Wall clock time and date at job start Tue Mar 31 2020 14:16:19 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 1.31510 * 1 3 3 Si 1.86797 * 120.00353 * 2 1 4 4 H 1.48499 * 109.47094 * 269.99976 * 3 2 1 5 5 H 1.48505 * 109.47195 * 29.99857 * 3 2 1 6 6 H 1.48493 * 109.47449 * 149.99822 * 3 2 1 7 7 C 1.37880 * 119.99913 * 179.97438 * 2 1 3 8 8 H 1.07998 * 120.00010 * 179.97438 * 7 2 1 9 9 C 1.50701 * 119.99861 * 0.02562 * 7 2 1 10 10 N 1.46499 * 109.46992 * 179.97438 * 9 7 2 11 11 C 1.34779 * 119.99872 * 179.97438 * 10 9 7 12 12 O 1.21553 * 119.99965 * 0.02562 * 11 10 9 13 13 C 1.47846 * 120.00003 * 180.02562 * 11 10 9 14 14 C 1.39477 * 120.18791 * 179.72378 * 13 11 10 15 15 C 1.38197 * 120.09867 * 179.74867 * 14 13 11 16 16 C 1.38413 * 119.99807 * 0.53187 * 15 14 13 17 17 C 1.38629 * 120.07882 * 359.74318 * 16 15 14 18 18 S 1.76200 * 119.79339 * 180.02562 * 17 16 15 19 19 N 1.65598 * 107.21977 * 294.97564 * 18 17 16 20 20 O 1.42103 * 106.40415 * 48.51860 * 18 17 16 21 21 O 1.42100 * 106.40169 * 181.43656 * 18 17 16 22 22 C 1.37842 * 120.40825 * 359.97438 * 17 16 15 23 23 C 1.51421 * 109.69580 * 179.74190 * 16 15 14 24 24 C 1.54332 * 105.18448 * 342.77446 * 23 16 15 25 25 C 1.51397 * 130.26132 * 180.21581 * 15 14 13 26 26 H 0.97002 * 119.99768 * 359.97438 * 1 2 3 27 27 H 1.09002 * 109.47060 * 299.99817 * 9 7 2 28 28 H 1.09001 * 109.47380 * 59.99905 * 9 7 2 29 29 H 0.97000 * 120.00420 * 0.02562 * 10 9 7 30 30 H 1.07998 * 119.94823 * 0.02562 * 14 13 11 31 31 H 0.97002 * 120.00164 * 0.02562 * 19 18 17 32 32 H 0.96998 * 120.00317 * 179.97438 * 19 18 17 33 33 H 1.08005 * 120.10638 * 180.02562 * 22 17 16 34 34 H 1.09004 * 110.30004 * 101.70183 * 23 16 15 35 35 H 1.09004 * 110.30063 * 223.84560 * 23 16 15 36 36 H 1.08998 * 110.81664 * 268.19321 * 24 23 16 37 37 H 1.09004 * 110.98214 * 144.73509 * 24 23 16 38 38 H 1.08995 * 110.30271 * 316.44037 * 25 15 14 39 39 H 1.08997 * 110.29967 * 78.49816 * 25 15 14 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 1.3151 0.0000 0.0000 3 14 2.2492 1.6176 0.0000 4 1 2.4967 2.0463 -1.4001 5 1 1.4467 2.6527 0.7000 6 1 3.5467 1.4401 0.7000 7 6 2.0045 -1.1941 0.0005 8 1 3.0845 -1.1941 0.0001 9 6 1.2509 -2.4992 0.0005 10 7 2.2029 -3.6127 0.0005 11 6 1.7536 -4.8834 0.0011 12 8 0.5585 -5.1054 0.0011 13 6 2.7143 -6.0072 0.0016 14 6 2.2536 -7.3237 0.0080 15 6 3.1532 -8.3727 0.0033 16 6 4.5137 -8.1177 0.0033 17 6 4.9756 -6.8106 0.0028 18 16 6.7090 -6.4947 0.0022 19 7 7.3115 -7.0633 1.4361 20 8 7.2655 -7.3113 -1.0189 21 8 6.8594 -5.0820 0.0359 22 6 4.0872 -5.7567 0.0016 23 6 5.2779 -9.4249 0.0041 24 6 4.2537 -10.4917 0.4456 25 6 2.9132 -9.8675 0.0039 26 1 -0.4850 0.8401 0.0004 27 1 0.6239 -2.5567 0.8903 28 1 0.6246 -2.5571 -0.8897 29 1 3.1566 -3.4355 0.0009 30 1 1.1923 -7.5235 0.0121 31 1 6.7175 -7.4773 2.0816 32 1 8.2584 -6.9831 1.6302 33 1 4.4524 -4.7403 0.0007 34 1 5.6479 -9.6473 -0.9968 35 1 6.1052 -9.3789 0.7124 36 1 4.2794 -10.6294 1.5265 37 1 4.4288 -11.4370 -0.0681 38 1 2.1253 -10.1237 0.7121 39 1 2.6471 -10.2082 -0.9966 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 ZINC001321088224.mol2 39 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 14:16:19 Heat of formation + Delta-G solvation = -125.291613 kcal Electronic energy + Delta-G solvation = -24906.442741 eV Core-core repulsion = 