Wall clock time and date at job start Tue Mar 31 2020 20:14:20 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 C 2 2 C 1.50706 * 1 3 3 C 1.40359 * 126.64711 * 2 1 4 4 C 1.35131 * 107.11799 * 179.97438 * 3 2 1 5 5 O 1.33934 * 108.76298 * 359.76896 * 4 3 2 6 6 C 1.34915 * 109.38564 * 0.38090 * 5 4 3 7 7 C 1.46658 * 125.98490 * 179.88702 * 6 5 4 8 8 O 1.21699 * 119.99513 * 179.69322 * 7 6 5 9 9 N 1.34771 * 120.00042 * 359.69084 * 7 6 5 10 10 C 1.46505 * 119.99611 * 180.02562 * 9 7 6 11 11 C 1.53009 * 109.46831 * 174.96827 * 10 9 7 12 12 N 1.46495 * 115.54715 * 85.77478 * 11 10 9 13 13 C 1.34779 * 120.00375 * 65.40694 * 12 11 10 14 14 O 1.21283 * 119.99626 * 354.97760 * 13 12 11 15 15 C 1.50700 * 120.00262 * 174.97499 * 13 12 11 16 16 S 1.81006 * 109.46951 * 180.02562 * 15 13 12 17 17 C 1.76199 * 99.99857 * 180.02562 * 16 15 13 18 18 H 1.08003 * 119.99846 * 359.97438 * 17 16 15 19 19 C 1.38795 * 120.00231 * 180.02562 * 17 16 15 20 20 N 1.31634 * 119.99666 * 359.97438 * 19 17 16 21 21 Si 1.86799 * 120.00450 * 179.97438 * 19 17 16 22 22 H 1.48500 * 109.46982 * 59.99762 * 21 19 17 23 23 H 1.48491 * 109.47305 * 179.97438 * 21 19 17 24 24 H 1.48506 * 109.46901 * 299.99969 * 21 19 17 25 25 C 1.52993 * 117.49722 * 231.44326 * 11 10 9 26 26 C 1.52997 * 117.49928 * 300.10289 * 11 10 9 27 27 H 1.09002 * 109.46909 * 270.03929 * 1 2 3 28 28 H 1.08999 * 109.47266 * 30.04205 * 1 2 3 29 29 H 1.08994 * 109.47133 * 150.04449 * 1 2 3 30 30 H 1.08005 * 126.44144 * 359.96667 * 3 2 1 31 31 H 1.07999 * 125.61616 * 180.02562 * 4 3 2 32 32 H 0.96999 * 120.00486 * 359.97438 * 9 7 6 33 33 H 1.08998 * 109.47545 * 54.97056 * 10 9 7 34 34 H 1.08996 * 109.46839 * 294.96726 * 10 9 7 35 35 H 0.97002 * 119.99938 * 245.40447 * 12 11 10 36 36 H 1.08999 * 109.47302 * 300.00003 * 15 13 12 37 37 H 1.08998 * 109.46945 * 60.00407 * 15 13 12 38 38 H 0.97004 * 119.99765 * 180.02562 * 20 19 17 39 39 H 1.09005 * 117.49813 * 215.00448 * 25 11 10 40 40 H 1.08997 * 117.50305 * 0.02987 * 25 11 10 41 41 H 1.08999 * 117.49998 * 359.97438 * 26 11 10 42 42 H 1.09000 * 117.49970 * 144.97302 * 26 11 10 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 1.5071 0.0000 0.0000 3 6 2.3448 1.1261 0.0000 4 6 3.6184 0.6744 0.0006 5 8 3.6005 -0.6648 0.0060 6 6 2.3220 -1.0956 0.0006 7 6 1.8843 -2.4953 0.0016 8 8 0.6968 -2.7614 0.0019 9 7 2.7971 -3.4868 0.0022 10 6 2.3598 -4.8851 0.0026 11 6 3.5791 -5.8008 -0.1233 12 7 4.2509 -6.1349 1.1349 13 6 3.6106 -6.8689 2.0665 14 8 2.4486 -7.1756 1.9035 15 6 4.3386 -7.3086 3.3106 16 16 3.2182 -8.2709 4.3569 17 6 4.2974 -8.6438 5.6989 18 1 5.3172 -8.2883 5.6866 