.923 9 C 0.254 3.746 10 N -0.706 5.706 11 C 0.492 3.508 12 O -0.591 6.591 13 C 0.060 3.940 14 N -0.687 5.687 15 C 0.080 3.920 16 C -0.038 4.038 17 H 0.081 0.919 18 C -0.111 4.111 19 C -0.127 4.127 20 C -0.117 4.117 21 C -0.087 4.087 22 S -0.294 6.294 23 H 0.253 0.747 24 H -0.018 1.018 25 H -0.021 1.021 26 H 0.410 0.590 27 H 0.118 0.882 28 H 0.089 0.911 29 H 0.344 0.656 30 H 0.084 0.916 31 H 0.070 0.930 32 H 0.076 0.924 33 H 0.091 0.909 34 H 0.061 0.939 35 H 0.088 0.912 36 H 0.087 0.913 37 H 0.071 0.929 38 H 0.080 0.920 39 H 0.103 0.897 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 11.794 -25.964 1.231 28.543 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 -0.567 5.567 2 C -0.233 4.233 3 Si 0.952 3.048 4 H -0.195 1.195 5 H -0.184 1.184 6 H -0.211 1.211 7 C -0.666 4.666 8 H 0.096 0.904 9 C 0.130 3.870 10 N -0.357 5.357 11 C 0.279 3.721 12 O -0.471 6.471 13 C -0.072 4.072 14 N -0.319 5.319 15 C -0.049 4.049 16 C -0.167 4.167 17 H 0.100 0.900 18 C -0.151 4.151 19 C -0.164 4.164 20 C -0.156 4.156 21 C -0.236 4.236 22 S -0.067 6.067 23 H 0.063 0.937 24 H 0.000 1.000 25 H -0.003 1.003 26 H 0.246 0.754 27 H 0.136 0.864 28 H 0.107 0.893 29 H 0.163 0.837 30 H 0.102 0.898 31 H 0.087 0.913 32 H 0.094 0.906 33 H 0.110 0.890 34 H 0.080 0.920 35 H 0.107 0.893 36 H 0.105 0.895 37 H 0.090 0.910 38 H 0.099 0.901 39 H 0.121 0.879 Dipole moment (debyes) X Y Z Total from point charges 10.481 -23.708 -0.232 25.923 hybrid contribution 0.141 -2.256 1.660 2.805 sum 10.622 -25.964 1.428 28.089 Atomic orbital electron populations 1.70878 1.08338 1.29936 1.47555 1.27702 0.96352 1.07308 0.91952 0.82752 0.74155 0.69865 0.77988 1.19483 1.18374 1.21130 1.22461 0.95613 0.91691 1.56853 0.90450 1.18642 0.89423 0.85747 0.93181 1.46030 1.11015 1.05244 1.73364 1.21544 0.90095 0.84922 0.75554 1.90651 1.19405 1.85365 1.51691 1.21716 0.93816 0.86795 1.04839 1.60064 1.19625 1.00459 1.51784 1.21874 0.93440 0.86943 1.02645 1.23262 0.98406 0.98347 0.96656 0.90014 1.21747 0.97185 0.91995 1.04134 1.21516 0.99740 0.97791 0.97399 1.21702 0.96281 0.98871 0.98745 1.23555 1.00782 0.93414 1.05828 1.87856 1.61956 1.20477 1.36449 0.93732 0.99983 1.00276 0.75430 0.86368 0.89295 0.83688 0.89752 0.91259 0.90552 0.89028 0.92020 0.89348 0.89454 0.91016 0.90125 0.87859 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 14. 