Wall clock time and date at job start Tue Mar 31 2020 20:34:35 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 1.86800 * 119.99930 * 2 1 4 4 H 1.48502 * 109.47039 * 270.00011 * 3 2 1 5 5 H 1.48500 * 109.47199 * 30.00099 * 3 2 1 6 6 H 1.48500 * 109.47023 * 150.00040 * 3 2 1 7 7 C 1.38810 * 119.99712 * 179.97438 * 2 1 3 8 8 H 1.08003 * 119.99582 * 180.02562 * 7 2 1 9 9 N 1.36931 * 120.00084 * 0.02562 * 7 2 1 10 10 C 1.50241 * 130.84272 * 0.02562 * 9 7 2 11 11 H 1.08994 * 115.85396 * 0.34463 * 10 9 7 12 12 C 1.55842 * 101.05148 * 233.95347 * 10 9 7 13 13 C 1.55867 * 103.53327 * 327.66441 * 12 10 9 14 14 C 1.50241 * 130.83733 * 179.97438 * 9 7 2 15 15 H 1.08999 * 115.85702 * 359.66155 * 14 9 7 16 16 C 1.55848 * 101.05138 * 233.98249 * 14 9 7 17 17 H 1.09001 * 110.62398 * 85.55248 * 16 14 9 18 18 N 1.46499 * 110.62795 * 208.57219 * 16 14 9 19 19 C 1.34778 * 119.99921 * 274.02519 * 18 16 14 20 20 O 1.21556 * 119.99933 * 359.97438 * 19 18 16 21 21 C 1.47789 * 119.99935 * 180.02562 * 19 18 16 22 22 C 1.39623 * 120.11845 * 359.72282 * 21 19 18 23 23 C 1.37894 * 119.91561 * 179.76950 * 22 21 19 24 24 C 1.38489 * 120.15881 * 0.48398 * 23 22 21 25 25 Cl 1.73600 * 119.87869 * 179.76614 * 24 23 22 26 26 C 1.38698 * 120.23918 * 359.78907 * 24 23 22 27 27 F 1.35102 * 119.95554 * 179.97438 * 26 24 23 28 28 C 1.38128 * 120.08638 * 359.95350 * 26 24 23 29 29 C 1.54850 * 103.44495 * 327.06474 * 16 14 9 30 30 H 0.96996 * 119.99521 * 359.97438 * 1 2 3 31 31 H 1.09003 * 110.62706 * 85.55260 * 12 10 9 32 32 H 1.09004 * 110.62337 * 208.40872 * 12 10 9 33 33 H 1.09004 * 110.10177 * 241.14317 * 13 12 10 34 34 H 1.08992 * 111.60510 * 117.80573 * 13 12 10 35 35 H 0.96993 * 120.00088 * 94.02333 * 18 16 14 36 36 H 1.08006 * 120.04477 * 359.97438 * 22 21 19 37 37 H 1.07995 * 119.92710 * 180.23160 * 23 22 21 38 38 H 1.08001 * 120.08646 * 180.02562 * 28 26 24 39 39 H 1.09001 * 110.62667 * 241.51171 * 29 16 14 40 40 H 1.08996 * 110.63188 * 118.48536 * 29 16 14 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 1.6177 0.0000 4 1 2.4977 2.0464 -1.4001 5 1 1.4477 2.6527 0.7001 6 1 3.5478 1.4402 0.7000 7 6 2.0103 -1.2022 0.0005 8 1 3.0903 -1.2021 0.0010 9 7 1.3256 -2.3880 0.0005 10 6 -0.1500 -2.6706 -0.0005 11 1 -0.8013 -1.7966 -0.0073 12 6 -0.2751 -3.6102 1.2365 13 6 1.0805 -4.3794 1.2488 14 6 1.8187 -3.8072 0.0005 15 1 2.9012 -3.9343 -0.0053 16 6 1.0671 -4.3846 -1.2366 17 1 1.6252 -4.1864 -2.1518 18 7 0.8333 -5.8216 -1.0741 19 6 1.7830 -6.7047 -1.4413 20 8 2.8333 -6.3087 -1.9079 21 6 1.5469 -8.1544 -1.2778 22 6 0.3433 -8.6117 -0.7379 23 6 0.1255 -9.9655 -0.5916 24 6 1.1017 -10.8721 -0.9697 25 17 0.8223 -12.5745 -0.7768 26 6 2.3020 -10.4248 -1.5016 27 9 3.2506 -11.3142 -1.8681 28 6 2.5286 -9.0711 -1.6574 29 6 -0.2739 -3.6103 -1.2369 30 1 -0.4849 0.8400 0.0004 31 1 -0.3831 -3.0279 2.1516 32 1 -1.1158 -4.2935 1.1162 33 1 0.9053 -5.4491 1.1341 34 1 1.6483 -4.1774 2.1570 35 1 -0.0049 -6.1376 -0.7021 36 1 -0.4176 -7.9062 -0.4381 37 1 -0.8069 -10.3195 -0.1774 38 1 3.4631 -8.7228 -2.0720 39 1 -1.1129 -4.2955 -1.1161 40 1 -0.3810 -3.0281 -2.1521 RHF calculation, no. of doubly occupied orbitals= 59 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) F: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988). Si: (AM1): M.J.S.DEWAR, C. JIE, ORGANOMETALLICS, 6, 1486-1490 (1987). Cl: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988). 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 ZINC001096060104.mol2 40 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 20:34:35 Heat of formation + Delta-G solvation = -24.876389 kcal Electronic energy + Delta-G solvation = -26631.852818 eV Core-core repulsion = 22580.705988 eV Total energy + Delta-G solvation = -4051.146831 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 338.094 amu Computer time = 0.67 seconds Orbital eigenvalues (eV) -50.11634 -41.71251 -40.45637 -39.15563 -37.60013 -35.59314 -34.26890 -32.32478 -31.85384 -30.94496 -30.59778 -29.09123 -26.28538 -25.14662 -24.01869 -22.87895 -22.05086 -21.22235 -20.23330 -19.55121 -18.78762 -17.99705 -17.63631 -17.21948 -16.96642 -16.85749 -16.70163 -16.42548 -15.89522 -15.37704 -15.22867 -15.09214 -14.57685 -14.15160 -14.05295 -13.90179 -13.55218 -13.41371 -13.19592 -12.91998 -12.88564 -12.77544 -12.59491 -12.55484 -12.33981 -12.04549 -11.99153 -11.88619 -11.55022 -11.25250 -11.07974 -10.95020 -10.77896 -10.22770 -10.08145 -9.84739 -8.84489 -7.79096 -5.17718 -0.62444 -0.07379 0.83254 1.46768 1.47705 1.55608 1.57894 1.98944 2.49848 2.51689 2.91288 3.34311 3.44570 3.49841 3.61181 3.84555 3.93617 3.95767 4.11180 4.17787 4.34402 4.41844 4.49535 4.62162 4.64276 4.73925 4.80409 4.82388 4.85452 4.99382 5.01295 5.09394 5.18225 5.20452 5.34347 5.43475 5.49747 5.55392 5.76626 5.91072 6.30204 6.54047 7.07060 7.19203 7.70404 8.56001 9.27559 Molecular weight = 338.09amu Principal moments of inertia in cm(-1) A = 0.030178 B = 0.002423 C = 0.002320 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 927.612171 B =11552.973052 C =12067.726457 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.942 5.942 2 C -0.062 4.062 3 Si 0.973 3.027 4 H -0.290 1.290 5 H -0.291 1.291 6 H -0.278 1.278 7 C -0.224 4.224 8 H 0.069 0.931 9 N -0.619 5.619 10 C 0.136 