19 6 3.8373 -9.3951 6.7714 20 7 2.5945 -9.8287 6.7862 21 14 4.9816 -9.7910 8.1938 22 1 5.4526 -8.5278 8.8165 23 1 4.2535 -10.5992 9.2046 24 1 6.1483 -10.5602 7.6912 25 6 3.5473 -6.8735 -1.2138 26 6 4.4513 -5.6483 -1.3711 27 1 -0.3633 0.0007 1.0277 28 1 -0.3634 0.8896 -0.5145 29 1 -0.3633 -0.8903 -0.5131 30 1 2.0307 2.1595 -0.0005 31 1 4.5047 1.2916 0.0011 32 1 3.7436 -3.2747 0.0015 33 1 1.6885 -5.0561 -0.8390 34 1 1.8372 -5.1019 0.9342 35 1 5.1565 -5.8280 1.2975 36 1 5.1941 -7.9242 3.0326 37 1 4.6845 -6.4319 3.8581 38 1 2.2728 -10.3535 7.5359 39 1 4.0263 -7.8279 -0.9950 40 1 2.6580 -6.9266 -1.8418 41 1 4.1563 -4.8959 -2.1025 42 1 5.5250 -5.7962 -1.2557 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001358647265.mol2 42 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 20:14:20 Heat of formation + Delta-G solvation = -59.599929 kcal Electronic energy + Delta-G solvation = -25894.898975 eV Core-core repulsion = 21967.750430 eV Total energy + Delta-G solvation = -3927.148545 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 338.113 amu Computer time = 0.65 seconds Orbital eigenvalues (eV) -43.68391 -41.27136 -40.34477 -38.51731 -35.70031 -34.84729 -34.59608 -34.01636 -31.54659 -30.57531 -29.28533 -27.72718 -27.55650 -23.99962 -23.61595 -22.64367 -22.14204 -21.25414 -20.65852 -19.85651 -19.25938 -17.84403 -17.74813 -17.41065 -17.09112 -16.88757 -16.86801 -16.36143 -16.22687 -15.77036 -15.58008 -15.08896 -14.81476 -14.55165 -14.46836 -14.13543 -13.95011 -13.90230 -13.67141 -13.54048 -13.43196 -13.17828 -12.87438 -12.81417 -12.63793 -12.46651 -11.98251 -11.77308 -11.59176 -11.27772 -11.13736 -10.86015 -10.68703 -10.34895 -10.28202 -10.12416 -9.58407 -8.67785 -8.35330 -6.13689 -0.00132 1.24347 1.40142 1.43069 1.44963 1.54582 1.58431 1.61129 2.02968 2.09057 2.13632 2.26899 2.77840 2.98674 3.28737 3.43971 3.67975 3.76991 3.80289 3.85745 3.93914 3.97874 4.28946 4.42763 4.48841 4.52141 4.53054 4.61858 4.70771 4.72097 4.75360 4.79897 4.96307 5.08873 5.10219 5.16866 5.23804 5.40354 5.44200 5.50095 5.83899 6.18525 6.37782 6.48085 6.95796 7.05655 7.24679 8.73618 Molecular weight = 338.11amu Principal moments of inertia in cm(-1) A = 0.013693 B = 0.002346 C = 0.002189 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2044.283554 B =11932.777163 C =12785.323157 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.096 4.096 2 C -0.096 4.096 3 C -0.237 4.237 4 C 0.018 3.982 5 O -0.168 6.168 6 C -0.118 4.118 7 C 0.596 3.404 8 O -0.558 6.558 9 N -0.700 5.700 10 C 0.158 3.842 11 C 0.062 3.938 12 N -0.682 5.682 13 C 0.536 3.464 14 O -0.553 6.553 