Wall clock time and date at job start Tue Mar 31 2020 05:29:34 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 1.86799 * 119.99624 * 2 1 4 4 H 1.48506 * 109.46875 * 180.02562 * 3 2 1 5 5 H 1.48502 * 109.47145 * 299.99828 * 3 2 1 6 6 H 1.48495 * 109.47120 * 59.99905 * 3 2 1 7 7 C 1.37880 * 120.00148 * 179.97438 * 2 1 3 8 8 H 1.07994 * 119.99584 * 179.97438 * 7 2 1 9 9 C 1.50699 * 119.99861 * 0.02562 * 7 2 1 10 10 H 1.08995 * 109.47462 * 299.99832 * 9 7 2 11 11 O 1.42903 * 109.47073 * 60.00224 * 9 7 2 12 12 C 1.52999 * 109.46909 * 179.97438 * 9 7 2 13 13 N 1.46899 * 109.47089 * 179.73833 * 12 9 7 14 14 C 1.46848 * 110.99538 * 294.02650 * 13 12 9 15 15 C 1.53045 * 109.51290 * 174.15733 * 14 13 12 16 16 C 1.53116 * 109.27509 * 59.18712 * 15 14 13 17 17 N 1.46508 * 109.52057 * 182.44340 * 16 15 14 18 18 C 1.47095 * 125.55739 * 240.00258 * 17 16 15 19 19 C 1.54085 * 103.77649 * 179.97438 * 18 17 16 20 20 O 1.45711 * 104.00852 * 359.97438 * 19 18 17 21 21 C 1.33766 * 109.47286 * 359.75551 * 20 19 18 22 22 O 1.21516 * 123.06867 * 180.24534 * 21 20 19 23 23 C 1.53112 * 109.16317 * 302.34320 * 16 15 14 24 24 C 1.46852 * 110.99149 * 169.82941 * 13 12 9 25 25 H 0.96999 * 120.00139 * 0.02562 * 1 2 3 26 26 H 0.96692 * 114.00576 * 59.99868 * 11 9 7 27 27 H 1.08997 * 109.47215 * 59.73041 * 12 9 7 28 28 H 1.09008 * 109.47017 * 299.73586 * 12 9 7 29 29 H 1.09003 * 109.45947 * 54.15154 * 14 13 12 30 30 H 1.08999 * 109.46817 * 294.16990 * 14 13 12 31 31 H 1.08999 * 109.50055 * 179.13182 * 15 14 13 32 32 H 1.09008 * 109.49840 * 299.24850 * 15 14 13 33 33 H 1.08996 * 109.52414 * 62.25692 * 16 15 14 34 34 H 1.08998 * 110.56502 * 298.54722 * 18 17 16 35 35 H 1.09002 * 110.56547 * 61.40148 * 18 17 16 36 36 H 1.09002 * 110.52243 * 118.63104 * 19 18 17 37 37 H 1.08997 * 110.52312 * 241.23061 * 19 18 17 38 38 H 1.09000 * 109.50675 * 177.59428 * 23 16 15 39 39 H 1.08995 * 109.50960 * 297.67710 * 23 16 15 40 40 H 1.09000 * 109.47181 * 65.82778 * 24 13 12 41 41 H 1.09000 * 109.45138 * 305.85153 * 24 13 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 1.3152 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 3.7091 1.3465 -0.0006 5 1 1.8903 2.3965 -1.2125 6 1 1.8902 2.3965 1.2124 7 6 2.0046 -1.1941 0.0005 8 1 3.0845 -1.1940 0.0001 9 6 1.2511 -2.4992 0.0005 10 1 0.6241 -2.5568 0.8902 11 8 0.4300 -2.5751 -1.1666 12 6 2.2454 -3.6620 0.0005 13 7 1.5109 -4.9342 0.0069 14 6 0.7688 -5.1071 1.2622 15 6 -0.0961 -6.3667 1.1754 16 6 0.8023 -7.5802 0.9206 17 7 -0.0252 -8.7808 0.7785 18 6 0.0494 -9.9769 1.6314 19 6 -1.0257 -10.9126 1.0460 