3.864 11 H 0.121 0.879 12 C -0.124 4.124 13 C -0.116 4.116 14 C 0.116 3.884 15 H 0.063 0.937 16 C 0.147 3.853 17 H 0.055 0.945 18 N -0.685 5.685 19 C 0.553 3.447 20 O -0.578 6.578 21 C -0.104 4.104 22 C -0.066 4.066 23 C -0.074 4.074 24 C -0.057 4.057 25 Cl -0.041 7.041 26 C 0.089 3.911 27 F -0.133 7.133 28 C -0.096 4.096 29 C -0.125 4.125 30 H 0.249 0.751 31 H 0.032 0.968 32 H 0.095 0.905 33 H 0.089 0.911 34 H 0.041 0.959 35 H 0.416 0.584 36 H 0.180 0.820 37 H 0.187 0.813 38 H 0.144 0.856 39 H 0.103 0.897 40 H 0.047 0.953 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -5.975 -24.147 0.090 24.876 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 -0.592 5.592 2 C -0.255 4.255 3 Si 0.802 3.198 4 H -0.217 1.217 5 H -0.217 1.217 6 H -0.203 1.203 7 C -0.353 4.353 8 H 0.087 0.913 9 N -0.341 5.341 10 C 0.030 3.970 11 H 0.138 0.862 12 C -0.163 4.163 13 C -0.155 4.155 14 C 0.008 3.992 15 H 0.081 0.919 16 C 0.040 3.960 17 H 0.073 0.927 18 N -0.338 5.338 19 C 0.341 3.659 20 O -0.459 6.459 21 C -0.107 4.107 22 C -0.085 4.085 23 C -0.092 4.092 24 C -0.085 4.085 25 Cl -0.012 7.012 26 C 0.069 3.931 27 F -0.112 7.112 28 C -0.116 4.116 29 C -0.165 4.165 30 H 0.059 0.941 31 H 0.051 0.949 32 H 0.113 0.887 33 H 0.107 0.893 34 H 0.060 0.940 35 H 0.256 0.744 36 H 0.197 0.803 37 H 0.204 0.796 38 H 0.161 0.839 39 H 0.121 0.879 40 H 0.066 0.934 Dipole moment (debyes) X Y Z Total from point charges -5.204 -23.707 -0.223 24.273 hybrid contribution 0.967 0.870 -0.131 1.307 sum -4.238 -22.837 -0.354 23.230 Atomic orbital electron populations 1.69654 1.05742 1.25031 1.58757 1.25365 0.96554 1.00020 1.03525 0.85150 0.77544 0.79812 0.77247 1.21709 1.21722 1.20310 1.19274 0.90435 0.83676 1.41933 0.91319 1.46744 1.03181 0.99387 1.84776 1.23708 0.85773 0.95576 0.91897 0.86227 1.23128 0.96767 0.98039 0.98409 1.22985 0.96458 0.99423 0.96683 1.23354 0.95828 0.84903 0.95093 0.91909 1.22131 0.97565 0.78458 0.97847 0.92676 1.45823 1.19324 1.05452 1.63154 1.18454 0.83511 0.86370 0.77554 1.90800 1.27627 1.80868 1.46566 1.19753 0.96254 0.91756 1.02938 1.21726 0.95487 0.96320 0.94947 1.21324 0.99222 0.91011 0.97665 1.21453 0.95196 0.87743 1.04064 1.98412 1.95957 1.11103 1.95762 1.17296 0.86836 0.86682 1.02248 1.91540 1.62936 1.67270 1.89413 1.21159 1.01012 0.90087 0.99323 1.23135 0.95259 0.98260 0.99852 0.94127 0.94879 0.88714 0.89272 0.93988 0.74385 0.80269 0.79609 0.83866 0.87856 0.93425 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 -0.94 -53.65 10.47 21.65 0.23 -53.43 16 2 C -0.06 -3.44 5.50 84.86 0.47 -2.97 16 3 Si 0.97 45.77 29.55 68.60 2.03 47.79 16 4 H -0.29 -13.55 7.11 99.48 