Wall clock time and date at job start Wed Apr 1 2020 00:25:21 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 1.31627 * 1 3 3 Si 1.86801 * 119.99948 * 2 1 4 4 H 1.48505 * 109.46879 * 269.99898 * 3 2 1 5 5 H 1.48502 * 109.47368 * 29.99755 * 3 2 1 6 6 H 1.48496 * 109.46971 * 150.00124 * 3 2 1 7 7 C 1.38795 * 119.99992 * 179.97438 * 2 1 3 8 8 H 1.07999 * 120.00287 * 180.02562 * 7 2 1 9 9 S 1.76203 * 120.00017 * 359.97438 * 7 2 1 10 10 C 1.81000 * 100.00050 * 179.97438 * 9 7 2 11 11 C 1.50696 * 109.47142 * 180.02562 * 10 9 7 12 12 O 1.21283 * 119.99885 * 359.97438 * 11 10 9 13 13 N 1.34776 * 120.00049 * 180.02562 * 11 10 9 14 14 C 1.47588 * 134.49375 * 180.02562 * 13 11 10 15 15 C 1.53939 * 86.11490 * 155.35802 * 14 13 11 16 16 C 1.53006 * 113.74007 * 137.95564 * 15 14 13 17 17 N 1.46504 * 109.46883 * 174.99955 * 16 15 14 18 18 C 1.34775 * 119.99531 * 179.97438 * 17 16 15 19 19 O 1.21279 * 120.00300 * 0.02562 * 18 17 16 20 20 C 1.50703 * 119.99773 * 179.97438 * 18 17 16 21 21 H 1.08998 * 110.49281 * 321.24734 * 20 18 17 22 22 C 1.54097 * 110.54879 * 84.10585 * 20 18 17 23 23 N 1.47061 * 103.86109 * 118.59132 * 22 20 18 24 24 C 1.33943 * 109.17939 * 0.02562 * 23 22 20 25 25 O 1.21585 * 123.03908 * 179.97438 * 24 23 22 26 26 N 1.33946 * 113.91924 * 359.97438 * 24 23 22 27 27 C 1.47580 * 134.49153 * 359.97438 * 13 11 10 28 28 H 0.97000 * 120.00064 * 0.02562 * 1 2 3 29 29 H 1.09003 * 109.46550 * 60.00321 * 10 9 7 30 30 H 1.09002 * 109.47347 * 300.00355 * 10 9 7 31 31 H 1.09003 * 113.76693 * 41.05388 * 14 13 11 32 32 H 1.08998 * 113.76396 * 269.66112 * 14 13 11 33 33 H 1.09005 * 113.74232 * 269.15116 * 15 14 13 34 34 H 1.09001 * 109.47002 * 294.99452 * 16 15 14 35 35 H 1.08993 * 109.46955 * 54.99889 * 16 15 14 36 36 H 0.96992 * 119.99966 * 359.97438 * 17 16 15 37 37 H 1.08996 * 110.54841 * 237.18976 * 22 20 18 38 38 H 1.08999 * 110.54638 * 0.02562 * 22 20 18 39 39 H 0.97003 * 125.40767 * 179.97438 * 23 22 20 40 40 H 0.97001 * 125.41424 * 179.97438 * 26 24 23 41 41 H 1.09012 * 113.76784 * 90.34405 * 27 13 11 42 42 H 1.08992 * 113.77167 * 318.94959 * 27 13 11 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 2.2503 1.6178 0.0000 4 1 2.4978 2.0464 -1.4001 5 1 1.4477 2.6527 0.7000 6 1 3.5478 1.4402 0.7000 7 6 2.0102 -1.2020 0.0005 8 1 3.0902 -1.2021 0.0010 9 16 1.1292 -2.7280 0.0019 10 6 2.5158 -3.8914 0.0013 11 6 1.9873 -5.3027 0.0018 12 8 0.7910 -5.5022 0.0028 13 7 2.8441 -6.3431 0.0020 14 6 2.6889 -7.8108 0.0019 15 6 4.0883 -7.8538 -0.6381 16 6 4.9915 -8.9509 -0.0709 17 7 6.2484 -8.9857 -0.8228 18 6 7.2035 -9.8793 -0.4975 19 