20 8 -1.5879 -10.1534 -0.0634 21 6 -0.9781 -8.9656 -0.1453 22 8 -1.2596 -8.1321 -0.9835 23 6 1.6001 -7.3535 -0.3664 24 6 2.4158 -6.0653 -0.2350 25 1 -0.4850 0.8400 -0.0004 26 1 0.9224 -2.5300 -1.9975 27 1 2.8752 -3.6016 0.8881 28 1 2.8689 -3.6069 -0.8919 29 1 0.1307 -4.2393 1.4292 30 1 1.4719 -5.2056 2.0892 31 1 -0.6351 -6.5033 2.1129 32 1 -0.8086 -6.2632 0.3570 33 1 1.4891 -7.7070 1.7574 34 1 1.0355 -10.4359 1.5619 35 1 -0.1846 -9.7248 2.6658 36 1 -0.5732 -11.8369 0.6865 37 1 -1.7917 -11.1279 1.7909 38 1 2.2731 -8.1951 -0.5305 39 1 0.9144 -7.2662 -1.2091 40 1 3.1111 -6.1592 0.5991 41 1 2.9739 -5.8932 -1.1554 RHF calculation, no. of doubly occupied orbitals= 54 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). 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 ZINC001336133441.mol2 41 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 05:29:34 Heat of formation + Delta-G solvation = -138.080479 kcal Electronic energy + Delta-G solvation = -23371.638667 eV Core-core repulsion = 19864.839266 eV Total energy + Delta-G solvation = -3506.799402 eV No. of doubly occupied orbitals = 54 Molecular weight (most abundant/longest-lived isotopes) = 284.157 amu Computer time = 0.50 seconds Orbital eigenvalues (eV) -42.57544 -40.11716 -38.30057 -37.66532 -36.24795 -34.21652 -33.32744 -31.89443 -30.53840 -29.56250 -26.88799 -24.95548 -24.48707 -24.22014 -22.54045 -21.70784 -20.59760 -19.08680 -18.36029 -18.15350 -17.57611 -16.66227 -16.56736 -16.31988 -16.15315 -15.81917 -15.43896 -15.12352 -15.05175 -14.93722 -14.80562 -14.27319 -14.01680 -13.79865 -13.20482 -13.14496 -13.12125 -12.89114 -12.80736 -12.63156 -12.30599 -12.19109 -12.06277 -11.75800 -11.71141 -11.51069 -11.22972 -10.93898 -10.68066 -10.07030 -9.83698 -9.02065 -8.11828 -6.38386 1.40003 1.41136 1.45429 1.53580 1.68689 2.39013 2.65950 3.05473 3.14560 3.41493 3.55582 3.76157 3.96760 4.04019 4.17170 4.22775 4.33521 4.35602 4.37218 4.49679 4.52328 4.56605 4.69443 4.71385 4.77521 4.80148 4.87185 4.97671 5.03196 5.11805 5.21864 5.34329 5.55137 5.61753 5.77764 6.03790 6.25070 6.38749 6.43659 6.76382 7.02208 7.36073 7.64048 8.92926 Molecular weight = 284.16amu Principal moments of inertia in cm(-1) A = 0.040544 B = 0.003461 C = 0.003374 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 690.446415 B = 8089.039266 C = 8296.014284 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.902 5.902 2 C 0.022 3.978 3 Si 0.963 3.037 4 H -0.260 1.260 5 H -0.281 1.281 6 H -0.279 1.279 7 C -0.586 4.586 8 H 0.062 0.938 9 C 0.234 3.766 10 H 0.020 0.980 11 O -0.573 