0.71 -12.84 16 5 H -0.29 -13.58 7.11 99.48 0.71 -12.87 16 6 H -0.28 -12.71 7.11 99.48 0.71 -12.00 16 7 C -0.22 -12.52 10.59 84.03 0.89 -11.63 16 8 H 0.07 3.83 7.83 -2.91 -0.02 3.81 16 9 N -0.62 -30.43 2.98 -615.22 -1.83 -32.26 16 10 C 0.14 5.76 4.72 46.21 0.22 5.98 16 11 H 0.12 6.02 5.52 -2.39 -0.01 6.00 16 12 C -0.12 -4.16 6.46 32.57 0.21 -3.95 16 13 C -0.12 -3.77 6.42 32.59 0.21 -3.56 16 14 C 0.12 4.66 5.30 46.25 0.25 4.91 16 15 H 0.06 2.75 8.14 -2.39 -0.02 2.73 16 16 C 0.15 4.98 3.08 46.61 0.14 5.12 16 17 H 0.05 2.23 7.71 -2.39 -0.02 2.21 16 18 N -0.69 -16.09 3.61 -437.83 -1.58 -17.67 16 19 C 0.55 14.71 7.77 86.77 0.67 15.38 16 20 O -0.58 -21.28 16.08 -3.89 -0.06 -21.35 16 21 C -0.10 -1.98 5.87 -20.09 -0.12 -2.09 16 22 C -0.07 -0.70 9.54 22.52 0.21 -0.48 16 23 C -0.07 -0.69 9.81 22.25 0.22 -0.47 16 24 C -0.06 -0.84 6.33 22.44 0.14 -0.69 16 25 Cl -0.04 -0.59 28.60 -2.72 -0.08 -0.67 16 26 C 0.09 1.71 7.26 22.35 0.16 1.87 16 27 F -0.13 -2.87 16.83 44.97 0.76 -2.11 16 28 C -0.10 -2.01 9.57 22.57 0.22 -1.79 16 29 C -0.13 -4.19 6.20 32.19 0.20 -3.99 16 30 H 0.25 13.82 8.31 -92.71 -0.77 13.05 16 31 H 0.03 1.24 8.14 -2.39 -0.02 1.22 16 32 H 0.09 2.26 7.82 -2.39 -0.02 2.24 16 33 H 0.09 2.16 6.56 -2.38 -0.02 2.14 16 34 H 0.04 1.46 8.14 -2.39 -0.02 1.44 16 35 H 0.42 6.10 6.08 -92.71 -0.56 5.53 16 36 H 0.18 0.63 6.40 -2.91 -0.02 0.61 16 37 H 0.19 0.48 8.06 -2.91 -0.02 0.46 16 38 H 0.14 3.37 7.65 -2.91 -0.02 3.35 16 39 H 0.10 2.43 7.34 -2.39 -0.02 2.41 16 40 H 0.05 1.78 8.14 -2.39 -0.02 1.76 16 Total: -1.00 -70.90 345.68 4.08 -66.82 By element: Atomic # 1 Polarization: 10.72 SS G_CDS: 0.54 Total: 11.25 kcal Atomic # 6 Polarization: -2.47 SS G_CDS: 4.09 Total: 1.63 kcal Atomic # 7 Polarization: -100.17 SS G_CDS: -3.19 Total: -103.36 kcal Atomic # 8 Polarization: -21.28 SS G_CDS: -0.06 Total: -21.35 kcal Atomic # 9 Polarization: -2.87 SS G_CDS: 0.76 Total: -2.11 kcal Atomic # 14 Polarization: 45.77 SS G_CDS: 2.03 Total: 47.79 kcal Atomic # 17 Polarization: -0.59 SS G_CDS: -0.08 Total: -0.67 kcal Total: -70.90 4.08 -66.82 kcal The number of atoms in the molecule is 40 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. ZINC001096060104.mol2 40 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 41.939 kcal (2) G-P(sol) polarization free energy of solvation -70.900 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -28.961 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.085 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -66.815 kcal (6) G-S(sol) free energy of system = (1) + (5) -24.876 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.67 seconds