8 7.0223 -10.6548 0.4171 20 6 8.4963 -9.9155 -1.2712 21 1 8.3109 -9.7475 -2.3321 22 6 9.4861 -8.8711 -0.7199 23 7 10.6282 -9.6760 -0.2610 24 6 10.3756 -10.9708 -0.4930 25 8 11.1557 -11.8594 -0.2102 26 7 9.1859 -11.1980 -1.0649 27 6 4.3142 -6.4723 0.0014 28 1 -0.4850 0.8400 -0.0004 29 1 3.1250 -3.7309 0.8909 30 1 3.1238 -3.7317 -0.8891 31 1 1.8948 -8.1685 -0.6535 32 1 2.6483 -8.2482 0.9994 33 1 4.0731 -7.8371 -1.7279 34 1 5.2013 -8.7425 0.9782 35 1 4.4900 -9.9148 -0.1567 36 1 6.3932 -8.3658 -1.5545 37 1 9.7945 -8.1833 -1.5071 38 1 9.0428 -8.3266 0.1138 39 1 11.4364 -9.3249 0.1446 40 1 8.8351 -12.0698 -1.3054 41 1 4.7517 -6.5161 0.9989 42 1 4.8174 -5.7617 -0.6542 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 ZINC001356830542.mol2 42 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 00:25:21 Heat of formation + Delta-G solvation = -82.867424 kcal Electronic energy + Delta-G solvation = -25988.653164 eV Core-core repulsion = 21902.332364 eV Total energy + Delta-G solvation = -4086.320800 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 342.119 amu Computer time = 0.84 seconds Orbital eigenvalues (eV) -42.31285 -41.36491 -40.22114 -38.90867 -37.35260 -35.73714 -34.58283 -33.97914 -32.38528 -30.88491 -29.59750 -27.70802 -27.14163 -26.62808 -24.53372 -22.80698 -22.03192 -21.52683 -20.33031 -19.50675 -19.10369 -18.54256 -17.96949 -17.54074 -17.18670 -16.93621 -16.85744 -16.72717 -16.43247 -16.24306 -15.76883 -15.57553 -15.25669 -14.99318 -14.62364 -14.57713 -14.47236 -13.96352 -13.84173 -13.64307 -13.43740 -13.27280 -13.15829 -12.89115 -12.88262 -12.59482 -12.31817 -11.83300 -11.73287 -11.57972 -11.34515 -11.13737 -10.87522 -10.53572 -10.27600 -10.08051 -9.80565 -9.72536 -8.68037 -8.34182 -6.13191 1.23002 1.42464 1.43665 1.44895 1.55636 1.59267 1.73805 1.97639 2.01795 2.23359 2.27972 3.00191 3.09636 3.21594 3.28297 3.37773 3.61647 3.71761 3.82767 4.05234 4.13024 4.21370 4.28872 4.40186 4.46106 4.51583 4.62007 4.64337 4.70882 4.76778 4.81852 4.86732 4.96404 5.25759 5.42029 5.44250 5.92497 6.20092 6.21863 6.31579 6.56093 6.61226 7.06971 7.12859 7.22734 7.53223 8.75036 Molecular weight = 342.12amu Principal moments of inertia in cm(-1) A = 0.017369 B = 0.001759 C = 0.001614 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1611.716438 B =15916.668474 C =17349.055840 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 0.012 3.988 3 Si 1.000 3.000 4 H -0.266 1.266 5 H -0.280 1.280 6 H -0.256 1.256 7 C -0.544 4.544 8 H 0.085 0.915 9 S -0.158 6.158 10 C -0.117 4.117 11 C 0.551 3.449 12 O -0.573 6.573 13 N -0.652 5.652 14 