Wall clock time and date at job start Mon Mar 30 2020 01:39:53 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 1.86803 * 119.99774 * 2 1 4 4 H 1.48500 * 109.46833 * 179.97438 * 3 2 1 5 5 H 1.48497 * 109.47069 * 299.99766 * 3 2 1 6 6 H 1.48503 * 109.47201 * 59.99894 * 3 2 1 7 7 C 1.37877 * 120.00276 * 179.97438 * 2 1 3 8 8 H 1.07997 * 119.99990 * 180.02562 * 7 2 1 9 9 C 1.50701 * 119.99738 * 0.02562 * 7 2 1 10 10 N 1.46900 * 109.47159 * 180.02562 * 9 7 2 11 11 C 1.48211 * 110.99932 * 169.99927 * 10 9 7 12 12 C 1.52697 * 85.72166 * 223.25866 * 11 10 9 13 13 C 1.48217 * 111.00080 * 70.28180 * 10 9 7 14 14 C 1.52265 * 122.14471 * 150.12541 * 12 11 10 15 15 N 1.47723 * 87.55951 * 150.26125 * 14 12 11 16 16 C 1.46899 * 110.99984 * 222.26802 * 15 14 12 17 17 C 1.52997 * 109.47254 * 169.99628 * 16 15 14 18 18 N 1.46500 * 109.47473 * 179.97438 * 17 16 15 19 19 C 1.36879 * 126.39928 * 269.71919 * 18 17 16 20 20 C 1.34667 * 106.81916 * 179.84053 * 19 18 17 21 21 N 1.34134 * 108.01865 * 0.42078 * 20 19 18 22 22 C 1.30499 * 109.25603 * 359.73149 * 21 20 19 23 23 C 1.47732 * 88.19399 * 334.10280 * 15 14 12 24 24 H 0.97002 * 120.00004 * 0.02562 * 1 2 3 25 25 H 1.08998 * 109.47452 * 59.99240 * 9 7 2 26 26 H 1.09009 * 109.46617 * 299.99749 * 9 7 2 27 27 H 1.08999 * 113.83351 * 109.06125 * 11 10 9 28 28 H 1.09000 * 113.83818 * 337.45478 * 11 10 9 29 29 H 1.08992 * 113.83449 * 22.53506 * 13 10 9 30 30 H 1.08999 * 113.82931 * 250.94103 * 13 10 9 31 31 H 1.09003 * 113.54133 * 35.58405 * 14 12 11 32 32 H 1.09006 * 113.53868 * 264.93139 * 14 12 11 33 33 H 1.09002 * 109.47043 * 289.99699 * 16 15 14 34 34 H 1.09001 * 109.47354 * 49.99760 * 16 15 14 35 35 H 1.09002 * 109.47153 * 300.00004 * 17 16 15 36 36 H 1.08998 * 109.47533 * 59.99633 * 17 16 15 37 37 H 1.07996 * 126.58690 * 359.97242 * 19 18 17 38 38 H 1.07998 * 125.98945 * 180.11728 * 20 19 18 39 39 H 1.08002 * 125.64752 * 179.97438 * 22 21 20 40 40 H 1.08994 * 113.54135 * 140.56681 * 23 15 14 41 41 H 1.09001 * 113.53370 * 271.22713 * 23 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 1.3152 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 3.7091 1.3464 0.0006 5 1 1.8904 2.3964 -1.2125 6 1 1.8903 2.3965 1.2125 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 7 2.2057 -3.6157 0.0018 11 6 1.5149 -4.9048 0.2421 12 6 2.6752 -5.2201 1.1833 13 6 2.9047 -3.7155 1.3049 14 6 2.5082 -6.1154 2.4036 15 7 3.9238 -6.5025 2.2348 16 6 4.1024 -7.9465 2.4371 17 6 5.5164 -8.3497 2.0142 18 7 5.6948 -9.7896 2.2164 19 6 6.1588 -10.3992 3.3508 20 6 6.1603 -11.7239 3.1085 21 7 5.7183 -11.9173 1.8569 22 6 5.4375 -10.7631 1.3165 23 6 3.7919 -6.1814 0.7989 24 1 -0.4850 0.8401 -0.0004 25 1 0.6247 -2.5571 -0.8896 26 1 0.6241 -2.5566 0.8904 27 1 1.4709 -5.5510 -0.6346 28 1 0.5541 -4.8024 0.7465 29 1 2.3647 -3.2529 2.1310 30 1 3.9546 -3.4254 1.2648 31 1 1.8103 -6.9380 2.2478 32 1 2.3143 -5.5648 3.3242 33 1 3.9557 -8.1867 3.4902 34 1 3.3742 -8.4905 1.8355 35 1 5.6631 -8.1094 0.9611 36 1 6.2446 -7.8057 2.6157 37 1 6.4629 -9.9116 4.2651 38 1 6.4685 -12.4950 3.7990 39 1 5.0621 -10.6116 0.3152 40 1 4.6682 -5.6858 0.3813 41 1 3.4531 -7.0226 0.1941 RHF calculation, no. of doubly occupied orbitals= 52 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). 