Wall clock time and date at job start Tue Mar 31 2020 05:33:11 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 1.86802 * 119.99601 * 2 1 4 4 H 1.48505 * 109.46939 * 179.97438 * 3 2 1 5 5 H 1.48497 * 109.47345 * 300.00246 * 3 2 1 6 6 H 1.48505 * 109.47158 * 60.00560 * 3 2 1 7 7 C 1.37875 * 120.00420 * 180.02562 * 2 1 3 8 8 H 1.07993 * 120.00563 * 179.97438 * 7 2 1 9 9 C 1.50703 * 119.99723 * 359.97438 * 7 2 1 10 10 C 1.52996 * 109.47109 * 179.97438 * 9 7 2 11 11 C 1.53004 * 109.47428 * 179.97438 * 10 9 7 12 12 C 1.52996 * 109.47428 * 179.97438 * 11 10 9 13 13 C 1.50697 * 109.47295 * 180.02562 * 12 11 10 14 14 O 1.21282 * 119.99932 * 0.02562 * 13 12 11 15 15 N 1.34777 * 120.00121 * 179.97438 * 13 12 11 16 16 C 1.47424 * 125.64793 * 359.97438 * 15 13 12 17 17 C 1.54910 * 104.83056 * 155.90334 * 16 15 13 18 18 C 1.55158 * 101.58064 * 37.01197 * 17 16 15 19 19 O 1.42900 * 110.72206 * 83.03987 * 18 17 16 20 20 C 1.50706 * 110.71573 * 206.13250 * 18 17 16 21 21 O 1.20823 * 119.99728 * 93.54928 * 20 18 17 22 22 O 1.34223 * 119.99894 * 273.54316 * 20 18 17 23 23 C 1.47016 * 125.64727 * 180.02562 * 15 13 12 24 24 H 0.96996 * 120.00380 * 359.97438 * 1 2 3 25 25 H 1.09003 * 109.47351 * 59.99861 * 9 7 2 26 26 H 1.09005 * 109.47085 * 300.00039 * 9 7 2 27 27 H 1.09006 * 109.47187 * 60.00294 * 10 9 7 28 28 H 1.08998 * 109.47665 * 299.99893 * 10 9 7 29 29 H 1.09006 * 109.46294 * 60.00240 * 11 10 9 30 30 H 1.08998 * 109.47012 * 300.00785 * 11 10 9 31 31 H 1.09003 * 109.47004 * 60.00293 * 12 11 10 32 32 H 1.09005 * 109.47302 * 300.00550 * 12 11 10 33 33 H 1.09003 * 110.36604 * 37.06852 * 16 15 13 34 34 H 1.09001 * 110.45760 * 274.79064 * 16 15 13 35 35 H 1.09002 * 111.00862 * 278.93159 * 17 16 15 36 36 H 1.08997 * 111.00291 * 155.08353 * 17 16 15 37 37 H 0.96691 * 114.00103 * 63.83649 * 19 18 17 38 38 H 0.96701 * 116.99990 * 180.02562 * 22 20 18 39 39 H 1.09004 * 109.88676 * 61.61237 * 23 15 13 40 40 H 1.09001 * 109.88667 * 300.44270 * 23 15 13 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 -1.2124 6 1 1.8904 2.3965 1.2126 7 6 2.0046 -1.1940 -0.0005 8 1 3.0846 -1.1940 -0.0010 9 6 1.2511 -2.4991 -0.0005 10 6 2.2454 -3.6620 -0.0018 11 6 1.4805 -4.9871 -0.0012 12 6 2.4747 -6.1500 -0.0031 13 6 1.7213 -7.4551 -0.0031 14 8 0.5085 -7.4551 -0.0022 15 7 2.3952 -8.6223 -0.0052 16 6 3.8623 -8.7673 -0.0081 17 6 4.1236 -10.1671 0.6018 18 6 2.9425 -10.9866 0.0180 19 8 3.2465 -11.4418 -1.3020 20 6 2.6047 -12.1488 0.9161 21 8 1.7467 -12.0317 1.7587 22 8 3.2570 -13.3139 0.7798 23 6 1.7891 -9.9616 -0.0060 24 1 -0.4850 0.8400 0.0004 25 1 0.6241 -2.5567 -0.8903 26 1 0.6248 -2.5571 0.8897 27 1 2.8727 -3.6047 0.8878 28 1 2.8714 -3.6039 -0.8922 29 1 0.8529 -5.0446 -0.8906 30 1 0.8547 -5.0450 0.8894 31 1 3.1027 -6.0926 0.8860 32 1 3.1001 -6.0918 -0.8940 33 1 4.3212 -7.9936 0.6075 34 1 4.2479 -8.7192 -1.0266 35 1 4.0761 -10.1341 1.6903 36 1 5.0803 -10.5671 0.2661 37 1 3.9905 -12.0579 -1.3439 38 1 3.0053 -14.0306 1.3783 39 1 1.1911 -10.0975 -0.9072 40 1 1.1640 -10.0863 0.8783 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 ZINC001601064810.