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 -58.81 13.65 21.45 0.29 -58.51 16 2 C -0.03 -2.00 5.46 84.65 0.46 -1.53 16 3 Si 1.13 48.46 29.90 68.60 2.05 50.51 16 4 H -0.27 -10.76 7.11 99.48 0.71 -10.05 16 5 H -0.26 -9.87 7.11 99.48 0.71 -9.16 16 6 H -0.29 -12.31 7.11 99.48 0.71 -11.61 16 7 C -0.63 -35.02 9.28 25.60 0.24 -34.78 16 8 H 0.08 3.92 7.60 -2.91 -0.02 3.90 16 9 C 0.25 14.15 4.74 85.63 0.41 14.55 16 10 N -0.71 -30.28 5.55 -466.78 -2.59 -32.87 16 11 C 0.49 19.94 7.87 87.66 0.69 20.63 16 12 O -0.59 -30.11 16.20 -3.04 -0.05 -30.16 16 13 C 0.06 1.59 6.17 85.56 0.53 2.12 16 14 N -0.69 -18.39 5.68 -517.92 -2.94 -21.33 16 15 C 0.08 1.46 5.14 86.30 0.44 1.91 16 16 C -0.04 -0.66 2.74 30.63 0.08 -0.58 16 17 H 0.08 1.49 8.14 -2.39 -0.02 1.47 16 18 C -0.11 -1.30 5.05 30.48 0.15 -1.15 16 19 C -0.13 -1.30 5.61 30.31 0.17 -1.13 16 20 C -0.12 -1.36 5.75 30.49 0.18 -1.19 16 21 C -0.09 -1.45 6.46 72.02 0.46 -0.98 16 22 S -0.29 -7.07 21.30 -56.49 -1.20 -8.27 16 23 H 0.25 16.66 7.22 -92.70 -0.67 15.99 16 24 H -0.02 -1.09 8.01 -2.39 -0.02 -1.11 16 25 H -0.02 -1.29 8.01 -2.39 -0.02 -1.31 16 26 H 0.41 14.44 8.32 -92.71 -0.77 13.67 16 27 H 0.12 2.69 8.14 -2.39 -0.02 2.67 16 28 H 0.09 1.78 8.14 -2.39 -0.02 1.76 16 29 H 0.34 9.94 8.43 -89.70 -0.76 9.19 16 30 H 0.08 1.53 8.14 -2.39 -0.02 1.51 16 31 H 0.07 0.93 8.14 -2.39 -0.02 0.91 16 32 H 0.08 0.94 8.06 -2.39 -0.02 0.92 16 33 H 0.09 0.76 8.14 -2.38 -0.02 0.74 16 34 H 0.06 0.67 8.08 -2.39 -0.02 0.65 16 35 H 0.09 0.63 8.14 -2.39 -0.02 0.61 16 36 H 0.09 0.74 8.14 -2.38 -0.02 0.72 16 37 H 0.07 0.90 8.06 -2.39 -0.02 0.89 16 38 H 0.08 1.30 8.14 -2.39 -0.02 1.28 16 39 H 0.10 1.63 8.14 -2.39 -0.02 1.61 16 Total: -1.00 -76.50 331.07 -1.02 -77.51 By element: Atomic # 1 Polarization: 25.64 SS G_CDS: -0.39 Total: 25.25 kcal Atomic # 6 Polarization: -5.95 SS G_CDS: 3.81 Total: -2.13 kcal Atomic # 7 Polarization: -107.47 SS G_CDS: -5.24 Total: -112.71 kcal Atomic # 8 Polarization: -30.11 SS G_CDS: -0.05 Total: -30.16 kcal Atomic # 14 Polarization: 48.46 SS G_CDS: 2.05 Total: 50.51 kcal Atomic # 16 Polarization: -7.07 SS G_CDS: -1.20 Total: -8.27 kcal Total: -76.50 -1.02 -77.51 kcal The number of atoms in the molecule is 39 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. ZINC000087685318.mol2 39 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 -7.767 kcal (2) G-P(sol) polarization free energy of solvation -76.497 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -84.264 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.017 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -77.514 kcal (6) G-S(sol) free energy of system = (1) + (5) -85.280 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.49 seconds