Wall clock time and date at job start Tue Mar 31 2020 18:19:38 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 1.31633 * 1 3 3 Si 1.86794 * 120.00370 * 2 1 4 4 H 1.48499 * 109.47025 * 270.00288 * 3 2 1 5 5 H 1.48498 * 109.47037 * 30.00310 * 3 2 1 6 6 H 1.48499 * 109.47394 * 150.00057 * 3 2 1 7 7 C 1.38801 * 119.99744 * 180.02562 * 2 1 3 8 8 H 1.07999 * 120.00048 * 359.97438 * 7 2 1 9 9 S 1.76202 * 119.99878 * 179.97438 * 7 2 1 10 10 C 1.81002 * 99.99843 * 180.02562 * 9 7 2 11 11 C 1.50699 * 109.47012 * 179.97438 * 10 9 7 12 12 O 1.21277 * 120.00438 * 0.02562 * 11 10 9 13 13 N 1.34780 * 119.99727 * 179.97438 * 11 10 9 14 14 C 1.46572 * 119.98351 * 354.82476 * 13 11 10 15 15 C 1.53114 * 109.88738 * 243.98376 * 14 13 11 16 16 S 1.81760 * 109.21676 * 302.41198 * 15 14 13 17 17 O 1.42093 * 108.68635 * 300.87028 * 16 15 14 18 18 O 1.42095 * 108.79233 * 169.48110 * 16 15 14 19 19 C 1.81498 * 101.14145 * 55.15555 * 16 15 14 20 20 H 1.09000 * 109.59826 * 63.52924 * 19 16 15 21 21 C 1.52900 * 110.21987 * 184.69901 * 19 16 15 22 22 O 1.43075 * 108.89599 * 177.65798 * 21 19 16 23 23 C 1.42801 * 114.57339 * 299.30169 * 22 21 19 24 24 C 1.53251 * 109.85962 * 60.07430 * 23 22 21 25 25 C 1.46153 * 119.97604 * 174.82443 * 13 11 10 26 26 H 1.08996 * 109.18887 * 234.44760 * 25 13 11 27 27 H 0.96996 * 119.99200 * 359.97438 * 1 2 3 28 28 H 1.08999 * 109.47317 * 59.99553 * 10 9 7 29 29 H 1.08999 * 109.47195 * 299.99555 * 10 9 7 30 30 H 1.09002 * 109.40055 * 123.85710 * 14 13 11 31 31 H 1.08994 * 109.39980 * 4.11313 * 14 13 11 32 32 H 1.08996 * 109.51168 * 182.48569 * 15 14 13 33 33 H 1.08998 * 109.55441 * 62.36280 * 15 14 13 34 34 H 1.08995 * 109.56706 * 297.48897 * 21 19 16 35 35 H 1.09007 * 109.56220 * 57.83816 * 21 19 16 36 36 H 1.08996 * 109.41233 * 299.95021 * 23 22 21 37 37 H 1.09007 * 109.40595 * 180.18904 * 23 22 21 38 38 H 1.08994 * 109.59631 * 183.20035 * 24 23 22 39 39 H 1.09000 * 109.59474 * 62.75486 * 24 23 22 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 1.3163 0.0000 0.0000 3 14 2.2504 1.6176 0.0000 4 1 2.4979 2.0463 -1.4001 5 1 1.4479 2.6526 0.7001 6 1 3.5480 1.4400 0.7000 7 6 2.0103 -1.2021 -0.0005 8 1 1.4703 -2.1374 -0.0005 9 16 3.7723 -1.2021 -0.0012 10 6 4.0865 -2.9847 -0.0025 11 6 5.5730 -3.2327 -0.0039 12 8 6.3440 -2.2966 -0.0035 13 7 6.0455 -4.4949 -0.0045 14 6 5.1183 -5.6243 0.1106 15 6 5.3854 -6.3869 1.4112 16 16 7.1148 -6.9460 1.4325 17 8 7.3369 -7.7820 0.3052 18 8 7.4224 -7.4330 2.7314 19 6 7.9932 -5.3786 1.1760 20 1 7.8012 -4.7102 2.0154 21 6 9.4954 -5.6305 1.0419 22 8 10.1529 -4.3857 0.7866 23 6 9.7394 -3.7307 -0.4131 24 6 8.2384 -3.4277 -0.3499 25 6 7.4823 -4.7367 -0.1201 26 1 7.6658 -5.4124 -0.9554 27 1 -0.4849 0.8401 0.0004 28 1 3.6432 -3.4311 -0.8926 29 1 3.6440 -3.4323 0.8873 30 1 5.2573 -6.2948 -0.7374 31 1 4.0936 -5.2527 0.1127 32 1 4.7228 -7.2504 1.4695 33 1 5.2043 -5.7309 2.2626 34 1 9.8771 -6.0620 1.9671 35 1 9.6780 -6.3163 0.2145 36 1 9.9428 -4.3767 -1.2671 37 1 10.2926 -2.7983 -0.5258 38 1 7.9161 -2.9795 -1.2897 39 1 8.0385 -2.7408 0.4725 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 ZINC001141967687.