Wall clock time and date at job start Wed Apr 1 2020 04:47:40 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 1.30861 * 1 3 3 Si 1.86798 * 119.99876 * 2 1 4 4 H 1.48499 * 109.47330 * 270.00034 * 3 2 1 5 5 H 1.48503 * 109.47420 * 30.00148 * 3 2 1 6 6 H 1.48500 * 109.47313 * 150.00102 * 3 2 1 7 7 C 1.39901 * 120.00390 * 180.02562 * 2 1 3 8 8 H 1.08005 * 120.00376 * 175.56071 * 7 2 1 9 9 C 1.41154 * 119.99866 * 355.55953 * 7 2 1 10 10 C 1.40870 * 120.16513 * 214.78480 * 9 7 2 11 11 C 1.36371 * 119.83143 * 180.02562 * 10 9 7 12 12 C 1.39488 * 120.16956 * 359.97438 * 11 10 9 13 13 N 1.39233 * 119.83644 * 179.97438 * 12 11 10 14 14 C 1.34777 * 119.99703 * 35.29014 * 13 12 11 15 15 O 1.21283 * 120.00543 * 355.70452 * 14 13 12 16 16 C 1.50707 * 119.99950 * 175.70846 * 14 13 12 17 17 S 1.80993 * 109.47197 * 179.97438 * 16 14 13 18 18 C 1.76199 * 100.00133 * 179.97438 * 17 16 14 19 19 N 1.32503 * 119.14693 * 179.97438 * 18 17 16 20 20 C 1.33097 * 120.80115 * 180.02562 * 19 18 17 21 21 N 1.38620 * 120.43743 * 180.02562 * 20 19 18 22 22 C 1.39186 * 119.12843 * 0.27577 * 20 19 18 23 23 C 1.39187 * 118.42955 * 359.48499 * 22 20 19 24 24 N 1.38621 * 120.43692 * 180.21608 * 23 22 20 25 25 N 1.32514 * 119.14354 * 0.02805 * 18 17 16 26 26 C 1.39484 * 120.32812 * 0.25502 * 12 11 10 27 27 C 1.36370 * 120.17032 * 359.48081 * 26 12 11 28 28 H 0.97003 * 120.00862 * 359.97438 * 1 2 3 29 29 H 1.08002 * 120.08405 * 359.97438 * 10 9 7 30 30 H 1.08000 * 119.91932 * 179.97438 * 11 10 9 31 31 H 0.97000 * 119.99944 * 215.28664 * 13 12 11 32 32 H 1.09007 * 109.46909 * 59.99737 * 16 14 13 33 33 H 1.08999 * 109.46989 * 299.99813 * 16 14 13 34 34 H 0.97006 * 119.99716 * 0.02562 * 21 20 19 35 35 H 0.97002 * 120.00053 * 179.72541 * 21 20 19 36 36 H 1.07997 * 120.78873 * 179.72328 * 22 20 19 37 37 H 0.97004 * 120.00581 * 180.29994 * 24 23 22 38 38 H 0.97003 * 120.00161 * 0.30305 * 24 23 22 39 39 H 1.07996 * 119.91288 * 179.74867 * 26 12 11 40 40 H 1.08005 * 120.08879 * 180.25733 * 27 26 12 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 1.3086 0.0000 0.0000 3 14 2.2426 1.6177 0.0000 4 1 2.4901 2.0465 -1.4000 5 1 1.4400 2.6527 0.7001 6 1 3.5401 1.4402 0.7000 7 6 2.0082 -1.2115 -0.0005 8 1 3.0858 -1.2129 -0.0729 9 6 1.3057 -2.4322 0.0936 10 6 1.8649 -3.5186 0.7946 11 6 1.1805 -4.6950 0.8808 12 6 -0.0705 -4.8239 0.2775 13 7 -0.7630 -6.0283 0.3694 14 6 -0.6805 -6.7691 1.4923 15 8 0.0574 -6.4267 2.3919 16 6 -1.5050 -8.0231 1.6301 17 16 -1.1748 -8.7887 3.2365 18 6 -2.2384 -10.1896 3.1322 19 7 -2.2900 -11.0378 4.1489 20 6 -3.0815 -12.1070 4.1049 21 7 -3.1300 -12.9892 5.1731 22 6 -3.8559 -12.3304 2.9702 23 6 -3.7791 -11.4149 1.9246 24 7 -4.5356 -11.5945 0.7770 25 7 -2.9651 -10.3681 2.0386 26 6 -0.6286 -3.7542 -0.4224 27 6 0.0415 -2.5699 -0.5126 28 1 -0.4851 0.8400 0.0004 29 1 2.8337 -3.4204 1.2618 30 1 1.6081 -5.5289 1.4175 31 1 -1.3049 -6.3342 -0.3747 32 1 -1.2416 -8.7203 0.8347 33 1 -2.5632 -7.7719 1.5576 34 1 -2.5851 -12.8290 5.9595 35 1 -3.7121 -13.7642 5.1359 36 1 -4.5041 -13.1917 2.9041 37 1 -4.4739 -10.9548 0.0503 38 1 -5.1267 -12.3597 0.7005 39 1 -1.5959 -3.8628 -0.8903 40 1 -0.3938 -1.7412 -1.0513 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 ZINC000020064807.mol2 40 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 04:47:40 Heat of formation + Delta-G solvation = 17.298679 kcal Electronic energy + Delta-G solvation = -25319.737666 eV Core-core repulsion = 21452.331924 eV Total energy + Delta-G solvation = -3867.405741 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 345.100 amu Computer time = 0.95 seconds Orbital eigenvalues (eV) -41.62222 -41.22501 -39.06247 -37.01034 -36.19292 -35.64365 -34.74901 -32.38786 -31.72154 -31.40217 -30.58402 -30.01186 -26.66281 -25.58000 -23.88807 -23.45730 -22.66615 -21.35446 -19.78145 -19.58853 -19.25099 -18.37051 -17.93688 -17.38878 -17.04760 -16.81747 -16.74283 -16.61416 -16.21004 -16.10152 -15.70049 -15.21711 -15.12022 -15.00122 -14.73959 -14.33010 -14.06152 -13.83660 -13.55291 -13.27979 -13.21338 -12.84001 -12.76178 -12.48166 -12.29021 -12.00129 -11.78560 -11.38695 -11.33127 -11.21899 -10.89165 -10.64169 -10.30163 -9.64431 -9.45387 -9.41703 -8.75387 -8.66803 -8.49566 -6.32228 0.05942 0.09814 0.67178 0.77879 1.02767 1.15546 1.40498 1.43358 1.53958 1.70931 2.24395 2.29778 2.50175 2.60831 2.81402 2.90360 3.63559 3.73179 3.86944 4.05787 4.08447 4.36873 4.41647 4.41976 4.43483 4.55451 4.94851 5.08337 5.14269 5.15387 5.34019 5.43564 5.71122 5.79424 5.90787 6.01632 6.13964 6.23432 6.34812 6.40170 6.49094 6.62099 6.69824 6.97840 7.00098 7.05713 7.29454 7.34857 8.43021 Molecular weight = 345.10amu Principal moments of inertia in cm(-1) A = 0.030921 B = 0.001815 C = 0.001754 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 905.327690 B =15426.354051 C =15959.250481 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.840 5.840 2 C 0.028 3.972 3 Si 0.988 3.012 4 H -0.259 1.259 5 H -0.270 1.270 6 H -0.264 1.264 7 C -0.497 4.497 8 H 0.072 0.928 9 C 0.067 3.933 10 C -0.221 4.221 11 C -0.096 4.096 12 C 0.020 3.980 13 N -0.633 5.633 14 C 0.516 3.484 15 O -0.559 6.559 