6.573 12 C 0.051 3.949 13 N -0.550 5.550 14 C 0.066 3.934 15 C -0.123 4.123 16 C 0.187 3.813 17 N -0.623 5.623 18 C 0.062 3.938 19 C 0.034 3.966 20 O -0.355 6.355 21 C 0.632 3.368 22 O -0.570 6.570 23 C -0.123 4.123 24 C 0.062 3.938 25 H 0.260 0.740 26 H 0.351 0.649 27 H 0.033 0.967 28 H 0.068 0.932 29 H 0.048 0.952 30 H 0.049 0.951 31 H 0.081 0.919 32 H 0.045 0.955 33 H 0.131 0.869 34 H 0.121 0.879 35 H 0.115 0.885 36 H 0.132 0.868 37 H 0.128 0.872 38 H 0.093 0.907 39 H 0.048 0.952 40 H 0.051 0.949 41 H 0.075 0.925 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 5.498 -24.495 7.943 26.331 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 -0.539 5.539 2 C -0.180 4.180 3 Si 0.787 3.213 4 H -0.184 1.184 5 H -0.207 1.207 6 H -0.205 1.205 7 C -0.624 4.624 8 H 0.080 0.920 9 C 0.176 3.824 10 H 0.038 0.962 11 O -0.376 6.376 12 C -0.077 4.077 13 N -0.275 5.275 14 C -0.062 4.062 15 C -0.162 4.162 16 C 0.086 3.914 17 N -0.370 5.370 18 C -0.059 4.059 19 C -0.039 4.039 20 O -0.265 6.265 21 C 0.386 3.614 22 O -0.458 6.458 23 C -0.162 4.162 24 C -0.066 4.066 25 H 0.069 0.931 26 H 0.194 0.806 27 H 0.051 0.949 28 H 0.087 0.913 29 H 0.067 0.933 30 H 0.067 0.933 31 H 0.099 0.901 32 H 0.064 0.936 33 H 0.148 0.852 34 H 0.139 0.861 35 H 0.133 0.867 36 H 0.150 0.850 37 H 0.146 0.854 38 H 0.111 0.889 39 H 0.067 0.933 40 H 0.069 0.931 41 H 0.094 0.906 Dipole moment (debyes) X Y Z Total from point charges 4.210 -24.142 7.481 25.623 hybrid contribution 0.904 1.350 0.078 1.627 sum 5.114 -22.792 7.560 24.552 Atomic orbital electron populations 1.70256 1.07825 1.27222 1.48607 1.25957 0.95465 1.03107 0.93448 0.85463 0.79194 0.78985 0.77610 1.18422 1.20707 1.20460 1.22102 0.93597 0.92722 1.53994 0.92007 1.19249 0.87900 0.90351 0.84909 0.96247 1.86527 1.38827 1.96494 1.15781 1.22638 0.95701 0.89341 0.99972 1.61782 1.28389 1.02135 1.35170 1.21912 0.96649 0.97361 0.90302 1.21900 0.98520 0.93815 1.01958 1.20969 0.90471 0.80655 0.99285 1.48311 1.37188 1.18994 1.32488 1.23227 1.02314 0.83813 0.96596 1.24777 0.97072 0.95228 0.86846 1.87248 1.59128 1.27564 1.52598 1.18813 0.79090 0.81538 0.81930 1.91059 1.69408 1.44417 1.40924 1.21919 0.98879 0.97429 0.97938 1.22056 0.93566 0.89514 1.01450 0.93100 0.80551 0.94927 0.91307 0.93305 0.93271 0.90087 0.93577 0.85165 0.86088 0.86716 0.84984 0.85407 0.88873 0.93273 0.93052 0.90633 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 14. 