Wall clock time and date at job start Mon Mar 30 2020 06:05:21 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 1.31523 * 1 3 3 Si 1.86799 * 119.99846 * 2 1 4 4 H 1.48507 * 109.47146 * 240.00273 * 3 2 1 5 5 H 1.48494 * 109.47179 * 359.97438 * 3 2 1 6 6 H 1.48500 * 109.47267 * 120.00499 * 3 2 1 7 7 C 1.37871 * 119.99846 * 180.02562 * 2 1 3 8 8 H 1.07998 * 119.99727 * 179.97438 * 7 2 1 9 9 C 1.50702 * 120.00227 * 0.02562 * 7 2 1 10 10 C 1.53002 * 109.47133 * 179.97438 * 9 7 2 11 11 H 1.09008 * 109.30530 * 54.26426 * 10 9 7 12 12 C 1.53110 * 109.43224 * 294.52277 * 10 9 7 13 13 S 1.81749 * 108.80703 * 302.91951 * 12 10 9 14 14 C 1.81746 * 102.21813 * 306.71402 * 13 12 10 15 15 C 1.53089 * 108.84307 * 53.26514 * 14 13 12 16 16 C 1.52576 * 109.95657 * 296.97423 * 15 14 13 17 17 H 1.08997 * 109.22593 * 310.39273 * 16 15 14 18 18 N 1.46906 * 109.22755 * 190.99586 * 16 15 14 19 19 C 1.47849 * 110.99690 * 55.05326 * 18 16 15 20 20 C 1.54905 * 104.79367 * 146.36321 * 19 18 16 21 21 C 1.55142 * 101.65555 * 322.93051 * 20 19 18 22 22 C 1.47439 * 110.99912 * 175.89644 * 18 16 15 23 23 H 0.96997 * 119.99913 * 359.97438 * 1 2 3 24 24 H 1.09003 * 109.47245 * 60.00114 * 9 7 2 25 25 H 1.08998 * 109.46964 * 299.99639 * 9 7 2 26 26 H 1.08994 * 109.61299 * 183.11150 * 12 10 9 27 27 H 1.09006 * 109.67954 * 62.76718 * 12 10 9 28 28 H 1.08994 * 109.57630 * 293.45314 * 14 13 12 29 29 H 1.09004 * 109.57308 * 173.07743 * 14 13 12 30 30 H 1.09011 * 109.39113 * 176.82519 * 15 14 13 31 31 H 1.09003 * 109.31321 * 57.07387 * 15 14 13 32 32 H 1.08994 * 110.37571 * 27.53693 * 19 18 16 33 33 H 1.08995 * 110.37380 * 265.19388 * 19 18 16 34 34 H 1.09001 * 110.99199 * 204.83784 * 20 19 18 35 35 H 1.09004 * 110.99218 * 81.02175 * 20 19 18 36 36 H 1.08997 * 110.70525 * 154.03244 * 21 20 19 37 37 H 1.08998 * 110.70413 * 277.09525 * 21 20 19 38 38 H 1.08998 * 109.88585 * 117.34197 * 22 18 16 39 39 H 1.08993 * 109.89230 * 356.14913 * 22 18 16 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 2.2492 1.6177 0.0000 4 1 3.1029 1.6965 -1.2126 5 1 1.2842 2.7464 -0.0006 6 1 3.1030 1.6964 1.2124 7 6 2.0045 -1.1940 -0.0005 8 1 3.0845 -1.1940 -0.0010 9 6 1.2511 -2.4991 -0.0017 10 6 2.2453 -3.6621 -0.0027 11 1 2.9362 -3.5463 0.8324 12 6 3.0318 -3.6586 -1.3164 13 16 1.8593 -3.7563 -2.7016 14 6 0.8735 -5.2205 -2.2686 15 6 0.3309 -5.0486 -0.8474 16 6 1.4865 -4.9774 0.1462 17 1 2.1685 -5.8079 -0.0363 18 7 0.9566 -5.0782 1.5126 19 6 0.1373 -6.2982 1.6745 20 6 0.3769 -6.7442 3.1385 21 6 1.8787 -6.4041 3.3279 22 6 2.0493 -5.1117 2.5019 23 1 -0.4850 0.8400 0.0004 24 1 0.6247 -2.5563 -0.8920 25 1 0.6241 -2.5575 0.8880 26 1 3.7019 -4.5178 -1.3439 27 1 3.6130 -2.7396 -1.3939 28 1 1.5014 -6.1102 -2.3147 29 1 0.0428 -5.3210 -2.9671 30 1 -0.3083 -5.8960 -0.5991 31 1 -0.2508 -4.1284 -0.7925 32 1 0.4689 -7.0725 0.9828 33 1 -0.9168 -6.0714 1.5145 34 1 0.2011 -7.8136 3.2546 35 1 -0.2432 -6.1710 3.8278 36 1 2.1030 -6.2221 4.3789 37 1 2.5073 -7.2025 2.9337 38 1 1.9840 -4.2423 3.1561 39 1 3.0120 -5.1227 1.9910 RHF calculation, no. of doubly occupied orbitals= 46 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) 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 ZINC000259774216.