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 ZINC001277939416.mol2 41 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 01:39:53 Heat of formation + Delta-G solvation = 120.566852 kcal Electronic energy + Delta-G solvation = -20657.303821 eV Core-core repulsion = 17574.925064 eV Total energy + Delta-G solvation = -3082.378757 eV No. of doubly occupied orbitals = 52 Molecular weight (most abundant/longest-lived isotopes) = 276.165 amu Computer time = 0.61 seconds Orbital eigenvalues (eV) -42.94333 -42.10236 -38.84160 -35.62463 -34.86798 -31.93984 -30.42678 -29.91370 -27.37765 -27.08164 -26.95944 -25.32115 -23.06604 -22.24572 -21.87214 -21.61229 -19.14678 -18.58930 -18.33863 -17.15489 -16.90383 -16.47733 -16.43211 -15.77862 -15.73210 -15.26201 -14.99428 -14.74343 -14.67611 -14.18696 -14.02830 -13.96953 -13.72398 -13.32933 -13.07722 -12.86827 -12.69594 -12.57675 -12.31519 -12.13597 -11.60298 -11.46467 -11.27227 -11.08671 -10.93382 -10.65919 -10.56239 -9.91989 -9.46824 -9.43642 -8.24709 -6.35061 1.15295 1.38995 1.39683 1.53368 1.83244 2.23964 2.38073 2.88681 3.08691 3.13263 3.46391 3.60339 3.72372 3.80359 3.90001 3.94693 4.10241 4.32738 4.35061 4.41265 4.49193 4.58345 4.63278 4.66442 4.70363 4.78189 4.81258 4.82129 4.87127 4.99777 5.02046 5.07660 5.19588 5.25491 5.37269 5.53731 5.79246 5.83708 5.99177 6.14283 6.29323 6.44240 6.80983 7.15563 7.35171 8.87104 Molecular weight = 276.16amu Principal moments of inertia in cm(-1) A = 0.050629 B = 0.002713 C = 0.002664 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 552.913252 B =10316.592228 C =10506.669953 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.934 5.934 2 C 0.001 3.999 3 Si 0.969 3.031 4 H -0.264 1.264 5 H -0.278 1.278 6 H -0.277 1.277 7 C -0.526 4.526 8 H 0.059 0.941 9 C 0.176 3.824 10 N -0.494 5.494 11 C 0.013 3.987 12 C -0.110 4.110 13 C 0.052 3.948 14 C 0.020 3.980 15 N -0.470 5.470 16 C 0.013 3.987 17 C 0.114 3.886 18 N -0.455 5.455 19 C -0.051 4.051 20 C -0.059 4.059 21 N -0.539 5.539 22 C 0.173 3.827 23 C 0.035 3.965 24 H 0.265 0.735 25 H 0.000 1.000 26 H -0.027 1.027 27 H 0.096 0.904 28 H 0.058 0.942 29 H 0.051 0.949 30 H 0.079 0.921 31 H 0.090 0.910 32 H 0.084 0.916 33 H 0.081 0.919 34 H 0.053 0.947 35 H 0.107 0.893 36 H 0.107 0.893 37 H 0.198 0.802 38 H 0.180 0.820 39 H 0.225 0.775 40 H 0.091 0.909 41 H 0.094 0.906 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 10.376 -18.729 6.522 22.382 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 -0.197 4.197 3 Si 0.794 3.206 4 H -0.188 1.188 5 H -0.203 1.203 6 H -0.202 1.202 7 C -0.564 4.564 8 H 0.077 0.923 9 C 0.049 3.951 10 N -0.217 5.217 11 C -0.117 4.117 12 C -0.111 4.111 13 C -0.077 4.077 14 C -0.110 4.110 15 N -0.193 5.193 16 C -0.116 4.116 17 C -0.008 4.008 18 N -0.138 5.138 19 C -0.184 4.184 20 C -0.206 4.206 21 N -0.258 5.258 22 C -0.109 4.109 23 C -0.093 4.093 24 H 0.074 0.926 25 H 0.018 0.982 26 H -0.009 1.009 27 H 0.114 0.886 28 H 0.076 0.924 29 H 0.069 0.931 30 H 0.097 0.903 31 H 0.108 0.892 32 H 0.102 0.898 33 H 0.099 0.901 34 H 0.071 0.929 35 H 0.125 0.875 36 H 0.125 0.875 37 H 0.215 0.785 38 H 0.197 0.803 39 H 0.242 0.758 40 H 0.109 0.891 41 H 0.112 0.888 Dipole moment (debyes) X Y Z Total from point charges 11.043 -18.833 5.935 22.625 hybrid contribution -1.252 1.401 0.601 1.973 sum 9.791 -17.433 6.536 21.035 Atomic orbital electron populations 1.70085 1.07715 1.27910 1.51686 1.25935 0.95783 