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 18:19:38 Heat of formation + Delta-G solvation = -148.021619 kcal Electronic energy + Delta-G solvation = -25797.670864 eV Core-core repulsion = 21959.036313 eV Total energy + Delta-G solvation = -3838.634551 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 335.074 amu Computer time = 0.69 seconds Orbital eigenvalues (eV) -41.95374 -39.77253 -38.30781 -37.43982 -37.22278 -34.66930 -34.45728 -32.49597 -31.96792 -30.39876 -27.86300 -26.14988 -25.19663 -24.73109 -22.19236 -21.03211 -20.04046 -19.53949 -18.32576 -18.31135 -17.66113 -17.28075 -17.21478 -17.09742 -17.01488 -16.54515 -16.28203 -15.65459 -15.52239 -15.15871 -14.96610 -14.87239 -14.62299 -14.24241 -13.91053 -13.57401 -13.47146 -13.35444 -13.30747 -13.22835 -13.10355 -13.02030 -12.84731 -12.62114 -12.49044 -11.98922 -11.88063 -11.80751 -11.29066 -11.17120 -10.97971 -10.50948 -10.08140 -10.04945 -8.99071 -8.51608 -6.21820 -1.16491 0.94567 1.31099 1.37643 1.41250 1.49578 1.51412 1.82910 2.23868 2.44460 2.65228 2.75978 2.82813 2.87472 3.05791 3.28495 3.40160 3.62320 3.73796 3.87664 4.00869 4.02057 4.11358 4.19592 4.25624 4.39857 4.42605 4.47041 4.55766 4.60265 4.71907 4.77919 4.96824 5.11252 5.47108 5.70703 5.96198 6.05424 6.12320 6.94106 6.96140 8.60617 Molecular weight = 335.07amu Principal moments of inertia in cm(-1) A = 0.019294 B = 0.003575 C = 0.003154 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1450.902885 B = 7829.292730 C = 8875.434704 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.917 5.917 2 C 0.047 3.953 3 Si 0.912 3.088 4 H -0.263 1.263 5 H -0.263 1.263 6 H -0.236 1.236 7 C -0.527 4.527 8 H 0.065 0.935 9 S -0.173 6.173 10 C -0.118 4.118 11 C 0.542 3.458 12 O -0.529 6.529 13 N -0.616 5.616 14 C 0.103 3.897 15 C -0.609 4.609 16 S 2.440 3.560 17 O -0.949 6.949 18 O -0.966 6.966 19 C -0.625 4.625 20 H 0.150 0.850 21 C 0.078 3.922 22 O -0.385 6.385 23 C 0.051 3.949 24 C -0.138 4.138 25 C 0.159 3.841 26 H 0.119 0.881 27 H 0.276 0.724 28 H 0.118 0.882 29 H 0.118 0.882 30 H 0.123 0.877 31 H 0.126 0.874 32 H 0.183 0.817 33 H 0.152 0.848 34 H 0.121 0.879 35 H 0.087 0.913 36 H 0.072 0.928 37 H 0.106 0.894 38 H 0.079 0.921 39 H 0.085 0.915 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 16.369 -15.660 -0.008 22.653 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 -0.555 5.555 2 C -0.158 4.158 3 Si 0.734 3.266 4 H -0.188 1.188 5 H -0.187 1.187 6 H -0.159 1.159 7 C -0.675 4.675 8 H 0.083 0.917 9 S 0.054 5.946 10 C -0.268 4.268 11 C 0.330 3.670 12 O -0.405 6.405 13 N -0.351 5.351 14 C -0.020 4.020 15 C -0.741 4.741 16 S 2.624 3.376 17 O -0.946 6.946 18 O -0.963 6.963 19 C -0.734 4.734 20 H 0.168 0.832 21 C 0.000 4.000 22 O -0.303 6.303 23 C -0.026 4.026 24 C -0.176 4.176 25 C 0.055 3.945 26 H 0.137 0.863 27 H 0.086 0.914 28 H 0.136 0.864 29 H 0.136 0.864 30 H 0.141 0.859 31 H 0.144 0.856 32 H 0.200 0.800 33 H 0.170 0.830 34 H 0.139 0.861 35 H 0.105 0.895 36 H 0.090 0.910 37 H 0.124 0.876 38 H 0.097 0.903 39 H 0.104 0.896 Dipole moment (debyes) X Y Z Total from point charges 17.835 -14.983 0.228 23.294 hybrid contribution -1.884 0.541 -0.039 1.961 sum 15.951 -14.442 0.189 21.518 Atomic orbital electron populations 1.70014 1.07336 1.28958 1.49220 1.25522 0.95179 1.02146 0.92986 0.85903 0.80725 0.79841 0.80124 1.18802 1.18742 1.15948 1.22461 0.90300 0.96654 1.58071 0.91700 1.84733 1.06380 1.05917 1.97581 