Wall clock time and date at job start Tue Mar 31 2020 23:41:07 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 1.31516 * 1 3 3 Si 1.86800 * 119.99710 * 2 1 4 4 H 1.48501 * 109.46758 * 90.00167 * 3 2 1 5 5 H 1.48499 * 109.47026 * 210.00015 * 3 2 1 6 6 H 1.48496 * 109.47474 * 330.00050 * 3 2 1 7 7 C 1.37871 * 119.99826 * 180.27590 * 2 1 3 8 8 H 1.08002 * 120.00482 * 359.72746 * 7 2 1 9 9 C 1.50702 * 120.00072 * 179.72119 * 7 2 1 10 10 N 1.46495 * 109.47571 * 180.02562 * 9 7 2 11 11 C 1.34957 * 125.97696 * 124.71669 * 10 9 7 12 12 C 1.35245 * 107.86843 * 179.83761 * 11 10 9 13 13 C 1.40440 * 107.85969 * 0.42548 * 12 11 10 14 14 N 1.39973 * 125.97705 * 179.69963 * 13 12 11 15 15 S 1.65602 * 120.00293 * 180.02562 * 14 13 12 16 16 O 1.42096 * 104.28161 * 181.07476 * 15 14 13 17 17 O 1.42106 * 104.27461 * 308.93070 * 15 14 13 18 18 C 1.81391 * 104.45016 * 64.99842 * 15 14 13 19 19 C 1.53006 * 109.47394 * 180.02562 * 18 15 14 20 20 C 1.50695 * 109.47013 * 179.97438 * 19 18 15 21 21 C 1.33389 * 125.20144 * 90.00355 * 20 19 18 22 22 C 1.38424 * 114.92295 * 179.97438 * 21 20 19 23 23 C 1.33390 * 114.91914 * 359.97438 * 22 21 20 24 24 S 1.75887 * 109.59500 * 359.75801 * 23 22 21 25 25 N 1.31227 * 108.04378 * 359.73810 * 13 12 11 26 26 H 0.96999 * 120.00128 * 359.97438 * 1 2 3 27 27 H 1.09000 * 109.47047 * 300.00890 * 9 7 2 28 28 H 1.09001 * 109.46702 * 60.00291 * 9 7 2 29 29 H 1.08007 * 126.06605 * 0.02562 * 11 10 9 30 30 H 1.08000 * 126.07198 * 180.12480 * 12 11 10 31 31 H 0.97004 * 120.00420 * 0.02562 * 14 13 12 32 32 H 1.09000 * 109.47517 * 300.00305 * 18 15 14 33 33 H 1.09000 * 109.46980 * 60.00182 * 18 15 14 34 34 H 1.09000 * 109.46831 * 300.00472 * 19 18 15 35 35 H 1.09000 * 109.46467 * 60.00398 * 19 18 15 36 36 H 1.08000 * 122.54524 * 359.95483 * 21 20 19 37 37 H 1.07997 * 122.54436 * 180.02562 * 22 21 20 38 38 H 1.08001 * 125.20204 * 180.02562 * 23 22 21 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 1.3152 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 2.4966 2.0464 1.4001 5 1 3.5466 1.4403 -0.7000 6 1 1.4466 2.6527 -0.7000 7 6 2.0045 -1.1940 -0.0057 8 1 1.4645 -2.1294 -0.0058 9 6 3.5115 -1.1940 -0.0121 10 7 3.9999 -2.5752 -0.0181 11 6 4.8468 -3.1127 -0.9209 12 6 5.0539 -4.4045 -0.5778 13 6 4.2968 -4.6707 0.5747 14 7 4.2279 -5.8957 1.2484 15 16 3.2825 -6.0454 2.5998 16 8 3.4780 -7.3896 3.0172 17 8 3.6760 -4.9575 3.4250 18 6 1.5888 -5.8062 1.9961 19 6 0.6092 -5.9221 3.1658 20 6 -0.7977 -5.7227 2.6643 21 6 -1.6035 -6.6925 2.2288 22 6 -2.8555 -6.2696 1.8167 23 6 -3.0666 -4.9564 1.9181 24 16 -1.6318 -4.1769 2.5718 25 7 3.6646 -3.5704 0.9089 26 1 -0.4850 0.8400 0.0004 27 1 3.8711 -0.6780 -0.9023 28 1 3.8785 -0.6824 0.8776 29 1 5.2842 -2.6012 -1.7656 30 1 5.6852 -5.1078 -1.1004 31 1 4.7339 -6.6570 0.9239 32 1 1.5000 -4.8180 1.5449 33 1 1.3576 -6.5678 1.2514 34 1 0.6979 -6.9101 3.6174 35 1 0.8406 -5.1602 3.9101 36 1 -1.3019 -7.7291 2.1996 37 1 -3.6048 -6.9512 1.4424 38 1 -3.9805 -4.4499 1.6449 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC000357139909.mol2 38 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 23:41:07 Heat of formation + Delta-G solvation = 20.367172 kcal Electronic energy + Delta-G solvation = -24880.061950 eV Core-core repulsion = 21170.563426 