C 0.106 3.894 15 C -0.103 4.103 16 C 0.135 3.865 17 N -0.703 5.703 18 C 0.502 3.498 19 O -0.576 6.576 20 C 0.106 3.894 21 H 0.165 0.835 22 C 0.102 3.898 23 N -0.732 5.732 24 C 0.692 3.308 25 O -0.643 6.643 26 N -0.716 5.716 27 C 0.102 3.898 28 H 0.271 0.729 29 H 0.104 0.896 30 H 0.110 0.890 31 H 0.078 0.922 32 H 0.095 0.905 33 H 0.132 0.868 34 H 0.071 0.929 35 H 0.073 0.927 36 H 0.424 0.576 37 H 0.141 0.859 38 H 0.094 0.906 39 H 0.439 0.561 40 H 0.434 0.566 41 H 0.102 0.898 42 H 0.106 0.894 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 21.674 -17.343 -6.697 28.556 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 -0.192 1.192 5 H -0.206 1.206 6 H -0.180 1.180 7 C -0.692 4.692 8 H 0.103 0.897 9 S 0.070 5.930 10 C -0.268 4.268 11 C 0.340 3.660 12 O -0.453 6.453 13 N -0.388 5.388 14 C -0.017 4.017 15 C -0.122 4.122 16 C 0.010 3.990 17 N -0.356 5.356 18 C 0.286 3.714 19 O -0.454 6.454 20 C -0.004 4.004 21 H 0.182 0.818 22 C -0.022 4.022 23 N -0.395 5.395 24 C 0.391 3.609 25 O -0.525 6.525 26 N -0.377 5.377 27 C -0.019 4.019 28 H 0.080 0.920 29 H 0.122 0.878 30 H 0.128 0.872 31 H 0.097 0.903 32 H 0.114 0.886 33 H 0.150 0.850 34 H 0.089 0.911 35 H 0.091 0.909 36 H 0.263 0.737 37 H 0.159 0.841 38 H 0.113 0.887 39 H 0.282 0.718 40 H 0.276 0.724 41 H 0.120 0.880 42 H 0.125 0.875 Dipole moment (debyes) X Y Z Total from point charges 19.851 -18.328 -5.908 27.656 hybrid contribution 1.172 1.148 0.167 1.649 sum 21.023 -17.180 -5.741 27.750 Atomic orbital electron populations 1.70189 1.08052 1.28614 1.47990 1.26153 0.95961 1.03400 0.93729 0.84938 0.78210 0.75880 0.78858 1.19153 1.20561 1.18008 1.23187 0.95357 0.91757 1.58884 0.89696 1.85662 1.10837 0.99497 1.97049 1.23257 1.03255 0.93850 1.06438 1.19804 0.85298 0.85942 0.74969 1.90695 1.17409 1.85785 1.51365 1.50021 1.09421 1.06118 1.73234 1.23347 0.98002 0.78427 1.01908 1.23203 0.93080 0.93360 1.02547 1.21218 0.83387 0.98488 0.95904 1.45766 1.15802 1.37030 1.37028 1.21185 0.85917 0.80339 0.83929 1.90789 1.80712 1.41973 1.31942 1.22225 0.90215 0.84627 1.03320 0.81825 1.22632 0.84318 0.92936 1.02320 1.45098 1.22530 1.05146 1.66739 1.16238 0.82517 0.84117 0.78065 1.90964 1.52353 1.47810 1.61366 1.44882 1.17241 1.09847 1.65726 1.23717 0.79011 0.96554 1.02583 0.92023 0.87771 0.87157 0.90332 0.88646 0.85029 0.91092 0.90910 0.73733 0.84118 0.88732 0.71802 0.72389 0.88030 0.87550 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 -55.21 13.22 21.65 0.29 -54.92 16 2 C 0.01 0.68 5.49 84.86 0.47 1.15 16 3 Si 1.00 42.18 29.55 68.60 2.03 44.20 16 4 H -0.27 -10.72 7.11 99.48 0.71 -10.02 