1.23443 0.95847 0.99817 1.07708 1.20069 0.89572 0.82652 0.74719 1.90747 1.57474 1.43771 1.48517 1.48042 1.06794 1.05963 1.74272 1.21767 0.96445 0.87820 0.95978 1.30531 1.22735 1.13454 1.07426 1.07442 0.79526 0.76503 0.74159 1.93566 1.84887 1.63198 1.52926 1.93574 1.83758 1.78144 1.40815 1.31298 1.10778 1.23067 1.08281 0.83174 1.22469 0.85629 0.87549 1.04344 1.87926 1.63126 1.35283 1.43993 1.22977 0.94273 0.98499 0.86817 1.22586 0.94441 0.95599 1.04986 1.20982 0.79216 0.99740 0.94540 0.86333 0.91447 0.86384 0.86381 0.85884 0.85572 0.79957 0.83033 0.86147 0.89507 0.91004 0.87575 0.90264 0.89636 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 -0.92 -54.07 13.97 21.65 0.30 -53.76 16 2 C 0.05 2.65 5.50 84.86 0.47 3.12 16 3 Si 0.91 43.24 27.74 68.60 1.90 45.14 16 4 H -0.26 -12.22 7.11 99.48 0.71 -11.51 16 5 H -0.26 -11.84 7.11 99.48 0.71 -11.14 16 6 H -0.24 -11.07 6.74 99.48 0.67 -10.40 16 7 C -0.53 -28.88 10.04 67.95 0.68 -28.20 16 8 H 0.06 3.73 8.03 -2.91 -0.02 3.71 16 9 S -0.17 -7.99 18.55 -56.49 -1.05 -9.03 16 10 C -0.12 -3.77 4.48 71.24 0.32 -3.45 16 11 C 0.54 15.39 7.58 87.66 0.66 16.06 16 12 O -0.53 -18.54 11.39 -3.02 -0.03 -18.57 16 13 N -0.62 -11.80 2.80 -797.68 -2.24 -14.04 16 14 C 0.10 1.26 6.11 86.40 0.53 1.78 16 15 C -0.61 -5.90 6.55 72.02 0.47 -5.43 16 16 S 2.44 36.09 4.70 -56.49 -0.27 35.82 16 17 O -0.95 -17.63 17.96 -127.39 -2.29 -19.92 16 18 O -0.97 -20.92 18.11 -127.39 -2.31 -23.22 16 19 C -0.62 -9.97 2.62 30.69 0.08 -9.89 16 20 H 0.15 2.47 8.14 -2.39 -0.02 2.46 16 21 C 0.08 1.24 6.22 71.95 0.45 1.69 16 22 O -0.38 -7.79 10.74 -148.98 -1.60 -9.39 16 23 C 0.05 0.91 6.84 72.07 0.49 1.41 16 24 C -0.14 -3.02 3.86 30.65 0.12 -2.91 16 25 C 0.16 2.84 2.49 45.16 0.11 2.95 16 26 H 0.12 1.63 8.09 -2.39 -0.02 1.61 16 27 H 0.28 15.12 8.31 -92.71 -0.77 14.35 16 28 H 0.12 3.41 7.92 -2.40 -0.02 3.39 16 29 H 0.12 3.36 7.64 -2.40 -0.02 3.34 16 30 H 0.12 0.98 8.14 -2.39 -0.02 0.96 16 31 H 0.13 1.44 5.77 -2.39 -0.01 1.43 16 32 H 0.18 0.73 8.14 -2.39 -0.02 0.71 16 33 H 0.15 1.31 8.14 -2.39 -0.02 1.29 16 34 H 0.12 1.61 8.14 -2.39 -0.02 1.59 16 35 H 0.09 1.08 8.14 -2.38 -0.02 1.06 16 36 H 0.07 0.98 8.14 -2.39 -0.02 0.96 16 37 H 0.11 1.78 8.14 -2.38 -0.02 1.76 16 38 H 0.08 1.91 7.43 -2.39 -0.02 1.89 16 39 H 0.09 2.43 6.11 -2.43 -0.01 2.41 16 Total: -1.00 -77.83 333.65 -2.16 -79.99 By element: Atomic # 1 Polarization: 8.82 SS G_CDS: 1.03 Total: 9.85 kcal Atomic # 6 Polarization: -27.25 SS G_CDS: 4.38 Total: -22.86 kcal Atomic # 7 Polarization: -65.87 SS G_CDS: -1.93 Total: -67.80 kcal Atomic # 8 Polarization: -64.88 SS G_CDS: -6.23 Total: -71.11 kcal Atomic # 14 Polarization: 43.24 SS G_CDS: 1.90 Total: 45.14 kcal Atomic # 16 Polarization: 28.10 SS G_CDS: -1.31 Total: 26.79 kcal Total: -77.83 -2.16 -79.99 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. ZINC001141967687.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 -68.032 kcal (2) G-P(sol) polarization free energy of solvation -77.832 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -145.864 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.158 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -79.990 kcal (6) G-S(sol) free energy of system = (1) + (5) -148.022 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.69 seconds