eV Total energy + Delta-G solvation = -3709.498524 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 341.065 amu Computer time = 0.70 seconds Orbital eigenvalues (eV) -42.02749 -38.95310 -38.33648 -37.23839 -36.67526 -35.12240 -35.09535 -32.84674 -30.95961 -29.76168 -28.88370 -25.92229 -24.65121 -23.56873 -22.30250 -22.03477 -20.19940 -20.14079 -19.11476 -18.83792 -18.50097 -17.93487 -17.47368 -17.14686 -16.55745 -16.42083 -16.23463 -15.52165 -15.37423 -14.79232 -14.58568 -14.46159 -14.28091 -14.10299 -13.93379 -13.57208 -13.39067 -13.33610 -13.30112 -13.23996 -13.20479 -13.03559 -12.72425 -12.39100 -12.29576 -11.95444 -11.81575 -11.70165 -11.53054 -11.34744 -10.83906 -9.87888 -9.64389 -9.48688 -9.16854 -8.32526 -6.41568 -0.98541 0.04456 0.68522 1.12664 1.16126 1.18898 1.36733 1.39972 1.47292 1.80398 1.94350 2.00348 2.30419 2.56553 2.99832 3.11050 3.45905 3.58313 3.69870 3.75906 4.07830 4.20575 4.27063 4.35228 4.45401 4.67776 4.71671 4.74166 4.77620 4.83416 4.90273 4.99159 5.15602 5.27071 5.31183 5.59077 5.72081 5.95562 6.04787 6.42696 6.63797 6.92619 7.20403 8.83155 Molecular weight = 341.07amu Principal moments of inertia in cm(-1) A = 0.007798 B = 0.005381 C = 0.003462 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 3589.884648 B = 5201.782718 C = 8085.219881 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.935 5.935 2 C 0.019 3.981 3 Si 0.944 3.056 4 H -0.273 1.273 5 H -0.227 1.227 6 H -0.280 1.280 7 C -0.542 4.542 8 H 0.034 0.966 9 C 0.236 3.764 10 N -0.343 5.343 11 C 0.072 3.928 12 C -0.293 4.293 13 C 0.275 3.725 14 N -1.003 6.003 15 S 2.628 3.372 16 O -0.961 6.961 17 O -0.974 6.974 18 C -0.609 4.609 19 C -0.043 4.043 20 C -0.182 4.182 21 C -0.132 4.132 22 C -0.135 4.135 23 C -0.217 4.217 24 S 0.042 5.958 25 N -0.360 5.360 26 H 0.269 0.731 27 H 0.087 0.913 28 H 0.037 0.963 29 H 0.216 0.784 30 H 0.186 0.814 31 H 0.447 0.553 32 H 0.119 0.881 33 H 0.163 0.837 34 H 0.130 0.870 35 H 0.079 0.921 36 H 0.173 0.827 37 H 0.173 0.827 38 H 0.179 0.821 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 3.135 -13.866 -0.894 14.244 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 -0.574 5.574 2 C -0.181 4.181 3 Si 0.766 3.234 4 H -0.199 1.199 5 H -0.150 1.150 6 H -0.205 1.205 7 C -0.581 4.581 8 H 0.052 0.948 9 C 0.116 3.884 10 N -0.124 5.124 11 C -0.076 4.076 12 C -0.326 4.326 13 C 0.018 3.982 14 N -0.759 5.759 15 S 2.723 3.277 16 O -0.951 6.951 17 O -0.963 6.963 18 C -0.740 4.740 19 C -0.083 4.083 20 C -0.301 4.301 21 C -0.163 4.163 22 C -0.165 4.165 23 C -0.353 4.353 24 S 0.306 5.694 25 N -0.191 5.191 26 H 0.078 0.922 27 H 0.105 0.895 28 H 0.055 0.945 29 H 0.233 0.767 30 H 0.203 0.797 31 H 0.288 0.712 32 H 0.138 0.862 33 H 0.181 0.819 34 H 0.148 0.852 35 H 0.098 0.902 36 H 0.190 0.810 37 H 0.190 0.810 38 H 0.196 0.804 Dipole moment (debyes) X Y Z Total from point charges 2.763 -11.645 1.250 12.033 hybrid contribution -0.398 -0.743 -1.417 1.649 sum 2.365 -12.388 -0.167 12.613 Atomic orbital electron populations 1.70047 1.08290 1.28385 1.50632 1.25791 0.95682 1.03054 0.93532 0.85782 0.80231 0.78103 0.79256 1.19872 1.14953 1.20491 1.21208 0.90319 0.93865 1.52675 0.94796 1.19919 0.94439 0.74521 0.99514 1.48457 1.34614 1.09847 1.19514 1.23295 0.93669 0.94671 