15 C -0.128 4.128 16 S -0.152 6.152 17 C -0.546 4.546 18 H 0.083 0.917 19 C 0.012 3.988 20 N -0.912 5.912 21 Si 0.999 3.001 22 H -0.262 1.262 23 H -0.280 1.280 24 H -0.260 1.260 25 C -0.169 4.169 26 C -0.122 4.122 27 H 0.071 0.929 28 H 0.091 0.909 29 H 0.064 0.936 30 H 0.182 0.818 31 H 0.258 0.742 32 H 0.417 0.583 33 H 0.082 0.918 34 H 0.046 0.954 35 H 0.420 0.580 36 H 0.112 0.888 37 H 0.107 0.893 38 H 0.271 0.729 39 H 0.097 0.903 40 H 0.107 0.893 41 H 0.124 0.876 42 H 0.129 0.871 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 9.590 22.725 -19.868 31.673 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 -0.153 4.153 2 C -0.099 4.099 3 C -0.256 4.256 4 C -0.051 4.051 5 O -0.064 6.064 6 C -0.169 4.169 7 C 0.384 3.616 8 O -0.439 6.439 9 N -0.351 5.351 10 C 0.033 3.967 11 C -0.026 4.026 12 N -0.337 5.337 13 C 0.322 3.678 14 O -0.430 6.430 15 C -0.280 4.280 16 S 0.075 5.925 17 C -0.694 4.694 18 H 0.102 0.898 19 C -0.193 4.193 20 N -0.548 5.548 21 Si 0.820 3.180 22 H -0.187 1.187 23 H -0.205 1.205 24 H -0.185 1.185 25 C -0.208 4.208 26 C -0.160 4.160 27 H 0.089 0.911 28 H 0.110 0.890 29 H 0.083 0.917 30 H 0.199 0.801 31 H 0.274 0.726 32 H 0.254 0.746 33 H 0.100 0.900 34 H 0.064 0.936 35 H 0.258 0.742 36 H 0.130 0.870 37 H 0.125 0.875 38 H 0.080 0.920 39 H 0.116 0.884 40 H 0.126 0.874 41 H 0.142 0.858 42 H 0.147 0.853 Dipole moment (debyes) X Y Z Total from point charges 6.959 21.669 -20.051 30.332 hybrid contribution 1.948 0.052 1.472 2.442 sum 8.907 21.721 -18.579 29.939 Atomic orbital electron populations 1.20431 0.88367 1.03648 1.02846 1.21035 0.98151 0.92076 0.98684 1.22099 0.92400 1.00642 1.10450 1.25367 1.01346 0.79605 0.98811 1.84040 1.27108 1.24218 1.70989 1.21519 0.82712 0.93973 1.18741 1.16831 0.85448 0.82889 0.76462 1.90852 1.17358 1.83165 1.52499 1.45734 1.10299 1.05233 1.73858 1.20882 0.94938 0.78662 1.02195 1.20687 0.97574 1.02695 0.81605 1.45063 1.18699 1.54225 1.15687 1.20108 0.86478 0.77236 0.83966 1.90708 1.18069 1.56038 1.78153 1.23363 1.03216 1.04372 0.97001 1.85636 1.19586 1.67100 1.20182 1.23171 0.99907 1.39879 1.06470 0.89844 1.26153 0.97340 0.94556 1.01230 1.70187 1.17124 1.35059 1.32472 0.84997 0.77765 0.78716 0.76481 1.18680 1.20466 1.18490 1.23448 1.03231 0.94664 0.99410 1.23496 0.98799 0.99525 0.94134 0.91062 0.89014 0.91716 0.80087 0.72609 0.74636 0.90012 0.93594 0.74189 0.86987 0.87457 0.92010 0.88449 0.87447 0.85768 0.85260 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 -0.10 -1.92 9.82 71.24 0.70 -1.22 16 2 C -0.10 -1.96 6.20 -19.74 -0.12 -2.08 16 3 C -0.24 -3.02 10.83 22.07 0.24 -2.78 16 4 C 0.02 