16 C -0.121 4.121 17 S 0.044 5.956 18 C 0.355 3.645 19 N -0.619 5.619 20 C 0.457 3.543 21 N -0.821 5.821 22 C -0.369 4.369 23 C 0.459 3.541 24 N -0.819 5.819 25 N -0.625 5.625 26 C -0.115 4.115 27 C -0.159 4.159 28 H 0.285 0.715 29 H 0.095 0.905 30 H 0.109 0.891 31 H 0.422 0.578 32 H 0.144 0.856 33 H 0.141 0.859 34 H 0.411 0.589 35 H 0.425 0.575 36 H 0.166 0.834 37 H 0.412 0.588 38 H 0.424 0.576 39 H 0.128 0.872 40 H 0.120 0.880 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -13.653 -25.683 1.183 29.110 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 -0.468 5.468 2 C -0.184 4.184 3 Si 0.809 3.191 4 H -0.183 1.183 5 H -0.194 1.194 6 H -0.188 1.188 7 C -0.528 4.528 8 H 0.090 0.910 9 C 0.065 3.935 10 C -0.241 4.241 11 C -0.116 4.116 12 C -0.074 4.074 13 N -0.278 5.278 14 C 0.302 3.698 15 O -0.438 6.438 16 C -0.272 4.272 17 S 0.278 5.722 18 C -0.024 4.024 19 N -0.353 5.353 20 C 0.210 3.790 21 N -0.365 5.365 22 C -0.405 4.405 23 C 0.213 3.787 24 N -0.363 5.363 25 N -0.360 5.360 26 C -0.135 4.135 27 C -0.180 4.180 28 H 0.095 0.905 29 H 0.113 0.887 30 H 0.127 0.873 31 H 0.260 0.740 32 H 0.162 0.838 33 H 0.159 0.841 34 H 0.241 0.759 35 H 0.259 0.741 36 H 0.184 0.816 37 H 0.243 0.757 38 H 0.258 0.742 39 H 0.146 0.854 40 H 0.138 0.862 Dipole moment (debyes) X Y Z Total from point charges -12.064 -24.206 2.732 27.184 hybrid contribution -1.378 -0.690 -1.142 1.918 sum -13.441 -24.896 1.590 28.338 Atomic orbital electron populations 1.69813 1.08531 1.29965 1.38505 1.26725 0.95826 1.04271 0.91611 0.85114 0.78664 0.75868 0.79482 1.18344 1.19424 1.18775 1.19725 0.94838 0.91357 1.46876 0.90976 1.18060 0.93441 0.92675 0.89360 1.20925 1.01637 0.95518 1.05989 1.20536 0.93754 0.97456 0.99894 1.17282 0.93437 0.87154 1.09488 1.42688 1.48476 1.19646 1.17036 1.20307 0.82613 0.84956 0.81897 1.90737 1.40464 1.71533 1.41108 1.23499 1.05494 0.97222 1.01032 1.86870 1.48092 1.16940 1.20289 1.24455 0.94342 0.97064 0.86579 1.67862 1.28778 1.07567 1.31073 1.18409 0.86532 0.86320 0.87696 1.42098 1.50073 1.27141 1.17222 1.21314 1.14694 1.08111 0.96380 1.18389 0.85755 0.87307 0.87283 1.42087 1.46325 1.32011 1.15888 1.68296 1.15805 1.25641 1.26273 1.20564 0.99355 0.91961 1.01638 1.21183 0.97436 0.96517 1.02821 0.90460 0.88686 0.87302 0.74022 0.83770 0.84076 0.75891 0.74123 0.81612 0.75685 0.74238 0.85449 0.86243 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 17. 