16 5 H -0.28 -11.64 7.11 99.48 0.71 -10.93 16 6 H -0.26 -10.04 7.11 99.48 0.71 -9.33 16 7 C -0.54 -30.21 9.50 67.95 0.65 -29.56 16 8 H 0.08 4.32 7.80 -2.91 -0.02 4.29 16 9 S -0.16 -8.61 20.57 -56.49 -1.16 -9.77 16 10 C -0.12 -4.45 5.91 71.23 0.42 -4.03 16 11 C 0.55 19.88 8.07 87.66 0.71 20.59 16 12 O -0.57 -26.82 16.59 -3.04 -0.05 -26.87 16 13 N -0.65 -14.70 3.61 -836.71 -3.02 -17.72 16 14 C 0.11 1.61 8.40 86.48 0.73 2.34 16 15 C -0.10 -0.61 3.94 -10.15 -0.04 -0.65 16 16 C 0.13 0.73 5.53 86.38 0.48 1.21 16 17 N -0.70 -1.05 5.56 -463.05 -2.57 -3.63 16 18 C 0.50 3.89 6.93 87.66 0.61 4.49 16 19 O -0.58 -11.34 16.60 -3.03 -0.05 -11.39 16 20 C 0.11 0.26 4.17 44.51 0.19 0.45 16 21 H 0.16 -1.04 8.14 -2.39 -0.02 -1.06 16 22 C 0.10 0.02 7.70 86.64 0.67 0.69 16 23 N -0.73 -6.42 6.37 -477.35 -3.04 -9.47 16 24 C 0.69 12.38 8.92 179.57 1.60 13.98 16 25 O -0.64 -18.62 18.05 -3.98 -0.07 -18.70 16 26 N -0.72 -8.19 5.63 -460.34 -2.59 -10.78 16 27 C 0.10 1.02 8.17 86.47 0.71 1.73 16 28 H 0.27 15.21 8.31 -92.71 -0.77 14.44 16 29 H 0.10 3.60 8.14 -2.39 -0.02 3.58 16 30 H 0.11 3.67 8.14 -2.39 -0.02 3.65 16 31 H 0.08 1.34 8.14 -2.39 -0.02 1.33 16 32 H 0.10 1.30 8.10 -2.39 -0.02 1.28 16 33 H 0.13 0.37 8.14 -2.38 -0.02 0.35 16 34 H 0.07 0.56 7.84 -2.39 -0.02 0.54 16 35 H 0.07 0.56 8.14 -2.39 -0.02 0.55 16 36 H 0.42 -2.50 8.47 -92.71 -0.79 -3.28 16 37 H 0.14 -1.05 8.14 -2.39 -0.02 -1.07 16 38 H 0.09 -0.03 7.72 -2.39 -0.02 -0.05 16 39 H 0.44 2.75 8.96 -92.71 -0.83 1.92 16 40 H 0.43 4.84 8.96 -92.71 -0.83 4.01 16 41 H 0.10 0.81 7.89 -2.38 -0.02 0.79 16 42 H 0.11 0.71 8.14 -2.39 -0.02 0.69 16 Total: -1.00 -100.58 379.00 -4.43 -105.00 By element: Atomic # 1 Polarization: 3.02 SS G_CDS: -1.35 Total: 1.67 kcal Atomic # 6 Polarization: 5.19 SS G_CDS: 7.17 Total: 12.36 kcal Atomic # 7 Polarization: -85.57 SS G_CDS: -10.94 Total: -96.51 kcal Atomic # 8 Polarization: -56.79 SS G_CDS: -0.17 Total: -56.96 kcal Atomic # 14 Polarization: 42.18 SS G_CDS: 2.03 Total: 44.20 kcal Atomic # 16 Polarization: -8.61 SS G_CDS: -1.16 Total: -9.77 kcal Total: -100.58 -4.43 -105.00 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. ZINC001356830542.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 22.137 kcal (2) G-P(sol) polarization free energy of solvation -100.579 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -78.441 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -4.426 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -105.005 kcal (6) G-S(sol) free energy of system = (1) + (5) -82.867 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.84 seconds