0.17 12.08 67.10 0.81 0.98 16 5 O -0.17 -2.76 10.40 -5.08 -0.05 -2.81 16 6 C -0.12 -2.65 7.13 24.07 0.17 -2.48 16 7 C 0.60 16.20 7.79 86.44 0.67 16.87 16 8 O -0.56 -19.30 14.73 -4.35 -0.06 -19.37 16 9 N -0.70 -15.53 5.44 -467.09 -2.54 -18.07 16 10 C 0.16 4.16 5.63 86.38 0.49 4.64 16 11 C 0.06 1.31 1.79 3.60 0.01 1.32 16 12 N -0.68 -16.11 5.45 -422.93 -2.31 -18.42 16 13 C 0.54 19.40 7.66 87.66 0.67 20.07 16 14 O -0.55 -25.47 14.64 -3.04 -0.04 -25.52 16 15 C -0.13 -5.01 6.16 71.24 0.44 -4.58 16 16 S -0.15 -8.51 20.57 -56.49 -1.16 -9.67 16 17 C -0.55 -31.29 9.50 67.95 0.65 -30.65 16 18 H 0.08 4.40 7.80 -2.91 -0.02 4.38 16 19 C 0.01 0.68 5.49 84.86 0.47 1.15 16 20 N -0.91 -56.65 13.22 21.65 0.29 -56.36 16 21 Si 1.00 43.73 29.55 68.60 2.03 45.75 16 22 H -0.26 -10.88 7.11 99.48 0.71 -10.17 16 23 H -0.28 -11.97 7.11 99.48 0.71 -11.26 16 24 H -0.26 -10.74 7.11 99.48 0.71 -10.03 16 25 C -0.17 -3.16 10.11 30.62 0.31 -2.86 16 26 C -0.12 -1.41 9.94 30.62 0.30 -1.11 16 27 H 0.07 1.44 8.14 -2.39 -0.02 1.42 16 28 H 0.09 1.28 8.14 -2.39 -0.02 1.26 16 29 H 0.06 1.59 6.44 -2.39 -0.02 1.58 16 30 H 0.18 1.25 8.06 -2.91 -0.02 1.23 16 31 H 0.26 -0.26 8.06 -2.91 -0.02 -0.28 16 32 H 0.42 6.75 8.12 -92.71 -0.75 6.00 16 33 H 0.08 2.15 7.89 -2.39 -0.02 2.13 16 34 H 0.05 1.67 6.83 -2.39 -0.02 1.65 16 35 H 0.42 6.67 8.83 -92.71 -0.82 5.85 16 36 H 0.11 3.88 8.14 -2.40 -0.02 3.86 16 37 H 0.11 3.79 8.14 -2.40 -0.02 3.77 16 38 H 0.27 15.66 8.31 -92.71 -0.77 14.89 16 39 H 0.10 1.99 8.14 -2.38 -0.02 1.97 16 40 H 0.11 1.94 8.05 -2.39 -0.02 1.92 16 41 H 0.12 1.08 8.14 -2.39 -0.02 1.06 16 42 H 0.13 0.93 8.14 -2.39 -0.02 0.91 16 Total: -1.00 -86.46 380.85 1.44 -85.01 By element: Atomic # 1 Polarization: 22.65 SS G_CDS: -0.50 Total: 22.16 kcal Atomic # 6 Polarization: -8.51 SS G_CDS: 5.80 Total: -2.71 kcal Atomic # 7 Polarization: -88.29 SS G_CDS: -4.56 Total: -92.85 kcal Atomic # 8 Polarization: -47.53 SS G_CDS: -0.16 Total: -47.69 kcal Atomic # 14 Polarization: 43.73 SS G_CDS: 2.03 Total: 45.75 kcal Atomic # 16 Polarization: -8.51 SS G_CDS: -1.16 Total: -9.67 kcal Total: -86.46 1.44 -85.01 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. ZINC001358647265.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 25.412 kcal (2) G-P(sol) polarization free energy of solvation -86.456 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -61.044 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.444 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -85.012 kcal (6) G-S(sol) free energy of system = (1) + (5) -59.600 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.65 seconds