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 -0.84 -44.60 10.59 21.82 0.23 -44.36 16 2 C 0.03 1.43 5.42 85.24 0.46 1.89 16 3 Si 0.99 39.55 29.56 68.60 2.03 41.58 16 4 H -0.26 -9.82 7.11 99.48 0.71 -9.12 16 5 H -0.27 -10.33 7.11 99.48 0.71 -9.63 16 6 H -0.26 -10.47 7.11 99.48 0.71 -9.76 16 7 C -0.50 -27.61 9.02 23.39 0.21 -27.39 16 8 H 0.07 3.88 7.85 -2.91 -0.02 3.86 16 9 C 0.07 3.73 5.55 -21.27 -0.12 3.61 16 10 C -0.22 -11.64 9.74 22.48 0.22 -11.42 16 11 C -0.10 -4.68 8.61 22.14 0.19 -4.49 16 12 C 0.02 0.86 6.31 38.57 0.24 1.11 16 13 N -0.63 -20.38 5.30 -303.10 -1.61 -21.99 16 14 C 0.52 17.11 7.68 87.66 0.67 17.78 16 15 O -0.56 -23.98 13.28 -3.04 -0.04 -24.02 16 16 C -0.12 -2.92 5.29 71.24 0.38 -2.54 16 17 S 0.04 1.28 21.38 -56.49 -1.21 0.07 16 18 C 0.36 9.48 7.85 180.45 1.42 10.90 16 19 N -0.62 -16.09 10.43 -194.24 -2.03 -18.11 16 20 C 0.46 8.61 7.81 133.00 1.04 9.65 16 21 N -0.82 -8.52 9.06 -55.26 -0.50 -9.02 16 22 C -0.37 -5.54 9.88 22.73 0.22 -5.32 16 23 C 0.46 7.84 7.81 133.00 1.04 8.88 16 24 N -0.82 -6.83 9.06 -55.26 -0.50 -7.33 16 25 N -0.63 -14.03 9.16 -194.24 -1.78 -15.81 16 26 C -0.12 -5.09 9.90 22.13 0.22 -4.87 16 27 C -0.16 -8.32 8.62 22.48 0.19 -8.12 16 28 H 0.28 13.72 8.30 -92.71 -0.77 12.95 16 29 H 0.09 4.85 8.06 -2.91 -0.02 4.83 16 30 H 0.11 5.25 6.22 -2.91 -0.02 5.23 16 31 H 0.42 9.63 8.82 -92.71 -0.82 8.81 16 32 H 0.14 2.81 8.11 -2.39 -0.02 2.79 16 33 H 0.14 2.88 8.11 -2.40 -0.02 2.86 16 34 H 0.41 4.00 8.95 -92.70 -0.83 3.17 16 35 H 0.43 1.47 8.84 -92.71 -0.82 0.65 16 36 H 0.17 1.25 8.06 -2.91 -0.02 1.22 16 37 H 0.41 2.86 8.95 -92.71 -0.83 2.03 16 38 H 0.42 0.96 8.84 -92.71 -0.82 0.14 16 39 H 0.13 4.64 8.06 -2.91 -0.02 4.62 16 40 H 0.12 6.48 6.13 -2.91 -0.02 6.46 16 Total: -1.00 -76.29 361.93 -1.95 -78.24 By element: Atomic # 1 Polarization: 34.05 SS G_CDS: -2.93 Total: 31.11 kcal Atomic # 6 Polarization: -16.74 SS G_CDS: 6.39 Total: -10.35 kcal Atomic # 7 Polarization: -110.45 SS G_CDS: -6.18 Total: -116.63 kcal Atomic # 8 Polarization: -23.98 SS G_CDS: -0.04 Total: -24.02 kcal Atomic # 14 Polarization: 39.55 SS G_CDS: 2.03 Total: 41.58 kcal Atomic # 16 Polarization: 1.28 SS G_CDS: -1.21 Total: 0.07 kcal Total: -76.29 -1.95 -78.24 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. ZINC000020064807.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 95.535 kcal (2) G-P(sol) polarization free energy of solvation -76.291 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 19.245 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.946 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.237 kcal (6) G-S(sol) free energy of system = (1) + (5) 17.299 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.96 seconds