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 05:33:11 Heat of formation + Delta-G solvation = -219.041413 kcal Electronic energy + Delta-G solvation = -22155.508031 eV Core-core repulsion = 18547.479238 eV Total energy + Delta-G solvation = -3608.028793 eV No. of doubly occupied orbitals = 54 Molecular weight (most abundant/longest-lived isotopes) = 285.145 amu Computer time = 0.98 seconds Orbital eigenvalues (eV) -42.11397 -40.84118 -39.09557 -37.43007 -36.67643 -36.45984 -34.61364 -32.38254 -31.36198 -30.19680 -27.70704 -25.98993 -24.12671 -23.69307 -21.84673 -21.54361 -20.36607 -19.74523 -18.82426 -18.42208 -18.18807 -17.33099 -16.76272 -16.70154 -16.46724 -16.23487 -15.92911 -15.44913 -15.12930 -14.53057 -14.45198 -14.14286 -13.94339 -13.62469 -13.51804 -13.31217 -13.20368 -12.95362 -12.83744 -12.72498 -12.59334 -12.29964 -12.14484 -12.14166 -12.01710 -11.36888 -11.35215 -11.17203 -11.15642 -10.84846 -10.54851 -9.81959 -8.17671 -6.29863 0.86157 1.41331 1.42496 1.47637 1.55870 1.56239 2.05946 2.42924 2.82319 3.05242 3.15159 3.22764 3.67644 3.95082 4.03369 4.10022 4.13804 4.19260 4.46940 4.54760 4.59966 4.63397 4.69863 4.77517 4.83028 4.87407 4.98151 5.14252 5.19121 5.34991 5.38318 5.41530 5.58097 5.79343 5.89383 6.26194 6.33430 6.54005 6.79540 6.89134 7.06438 7.39851 8.94921 Molecular weight = 285.15amu Principal moments of inertia in cm(-1) A = 0.047822 B = 0.002411 C = 0.002361 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 585.361843 B =11609.284197 C =11857.200381 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.939 5.939 2 C -0.009 4.009 3 Si 0.971 3.029 4 H -0.255 1.255 5 H -0.280 1.280 6 H -0.280 1.280 7 C -0.538 4.538 8 H 0.068 0.932 9 C 0.017 3.983 10 C -0.093 4.093 11 C -0.098 4.098 12 C -0.118 4.118 13 C 0.524 3.476 14 O -0.589 6.589 15 N -0.620 5.620 16 C 0.093 3.907 17 C -0.140 4.140 18 C 0.144 3.856 19 O -0.535 6.535 20 C 0.475 3.525 21 O -0.539 6.539 22 O -0.496 6.496 23 C 0.117 3.883 24 H 0.262 0.738 25 H -0.016 1.016 26 H -0.016 1.016 27 H 0.063 0.937 28 H 0.063 0.937 29 H 0.041 0.959 30 H 0.041 0.959 31 H 0.123 0.877 32 H 0.122 0.878 33 H 0.111 0.889 34 H 0.098 0.902 35 H 0.094 0.906 36 H 0.145 0.855 37 H 0.411 0.589 38 H 0.434 0.566 39 H 0.069 0.931 40 H 0.078 0.922 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 16.830 -29.434 0.335 33.907 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 -0.580 5.580 2 C -0.206 4.206 3 Si 0.795 3.205 4 H -0.179 1.179 5 H -0.205 1.205 6 H -0.206 1.206 7 C -0.576 4.576 8 H 0.086 0.914 9 C -0.020 4.020 10 C -0.131 4.131 11 C -0.136 4.136 12 C -0.157 4.157 13 C 0.315 3.685 14 O -0.469 6.469 15 N -0.355 5.355 16 C -0.028 4.028 17 C -0.178 4.178 18 C 0.100 3.900 19 O -0.346 6.346 20 C 0.316 3.684 21 O -0.429 6.429 22 O -0.311 6.311 23 C -0.007 4.007 24 H 0.071 0.929 25 H 0.002 0.998 26 H 0.002 0.998 27 H 0.082 0.918 28 H 0.082 0.918 29 H 0.060 0.940 30 H 0.060 0.940 31 H 0.141 0.859 32 H 0.140 0.860 33 H 0.129 0.871 34 H 0.116 0.884 35 H 0.113 0.887 36 H 0.163 0.837 37 H 0.264 0.736 38 H 0.297 0.703 39 H 0.087 0.913 40 H 0.096 0.904 Dipole moment (debyes) X Y Z Total from point charges 15.423 -28.561 0.143 32.459 hybrid contribution -0.503 0.011 0.590 0.775 sum 14.919 -28.550 0.733 32.221 Atomic orbital electron populations 1.70146 1.08135 1.27671 1.52062 1.26123 0.95787 1.03848 0.94864 0.85314 0.79256 0.78329 0.77610 1.17903 1.20544 1.20566 1.21784 0.93803 0.92102 1.49945 