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 -0.90 -55.87 12.84 21.45 0.28 -55.59 16 2 C 0.02 1.28 5.40 84.66 0.46 1.73 16 3 Si 0.96 44.12 29.54 68.60 2.03 46.15 16 4 H -0.26 -11.28 7.11 99.48 0.71 -10.57 16 5 H -0.28 -12.74 7.11 99.48 0.71 -12.03 16 6 H -0.28 -12.48 7.11 99.48 0.71 -11.77 16 7 C -0.59 -32.84 8.76 25.60 0.22 -32.62 16 8 H 0.06 3.30 7.74 -2.91 -0.02 3.28 16 9 C 0.23 12.44 2.71 29.85 0.08 12.52 16 10 H 0.02 1.17 6.42 -2.39 -0.02 1.16 16 11 O -0.57 -32.52 12.60 -148.98 -1.88 -34.40 16 12 C 0.05 2.14 4.56 86.30 0.39 2.54 16 13 N -0.55 -20.53 4.53 -896.32 -4.06 -24.59 16 14 C 0.07 2.30 5.29 86.33 0.46 2.76 16 15 C -0.12 -3.74 5.42 30.65 0.17 -3.57 16 16 C 0.19 4.15 2.86 45.07 0.13 4.28 16 17 N -0.62 -12.56 2.85 -926.92 -2.64 -15.20 16 18 C 0.06 0.45 7.67 86.63 0.66 1.12 16 19 C 0.03 0.27 8.23 72.35 0.60 0.86 16 20 O -0.35 -8.26 11.09 -47.27 -0.52 -8.79 16 21 C 0.63 18.54 8.30 129.91 1.08 19.62 16 22 O -0.57 -23.56 14.98 19.63 0.29 -23.27 16 23 C -0.12 -3.14 5.42 30.64 0.17 -2.98 16 24 C 0.06 1.73 5.46 86.33 0.47 2.20 16 25 H 0.26 15.20 8.31 -92.71 -0.77 14.43 16 26 H 0.35 17.95 9.04 -74.06 -0.67 17.28 16 27 H 0.03 1.30 8.12 -2.39 -0.02 1.28 16 28 H 0.07 2.77 7.98 -2.38 -0.02 2.75 16 29 H 0.05 2.09 6.21 -2.39 -0.01 2.07 16 30 H 0.05 1.44 8.14 -2.39 -0.02 1.43 16 31 H 0.08 2.10 8.14 -2.39 -0.02 2.08 16 32 H 0.05 1.85 6.72 -2.38 -0.02 1.83 16 33 H 0.13 1.89 8.10 -2.39 -0.02 1.87 16 34 H 0.12 0.21 8.14 -2.39 -0.02 0.20 16 35 H 0.11 0.35 8.14 -2.39 -0.02 0.33 16 36 H 0.13 0.28 8.14 -2.39 -0.02 0.26 16 37 H 0.13 0.37 8.14 -2.39 -0.02 0.36 16 38 H 0.09 1.80 8.14 -2.39 -0.02 1.78 16 39 H 0.05 1.71 6.74 -2.39 -0.02 1.69 16 40 H 0.05 1.18 8.14 -2.39 -0.02 1.17 16 41 H 0.08 2.09 8.01 -2.39 -0.02 2.07 16 Total: -1.00 -83.04 328.38 -1.26 -84.30 By element: Atomic # 1 Polarization: 22.55 SS G_CDS: 0.36 Total: 22.91 kcal Atomic # 6 Polarization: 3.59 SS G_CDS: 4.88 Total: 8.47 kcal Atomic # 7 Polarization: -88.96 SS G_CDS: -6.43 Total: -95.38 kcal Atomic # 8 Polarization: -64.35 SS G_CDS: -2.11 Total: -66.45 kcal Atomic # 14 Polarization: 44.12 SS G_CDS: 2.03 Total: 46.15 kcal Total: -83.04 -1.26 -84.30 kcal The number of atoms in the molecule is 41 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. ZINC001336133441.mol2 41 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 -53.777 kcal (2) G-P(sol) polarization free energy of solvation -83.043 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -136.820 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.260 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -84.303 kcal (6) G-S(sol) free energy of system = (1) + (5) -138.080 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.50 seconds