0.95976 1.21395 1.12377 0.97819 1.00972 1.19109 0.98321 0.86234 0.94515 1.52465 1.61505 1.14774 1.47108 1.04478 0.77032 0.73079 0.73149 1.93588 1.85527 1.36238 1.79768 1.93601 1.80603 1.56594 1.65549 1.30500 1.19996 1.13126 1.10418 1.19913 0.88116 1.05621 0.94654 1.24280 1.00075 0.95512 1.10188 1.20526 0.93494 1.01217 1.01040 1.20519 0.98371 0.95011 1.02629 1.25939 1.01934 0.98450 1.08948 1.85458 1.09054 1.11655 1.63222 1.77386 1.27399 0.96717 1.17591 0.92190 0.89493 0.94541 0.76725 0.79719 0.71246 0.86229 0.81911 0.85226 0.90189 0.80998 0.80992 0.80383 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 -0.93 -56.53 13.96 21.45 0.30 -56.23 16 2 C 0.02 1.04 5.47 84.65 0.46 1.51 16 3 Si 0.94 40.42 27.47 68.60 1.88 42.31 16 4 H -0.27 -11.74 7.11 99.48 0.71 -11.03 16 5 H -0.23 -8.25 6.54 99.48 0.65 -7.60 16 6 H -0.28 -11.81 7.11 99.48 0.71 -11.10 16 7 C -0.54 -30.28 9.79 25.60 0.25 -30.03 16 8 H 0.03 2.19 8.06 -2.91 -0.02 2.17 16 9 C 0.24 10.51 5.33 85.63 0.46 10.97 16 10 N -0.34 -14.19 3.67 -351.85 -1.29 -15.48 16 11 C 0.07 2.18 11.43 83.52 0.95 3.13 16 12 C -0.29 -8.18 10.83 22.12 0.24 -7.94 16 13 C 0.28 9.48 7.59 133.39 1.01 10.50 16 14 N -1.00 -27.36 5.81 -54.61 -0.32 -27.68 16 15 S 2.63 79.73 5.21 -56.49 -0.29 79.43 16 16 O -0.96 -28.48 18.08 -127.65 -2.31 -30.79 16 17 O -0.97 -39.30 17.30 -127.65 -2.21 -41.51 16 18 C -0.61 -17.68 5.98 71.98 0.43 -17.24 16 19 C -0.04 -1.16 5.72 29.85 0.17 -0.99 16 20 C -0.18 -5.33 5.76 24.59 0.14 -5.19 16 21 C -0.13 -3.11 10.05 21.22 0.21 -2.90 16 22 C -0.14 -3.09 10.18 21.22 0.22 -2.88 16 23 C -0.22 -5.95 11.23 66.72 0.75 -5.20 16 24 S 0.04 1.47 23.33 -56.49 -1.32 0.15 16 25 N -0.36 -15.76 10.73 -54.55 -0.59 -16.34 16 26 H 0.27 15.15 8.31 -92.71 -0.77 14.38 16 27 H 0.09 3.28 7.12 -2.39 -0.02 3.27 16 28 H 0.04 1.64 7.57 -2.39 -0.02 1.62 16 29 H 0.22 4.30 8.06 -2.91 -0.02 4.28 16 30 H 0.19 3.44 8.06 -2.91 -0.02 3.42 16 31 H 0.45 8.33 8.92 -96.74 -0.86 7.47 16 32 H 0.12 4.48 7.41 -2.39 -0.02 4.47 16 33 H 0.16 3.59 8.14 -2.39 -0.02 3.57 16 34 H 0.13 2.55 8.14 -2.39 -0.02 2.53 16 35 H 0.08 2.34 8.14 -2.39 -0.02 2.32 16 36 H 0.17 2.83 8.06 -2.91 -0.02 2.81 16 37 H 0.17 2.70 8.06 -2.91 -0.02 2.68 16 38 H 0.18 4.11 8.06 -2.91 -0.02 4.08 16 Total: -1.00 -82.43 357.75 -0.66 -83.08 By element: Atomic # 1 Polarization: 29.15 SS G_CDS: 0.18 Total: 29.33 kcal Atomic # 6 Polarization: -51.57 SS G_CDS: 5.30 Total: -46.28 kcal Atomic # 7 Polarization: -113.84 SS G_CDS: -1.89 Total: -115.73 kcal Atomic # 8 Polarization: -67.79 SS G_CDS: -4.52 Total: -72.30 kcal Atomic # 14 Polarization: 40.42 SS G_CDS: 1.88 Total: 42.31 kcal Atomic # 16 Polarization: 81.20 SS G_CDS: -1.61 Total: 79.59 kcal Total: -82.43 -0.66 -83.08 kcal The number of atoms in the molecule is 38 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. ZINC000357139909.mol2 38 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 103.451 kcal (2) G-P(sol) polarization free energy of solvation -82.425 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 21.026 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.659 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -83.084 kcal (6) G-S(sol) free energy of system = (1) + (5) 20.367 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.70 seconds