0.91374 1.19077 0.94753 0.93937 0.94265 1.21430 0.97754 0.92355 1.01539 1.21279 0.97552 0.93789 1.01000 1.21658 0.98819 0.88356 1.06902 1.21108 0.87338 0.85484 0.74541 1.90710 1.16578 1.87781 1.51801 1.48511 1.09259 1.04126 1.73605 1.22752 0.78065 0.98279 1.03677 1.23582 0.98204 0.93782 1.02199 1.21556 0.97108 0.88297 0.82994 1.86647 1.57408 1.67341 1.23176 1.23929 0.77738 0.84440 0.82260 1.90788 1.32380 1.83387 1.36365 1.84406 1.61906 1.22719 1.62029 1.21661 0.94419 0.81466 1.03122 0.92897 0.99808 0.99805 0.91807 0.91803 0.93978 0.93969 0.85914 0.85997 0.87098 0.88358 0.88745 0.83745 0.73580 0.70294 0.91260 0.90386 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 -59.73 13.29 21.45 0.28 -59.45 16 2 C -0.01 -0.55 5.46 84.65 0.46 -0.09 16 3 Si 0.97 44.97 29.54 68.60 2.03 47.00 16 4 H -0.26 -11.01 7.11 99.48 0.71 -10.30 16 5 H -0.28 -12.66 7.11 99.48 0.71 -11.95 16 6 H -0.28 -12.67 7.11 99.48 0.71 -11.97 16 7 C -0.54 -31.31 9.11 25.60 0.23 -31.08 16 8 H 0.07 3.69 7.74 -2.91 -0.02 3.67 16 9 C 0.02 0.93 4.97 29.85 0.15 1.08 16 10 C -0.09 -3.81 5.15 30.59 0.16 -3.65 16 11 C -0.10 -3.63 4.50 30.59 0.14 -3.49 16 12 C -0.12 -2.99 4.71 29.85 0.14 -2.85 16 13 C 0.52 15.68 7.85 87.66 0.69 16.37 16 14 O -0.59 -24.15 16.31 -3.04 -0.05 -24.20 16 15 N -0.62 -13.58 3.33 -811.80 -2.70 -16.28 16 16 C 0.09 0.98 6.68 86.86 0.58 1.56 16 17 C -0.14 -0.92 6.24 31.99 0.20 -0.72 16 18 C 0.14 1.84 1.22 -10.35 -0.01 1.83 16 19 O -0.54 -5.53 13.04 -137.88 -1.80 -7.33 16 20 C 0.47 6.52 7.32 71.24 0.52 7.04 16 21 O -0.54 -12.12 16.28 21.97 0.36 -11.76 16 22 O -0.50 -2.77 12.97 -46.91 -0.61 -3.37 16 23 C 0.12 2.62 6.17 86.73 0.54 3.16 16 24 H 0.26 15.58 8.31 -92.71 -0.77 14.81 16 25 H -0.02 -1.01 8.14 -2.39 -0.02 -1.03 16 26 H -0.02 -1.00 8.14 -2.38 -0.02 -1.02 16 27 H 0.06 2.40 8.14 -2.38 -0.02 2.38 16 28 H 0.06 2.40 8.14 -2.39 -0.02 2.38 16 29 H 0.04 1.72 8.10 -2.38 -0.02 1.70 16 30 H 0.04 1.72 8.10 -2.39 -0.02 1.70 16 31 H 0.12 2.37 7.85 -2.39 -0.02 2.35 16 32 H 0.12 2.40 8.14 -2.38 -0.02 2.38 16 33 H 0.11 0.76 7.48 -2.39 -0.02 0.74 16 34 H 0.10 0.78 8.14 -2.39 -0.02 0.76 16 35 H 0.09 0.68 8.04 -2.39 -0.02 0.66 16 36 H 0.14 -0.16 8.14 -2.39 -0.02 -0.18 16 37 H 0.41 0.37 8.74 -74.06 -0.65 -0.28 16 38 H 0.43 -0.68 9.10 -74.06 -0.67 -1.35 16 39 H 0.07 1.78 8.07 -2.38 -0.02 1.76 16 40 H 0.08 2.13 6.74 -2.39 -0.02 2.11 16 Total: -1.00 -87.94 340.74 1.05 -86.89 By element: Atomic # 1 Polarization: -0.41 SS G_CDS: -0.26 Total: -0.67 kcal Atomic # 6 Polarization: -14.63 SS G_CDS: 3.79 Total: -10.83 kcal Atomic # 7 Polarization: -73.31 SS G_CDS: -2.42 Total: -75.72 kcal Atomic # 8 Polarization: -44.56 SS G_CDS: -2.10 Total: -46.66 kcal Atomic # 14 Polarization: 44.97 SS G_CDS: 2.03 Total: 47.00 kcal Total: -87.94 1.05 -86.89 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. ZINC001601064810.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 -132.149 kcal (2) G-P(sol) polarization free energy of solvation -87.938 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -220.087 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.045 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -86.893 kcal (6) G-S(sol) free energy of system = (1) + (5) -219.041 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.98 seconds