21131.983210 eV Total energy + Delta-G solvation = -3774.459531 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 324.098 amu Computer time = 1.34 seconds Orbital eigenvalues (eV) -41.71325 -40.27924 -38.30438 -36.98741 -36.66557 -36.31935 -34.44182 -34.14048 -33.03015 -30.89591 -29.11008 -28.54624 -25.41208 -24.24945 -23.49086 -22.17906 -21.23128 -20.47476 -19.56787 -18.54195 -18.40196 -17.84233 -17.56994 -16.81903 -16.75814 -16.57282 -16.43737 -16.30773 -16.18290 -15.76976 -14.99549 -14.43068 -14.27381 -14.03233 -13.86767 -13.69894 -13.38503 -13.25831 -13.21892 -13.12925 -13.05646 -12.96215 -12.76772 -12.73191 -12.26053 -12.12398 -11.87235 -11.73628 -11.53434 -11.36892 -11.09009 -10.85347 -10.58341 -10.04898 -9.74584 -8.32945 -6.49811 -0.73499 -0.54084 -0.26145 1.41672 1.43860 1.51931 1.55578 2.08379 2.18755 2.38493 2.41786 2.62934 3.02035 3.12755 3.25929 3.49908 3.76928 3.80424 3.96703 4.06883 4.13289 4.21605 4.42899 4.56684 4.76299 4.79514 4.87777 4.95610 4.98982 5.06497 5.14644 5.16450 5.23340 5.27282 5.35366 5.35714 5.51931 5.58528 5.77980 6.33374 6.57618 6.69993 7.13102 7.27630 8.79218 Molecular weight = 324.10amu Principal moments of inertia in cm(-1) A = 0.015118 B = 0.003560 C = 0.002945 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1851.690973 B = 7863.138458 C = 9504.335809 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.928 5.928 2 C 0.008 3.992 3 Si 0.984 3.016 4 H -0.270 1.270 5 H -0.280 1.280 6 H -0.257 1.257 7 C -0.562 4.562 8 H 0.081 0.919 9 C 0.266 3.734 10 N -0.702 5.702 11 C 0.540 3.460 12 O -0.590 6.590 13 C -0.159 4.159 14 C -0.004 4.004 15 C -0.122 4.122 16 C 0.019 3.981 17 C -0.668 4.668 18 S 2.725 3.275 19 N -1.229 6.229 20 O -0.978 6.978 21 O -0.996 6.996 22 C 0.003 3.997 23 C -0.111 4.111 24 C -0.109 4.109 25 C -0.084 4.084 26 H 0.270 0.730 27 H -0.004 1.004 28 H -0.006 1.006 29 H 0.406 0.594 30 H 0.138 0.862 31 H 0.430 0.570 32 H 0.433 0.567 33 H 0.149 0.851 34 H 0.110 0.890 35 H 0.109 0.891 36 H 0.093 0.907 37 H 0.108 0.892 38 H 0.093 0.907 39 H 0.096 0.904 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 16.772 -24.467 4.211 29.961 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 -0.566 5.566 2 C -0.192 4.192 3 Si 0.807 3.193 4 H -0.196 1.196 5 H -0.205 1.205 6 H -0.181 1.181 7 C -0.600 4.600 8 H 0.099 0.901 9 C 0.143 3.857 10 N -0.351 5.351 11 C 0.328 3.672 12 O -0.473 6.473 13 C -0.163 4.163 14 C -0.024 4.024 15 C -0.123 4.123 16 C 0.018 3.982 17 C -0.754 4.754 18 S 2.812 3.188 19 N -0.911 5.911 20 O -0.967 6.967 21 O -0.986 6.986 22 C -0.018 4.018 23 C -0.148 4.148 24 C -0.146 4.146 25 C -0.121 4.121 26 H 0.079 0.921 27 H 0.014 0.986 28 H 0.012 0.988 29 H 0.242 0.758 30 H 0.156 0.844 31 H 0.260 0.740 32 H 0.267 0.733 33 H 0.166 0.834 34 H 0.128 0.872 35 H 0.128 0.872 36 H 0.112 0.888 37 H 0.126 0.874 38 H 0.112 0.888 39 H 0.114 0.886 Dipole moment (debyes) X Y Z Total from point charges 16.190 -23.981 3.361 29.129 hybrid contribution -0.677 1.294 0.407 1.516 sum 15.513 -22.688 3.768 27.741 Atomic orbital electron populations 1.70121 1.08144 1.28708 1.49613 1.26024 0.95810 1.03759 0.93613 0.85169 0.78506 0.76949 0.78705 1.19551 1.20503 1.18121 1.21595 0.94266 0.90609 1.53491 0.90113 1.18665 0.88500 0.83759 0.94745 1.46237 1.11491 1.05542 1.71806 1.18765 0.88146 0.83734 