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 06:05:21 Heat of formation + Delta-G solvation = -22.599676 kcal Electronic energy + Delta-G solvation = -18067.654390 eV Core-core repulsion = 15520.949727 eV Total energy + Delta-G solvation = -2546.704664 eV No. of doubly occupied orbitals = 46 Molecular weight (most abundant/longest-lived isotopes) = 255.135 amu Computer time = 0.32 seconds Orbital eigenvalues (eV) -40.68651 -37.54544 -34.85838 -33.02923 -31.67801 -29.78387 -28.98744 -26.78195 -25.01407 -23.62042 -22.12984 -21.55694 -19.76003 -18.76933 -17.50696 -17.07833 -16.71633 -16.39990 -15.40079 -15.06731 -14.95558 -14.53825 -14.42642 -14.21390 -14.01078 -13.73908 -13.31614 -13.17322 -12.95867 -12.82178 -12.46051 -12.38248 -12.18969 -12.01480 -11.87728 -11.75978 -11.51434 -11.32193 -11.06747 -10.78342 -10.50545 -10.30424 -9.06817 -8.33683 -8.05499 -6.11608 1.00086 1.39529 1.41817 1.48522 1.79075 2.46792 3.01263 3.28125 3.70593 3.80428 3.88327 4.04538 4.07057 4.14890 4.21053 4.31955 4.40681 4.46979 4.52234 4.64044 4.68594 4.75034 4.86801 4.95516 5.02767 5.04246 5.06951 5.10629 5.19172 5.27565 5.38719 5.45699 5.67171 6.02338 6.11445 6.19410 6.30028 6.42302 7.06196 7.53126 9.05469 Molecular weight = 255.14amu Principal moments of inertia in cm(-1) A = 0.018929 B = 0.007937 C = 0.006380 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1478.888698 B = 3526.988856 C = 4387.392153 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.929 5.929 2 C 0.004 3.996 3 Si 0.946 3.054 4 H -0.272 1.272 5 H -0.286 1.286 6 H -0.271 1.271 7 C -0.523 4.523 8 H 0.049 0.951 9 C 0.048 3.952 10 C -0.076 4.076 11 H 0.061 0.939 12 C -0.050 4.050 13 S -0.310 6.310 14 C -0.062 4.062 15 C -0.118 4.118 16 C 0.096 3.904 17 H 0.043 0.957 18 N -0.542 5.542 19 C 0.040 3.960 20 C -0.123 4.123 21 C -0.132 4.132 22 C 0.041 3.959 23 H 0.257 0.743 24 H 0.022 0.978 25 H -0.010 1.010 26 H 0.091 0.909 27 H 0.088 0.912 28 H 0.099 0.901 29 H 0.114 0.886 30 H 0.090 0.910 31 H 0.058 0.942 32 H 0.056 0.944 33 H 0.072 0.928 34 H 0.095 0.905 35 H 0.067 0.933 36 H 0.082 0.918 37 H 0.077 0.923 38 H 0.054 0.946 39 H 0.052 0.948 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 3.142 -16.694 2.291 17.141 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 -0.570 5.570 2 C -0.193 4.193 3 Si 0.772 3.228 4 H -0.198 1.198 5 H -0.212 1.212 6 H -0.196 1.196 7 C -0.561 4.561 8 H 0.067 0.933 9 C 0.010 3.990 10 C -0.096 4.096 11 H 0.079 0.921 12 C -0.198 4.198 13 S -0.084 6.084 14 C -0.211 4.211 15 C -0.157 4.157 16 C -0.012 4.012 17 H 0.061 0.939 18 N -0.267 5.267 19 C -0.087 4.087 20 C -0.161 4.161 21 C -0.171 4.171 22 C -0.087 4.087 23 H 0.066 0.934 24 H 0.041 0.959 25 H 0.008 0.992 26 H 0.109 0.891 27 H 0.107 0.893 28 H 0.118 0.882 29 H 0.132 0.868 30 H 0.109 0.891 31 H 0.077 0.923 32 H 0.074 0.926 33 H 0.090 0.910 34 H 0.114 0.886 35 H 0.086 0.914 36 H 0.101 0.899 37 H 0.096 0.904 38 H 0.073 0.927 39 H 0.070 0.930 Dipole moment (debyes) X Y Z Total from point charges 2.612 -15.473 1.461 15.759 hybrid contribution 0.873 0.175 0.867 1.242 sum 3.485 -15.298 2.328 15.862 Atomic orbital electron populations 1.70098 1.07417 1.26916 1.52599 1.25740 0.95530 1.02352 0.95676 