1.03308 0.94687 0.85331 0.78953 0.78508 0.77826 1.18766 1.20329 1.20240 1.21437 0.93467 0.91288 1.50238 0.92261 1.19849 0.91104 0.90434 0.93691 1.68497 1.20681 1.01892 1.30628 1.23693 0.95749 0.93246 0.98966 1.22756 0.97063 0.94469 0.96801 1.23163 0.99982 0.93078 0.91444 1.23674 0.90444 0.98277 0.98557 1.68938 1.21158 1.14957 1.14234 1.22928 0.96313 0.89682 1.02670 1.21815 0.97980 0.76146 1.04864 1.45682 1.47489 1.08281 1.12321 1.23192 1.07536 0.94268 0.93430 1.22677 1.07442 0.95781 0.94713 1.70263 1.18979 1.26717 1.09848 1.25503 1.04472 0.82409 0.98515 1.23535 0.97758 0.97266 0.90736 0.92617 0.98209 1.00943 0.88604 0.92380 0.93090 0.90282 0.89236 0.89773 0.90068 0.92878 0.87514 0.87479 0.78519 0.80315 0.75824 0.89074 0.88803 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 -0.93 -56.19 13.29 21.45 0.28 -55.90 16 2 C 0.00 0.06 5.46 84.65 0.46 0.52 16 3 Si 0.97 44.23 29.54 68.60 2.03 46.25 16 4 H -0.26 -11.57 7.11 99.48 0.71 -10.86 16 5 H -0.28 -12.35 7.11 99.48 0.71 -11.64 16 6 H -0.28 -12.23 7.11 99.48 0.71 -11.52 16 7 C -0.53 -30.00 8.83 25.60 0.23 -29.77 16 8 H 0.06 3.34 7.79 -2.91 -0.02 3.32 16 9 C 0.18 9.40 4.58 85.56 0.39 9.79 16 10 N -0.49 -20.91 6.25 -934.67 -5.84 -26.75 16 11 C 0.01 0.42 7.80 85.95 0.67 1.09 16 12 C -0.11 -2.92 1.46 -52.79 -0.08 -3.00 16 13 C 0.05 1.90 7.28 85.94 0.63 2.52 16 14 C 0.02 0.41 7.54 84.00 0.63 1.04 16 15 N -0.47 -8.64 6.41 -927.63 -5.94 -14.59 16 16 C 0.01 0.18 5.14 86.30 0.44 0.63 16 17 C 0.11 1.30 6.25 86.38 0.54 1.84 16 18 N -0.46 -6.64 2.75 -529.08 -1.46 -8.10 16 19 C -0.05 -0.76 11.58 83.09 0.96 0.20 16 20 C -0.06 -1.11 11.87 83.52 0.99 -0.12 16 21 N -0.54 -12.25 11.25 -200.31 -2.25 -14.51 16 22 C 0.17 2.98 12.56 180.26 2.26 5.24 16 23 C 0.04 0.69 6.81 84.00 0.57 1.26 16 24 H 0.27 14.91 8.31 -92.71 -0.77 14.14 16 25 H 0.00 -0.01 8.14 -2.39 -0.02 -0.03 16 26 H -0.03 -1.54 7.71 -2.38 -0.02 -1.56 16 27 H 0.10 2.72 8.14 -2.39 -0.02 2.70 16 28 H 0.06 1.96 7.80 -2.39 -0.02 1.95 16 29 H 0.05 2.03 7.79 -2.39 -0.02 2.02 16 30 H 0.08 2.84 8.14 -2.39 -0.02 2.83 16 31 H 0.09 1.56 7.77 -2.39 -0.02 1.55 16 32 H 0.08 1.87 8.14 -2.38 -0.02 1.85 16 33 H 0.08 1.16 8.14 -2.39 -0.02 1.14 16 34 H 0.05 0.71 7.59 -2.39 -0.02 0.69 16 35 H 0.11 1.02 7.65 -2.39 -0.02 1.00 16 36 H 0.11 1.15 8.14 -2.39 -0.02 1.13 16 37 H 0.20 1.77 8.06 -2.91 -0.02 1.75 16 38 H 0.18 2.60 8.06 -2.91 -0.02 2.57 16 39 H 0.23 2.42 8.06 -2.91 -0.02 2.39 16 40 H 0.09 1.88 8.14 -2.39 -0.02 1.86 16 41 H 0.09 1.45 7.71 -2.39 -0.02 1.43 16 Total: -1.00 -70.18 339.25 -3.48 -73.66 By element: Atomic # 1 Polarization: 7.70 SS G_CDS: 0.99 Total: 8.69 kcal Atomic # 6 Polarization: -17.47 SS G_CDS: 8.71 Total: -8.76 kcal Atomic # 7 Polarization: -104.64 SS G_CDS: -15.21 Total: -119.85 kcal Atomic # 14 Polarization: 44.23 SS G_CDS: 2.03 Total: 46.25 kcal Total: -70.18 -3.48 -73.66 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. ZINC001277939416.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 194.229 kcal (2) G-P(sol) polarization free energy of solvation -70.178 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 124.051 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.484 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -73.663 kcal (6) G-S(sol) free energy of system = (1) + (5) 120.567 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.61 seconds