0.76575 1.90699 1.18043 1.85456 1.53147 1.19836 0.93234 0.93797 1.09424 1.21114 1.01248 0.90057 0.89938 1.21056 0.92935 0.97406 1.00891 1.20985 0.96413 0.93069 0.87781 1.29934 1.25073 0.98699 1.21703 1.00747 0.72031 0.72749 0.73261 1.52581 1.20851 1.80170 1.37502 1.93589 1.76438 1.69748 1.56911 1.93591 1.85352 1.32867 1.86745 1.21091 0.91607 0.99456 0.89596 1.21740 0.99124 0.88566 1.05338 1.22378 0.90980 0.98038 1.03219 1.21264 1.00428 0.86434 1.03949 0.92069 0.98570 0.98793 0.75779 0.84424 0.73998 0.73296 0.83356 0.87224 0.87239 0.88826 0.87391 0.88810 0.88610 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 -56.56 13.29 21.45 0.28 -56.28 16 2 C 0.01 0.45 5.46 84.66 0.46 0.92 16 3 Si 0.98 43.52 29.54 68.60 2.03 45.54 16 4 H -0.27 -11.57 7.11 99.48 0.71 -10.86 16 5 H -0.28 -12.08 7.11 99.48 0.71 -11.37 16 6 H -0.26 -10.74 7.11 99.48 0.71 -10.03 16 7 C -0.56 -31.76 9.28 25.60 0.24 -31.53 16 8 H 0.08 4.21 7.60 -2.91 -0.02 4.19 16 9 C 0.27 15.13 5.43 85.63 0.46 15.59 16 10 N -0.70 -32.44 5.50 -469.70 -2.58 -35.02 16 11 C 0.54 23.83 7.77 86.79 0.67 24.50 16 12 O -0.59 -30.45 16.35 -3.88 -0.06 -30.52 16 13 C -0.16 -5.32 5.87 -20.12 -0.12 -5.43 16 14 C 0.00 -0.12 9.59 22.56 0.22 0.09 16 15 C -0.12 -2.46 6.12 -19.61 -0.12 -2.58 16 16 C 0.02 0.36 5.97 -19.50 -0.12 0.24 16 17 C -0.67 -14.96 5.87 22.27 0.13 -14.83 16 18 S 2.72 53.82 5.97 -56.49 -0.34 53.48 16 19 N -1.23 -11.13 9.38 37.02 0.35 -10.78 16 20 O -0.98 -22.99 17.40 -128.00 -2.23 -25.21 16 21 O -1.00 -27.93 16.95 -128.00 -2.17 -30.10 16 22 C 0.00 0.07 9.03 22.49 0.20 0.28 16 23 C -0.11 -1.17 5.86 30.53 0.18 -1.00 16 24 C -0.11 -0.70 7.08 31.50 0.22 -0.48 16 25 C -0.08 -0.97 6.77 30.52 0.21 -0.76 16 26 H 0.27 15.32 8.31 -92.71 -0.77 14.55 16 27 H 0.00 -0.23 8.14 -2.39 -0.02 -0.25 16 28 H -0.01 -0.37 8.14 -2.39 -0.02 -0.39 16 29 H 0.41 16.27 6.36 -92.71 -0.59 15.69 16 30 H 0.14 3.90 7.64 -2.91 -0.02 3.88 16 31 H 0.43 1.78 8.92 -96.74 -0.86 0.91 16 32 H 0.43 2.14 8.96 -96.75 -0.87 1.27 16 33 H 0.15 4.28 5.67 -2.91 -0.02 4.26 16 34 H 0.11 1.21 8.14 -2.38 -0.02 1.19 16 35 H 0.11 0.63 7.97 -2.39 -0.02 0.61 16 36 H 0.09 0.36 8.14 -2.39 -0.02 0.34 16 37 H 0.11 0.28 8.14 -2.38 -0.02 0.26 16 38 H 0.09 0.91 8.14 -2.39 -0.02 0.89 16 39 H 0.10 0.97 8.14 -2.39 -0.02 0.96 16 Total: -1.00 -84.53 344.21 -3.26 -87.80 By element: Atomic # 1 Polarization: 17.27 SS G_CDS: -1.19 Total: 16.08 kcal Atomic # 6 Polarization: -17.64 SS G_CDS: 2.64 Total: -14.99 kcal Atomic # 7 Polarization: -100.13 SS G_CDS: -1.95 Total: -102.08 kcal Atomic # 8 Polarization: -81.37 SS G_CDS: -4.46 Total: -85.83 kcal Atomic # 14 Polarization: 43.52 SS G_CDS: 2.03 Total: 45.54 kcal Atomic # 16 Polarization: 53.82 SS G_CDS: -0.34 Total: 53.48 kcal Total: -84.53 -3.26 -87.80 kcal The number of atoms in the molecule is 39 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. ZINC001321088224.mol2 39 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 -37.494 kcal (2) G-P(sol) polarization free energy of solvation -84.534 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -122.028 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.264 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -87.798 kcal (6) G-S(sol) free energy of system = (1) + (5) -125.292 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.34 seconds