0.85792 0.78490 0.79751 0.78722 1.19770 1.21199 1.19582 1.21613 0.92752 0.92824 1.48906 0.93298 1.18999 0.93605 0.90422 0.95930 1.21245 0.97334 0.95745 0.95248 0.92076 1.23373 0.97538 1.04838 0.94072 1.86910 1.44820 1.42487 1.34205 1.23395 1.01646 0.96457 0.99580 1.21793 0.98093 1.03197 0.92588 1.21611 0.94981 0.95799 0.88839 0.93877 1.63421 1.21222 1.38848 1.03178 1.23103 0.98236 0.90041 0.97351 1.22690 0.95913 1.02045 0.95427 1.22749 0.97072 0.96404 1.00839 1.22775 0.93198 0.98451 0.94267 0.93409 0.95943 0.99158 0.89062 0.89323 0.88220 0.86763 0.89129 0.92330 0.92572 0.91013 0.88648 0.91420 0.89904 0.90418 0.92745 0.92980 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 -58.24 13.29 21.45 0.28 -57.95 16 2 C 0.00 0.25 5.46 84.65 0.46 0.71 16 3 Si 0.95 46.05 29.54 68.60 2.03 48.07 16 4 H -0.27 -12.88 7.11 99.48 0.71 -12.17 16 5 H -0.29 -13.73 7.11 99.48 0.71 -13.03 16 6 H -0.27 -12.66 7.11 99.48 0.71 -11.95 16 7 C -0.52 -29.95 8.45 25.60 0.22 -29.74 16 8 H 0.05 2.71 7.09 -2.91 -0.02 2.69 16 9 C 0.05 2.49 3.39 29.85 0.10 2.60 16 10 C -0.08 -3.03 1.94 -10.90 -0.02 -3.05 16 11 H 0.06 2.52 6.41 -2.38 -0.02 2.50 16 12 C -0.05 -1.84 5.76 72.02 0.41 -1.43 16 13 S -0.31 -11.73 20.67 -56.49 -1.17 -12.90 16 14 C -0.06 -1.78 6.45 72.01 0.46 -1.32 16 15 C -0.12 -3.75 4.85 30.48 0.15 -3.61 16 16 C 0.10 3.15 0.96 44.63 0.04 3.19 16 17 H 0.04 1.26 8.06 -2.39 -0.02 1.24 16 18 N -0.54 -17.49 4.62 -862.02 -3.98 -21.47 16 19 C 0.04 0.98 5.19 86.77 0.45 1.43 16 20 C -0.12 -2.46 7.08 31.98 0.23 -2.23 16 21 C -0.13 -2.73 6.94 31.78 0.22 -2.51 16 22 C 0.04 1.18 5.98 86.65 0.52 1.70 16 23 H 0.26 15.36 8.31 -92.71 -0.77 14.59 16 24 H 0.02 1.26 5.07 -2.39 -0.01 1.25 16 25 H -0.01 -0.59 7.79 -2.39 -0.02 -0.61 16 26 H 0.09 2.75 8.14 -2.39 -0.02 2.73 16 27 H 0.09 3.63 7.08 -2.38 -0.02 3.61 16 28 H 0.10 2.31 8.14 -2.39 -0.02 2.29 16 29 H 0.11 2.91 8.14 -2.39 -0.02 2.89 16 30 H 0.09 2.38 6.34 -2.38 -0.02 2.36 16 31 H 0.06 2.41 5.91 -2.39 -0.01 2.39 16 32 H 0.06 1.20 7.46 -2.39 -0.02 1.19 16 33 H 0.07 1.84 8.01 -2.39 -0.02 1.82 16 34 H 0.10 1.41 8.14 -2.39 -0.02 1.39 16 35 H 0.07 1.46 8.14 -2.38 -0.02 1.44 16 36 H 0.08 1.53 8.14 -2.39 -0.02 1.51 16 37 H 0.08 1.38 8.14 -2.39 -0.02 1.36 16 38 H 0.05 1.81 8.14 -2.39 -0.02 1.79 16 39 H 0.05 1.49 6.62 -2.39 -0.02 1.48 16 Total: -1.00 -67.16 301.16 1.42 -65.75 By element: Atomic # 1 Polarization: 11.74 SS G_CDS: 1.01 Total: 12.75 kcal Atomic # 6 Polarization: -37.50 SS G_CDS: 3.24 Total: -34.25 kcal Atomic # 7 Polarization: -75.73 SS G_CDS: -3.70 Total: -79.42 kcal Atomic # 14 Polarization: 46.05 SS G_CDS: 2.03 Total: 48.07 kcal Atomic # 16 Polarization: -11.73 SS G_CDS: -1.17 Total: -12.90 kcal Total: -67.16 1.42 -65.75 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. ZINC000259774216.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 43.148 kcal (2) G-P(sol) polarization free energy of solvation -67.165 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -24.017 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.417 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -65.747 kcal (6) G-S(sol) free energy of system = (1) + (5) -22.600 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.32 seconds