Wall clock time and date at job start Mon Mar 30 2020 00:56:50 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 1.31509 * 1 3 3 Si 1.86800 * 120.00131 * 2 1 4 4 H 1.48495 * 109.47220 * 270.00188 * 3 2 1 5 5 H 1.48493 * 109.46947 * 30.00498 * 3 2 1 6 6 H 1.48502 * 109.46963 * 150.00552 * 3 2 1 7 7 C 1.37881 * 120.00125 * 180.02562 * 2 1 3 8 8 H 1.08001 * 120.00170 * 175.87985 * 7 2 1 9 9 C 1.50698 * 119.99796 * 355.87358 * 7 2 1 10 10 N 1.46903 * 110.01490 * 55.04291 * 9 7 2 11 11 C 1.46906 * 110.99859 * 62.53218 * 10 9 7 12 12 H 1.08990 * 109.53620 * 336.47136 * 11 10 9 13 13 C 1.53877 * 109.64169 * 216.10755 * 11 10 9 14 14 C 1.55054 * 106.66093 * 192.98800 * 13 11 10 15 15 S 1.83289 * 102.56548 * 42.41336 * 14 13 11 16 16 O 1.42098 * 109.35315 * 90.18274 * 15 14 13 17 17 O 1.42099 * 109.35111 * 223.38493 * 15 14 13 18 18 C 1.54194 * 109.69123 * 96.82701 * 11 10 9 19 19 C 1.54271 * 110.07524 * 176.45701 * 9 7 2 20 20 C 1.54889 * 104.19194 * 95.69744 * 19 9 7 21 21 C 1.54894 * 102.75042 * 37.94895 * 20 19 9 22 22 C 1.53877 * 110.03802 * 293.65185 * 9 7 2 23 23 H 0.96998 * 119.99999 * 5.02870 * 1 2 3 24 24 H 1.00899 * 110.99888 * 186.48357 * 10 9 7 25 25 H 1.09004 * 110.02652 * 73.67660 * 13 11 10 26 26 H 1.08999 * 110.03297 * 312.30856 * 13 11 10 27 27 H 1.09000 * 110.78469 * 160.68141 * 14 13 11 28 28 H 1.08997 * 110.79173 * 283.95408 * 14 13 11 29 29 H 1.09001 * 110.27180 * 28.80837 * 18 11 10 30 30 H 1.09002 * 110.41871 * 266.67552 * 18 11 10 31 31 H 1.08994 * 110.49010 * 214.37950 * 19 9 7 32 32 H 1.09001 * 110.48093 * 337.02699 * 19 9 7 33 33 H 1.08998 * 110.76119 * 279.63282 * 20 19 9 34 34 H 1.09000 * 110.75455 * 156.25745 * 20 19 9 35 35 H 1.08992 * 110.48331 * 203.37850 * 21 20 19 36 36 H 1.08998 * 110.59881 * 80.78564 * 21 20 19 37 37 H 1.08998 * 110.02882 * 359.95071 * 22 9 7 38 38 H 1.09003 * 110.03016 * 121.33182 * 22 9 7 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 2.2491 1.6177 0.0000 4 1 2.4966 2.0464 -1.4000 5 1 1.4467 2.6526 0.7001 6 1 3.5467 1.4400 0.6999 7 6 2.0045 -1.1941 -0.0005 8 1 3.0824 -1.1953 -0.0677 9 6 1.2539 -2.4975 0.0928 10 7 0.2490 -2.5766 -0.9758 11 6 0.8857 -2.5592 -2.2996 12 1 1.8653 -2.0870 -2.2267 13 6 0.0049 -1.7736 -3.2869 14 6 0.5519 -2.0735 -4.7064 15 16 0.8762 -3.8761 -4.6361 16 8 -0.2860 -4.5803 -5.0516 17 8 2.1298 -4.1531 -5.2453 18 6 1.0441 -4.0023 -2.8190 19 6 2.2354 -3.6827 -0.0161 20 6 2.5361 -4.0631 1.4550 21 6 1.1633 -3.8692 2.1457 22 6 0.5723 -2.6161 1.4672 23 1 -0.4850 0.8368 -0.0736 24 1 -0.3328 -3.3935 -0.8652 25 1 0.0720 -0.7057 -3.0789 26 1 -1.0307 -2.1045 -3.2082 27 1 -0.1960 -1.8443 -5.4655 28 1 1.4717 -1.5189 -4.8918 29 1 0.2599 -4.6392 -2.4097 30 1 2.0260 -4.3956 -2.5560 31 1 1.7687 -4.5178 -0.5384 32 1 3.1491 -3.3758 -0.5251 33 1 3.2818 -3.3930 1.8826 34 1 2.8614 -5.1010 1.5268 35 1 1.2947 -3.6984 3.2141 36 1 0.5223 -4.7339 1.9744 37 1 0.7851 -1.7313 2.0671 38 1 -0.5043 -2.7315 1.3413 RHF calculation, no. of doubly occupied orbitals= 49 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 ZINC001254328975.mol2 38 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 00:56:50 Heat of formation + Delta-G solvation = -91.503234 kcal Electronic energy + Delta-G solvation = -20645.712217 eV Core-core repulsion = 17614.192906 eV Total energy + Delta-G solvation = -3031.519311 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 273.119 amu Computer time = 0.37 seconds Orbital eigenvalues (eV) -39.90254 -38.03377 -37.20250 -36.88821 -34.29172 -32.79602 -30.16320 -29.18000 -28.02727 -26.07590 -24.68913 -21.80302 -21.01065 -20.56637 -19.71902 -18.13166 -17.69849 -17.18489 -16.64557 -16.55075 -16.12842 -15.94505 -15.18471 -14.88958 -14.75404 -14.07131 -13.97348 -13.45148 -13.23664 -13.14300 -13.12078 -13.05325 -12.83714 -12.78076 -12.56149 -12.32231 -12.18714 -11.81821 -11.64859 -11.54814 -11.44802 -11.17687 -11.14606 -10.91150 -10.65749 -10.28754 -8.50084 -7.76961 -5.95872 -0.79986 1.42373 1.49600 1.53408 1.68217 2.53875 2.70979 3.11562 3.35460 3.63022 3.73820 3.99328 4.07350 4.15829 4.20450 4.27722 4.34679 4.50560 4.69876 4.84967 4.92774 4.95475 5.01854 5.09967 5.17328 5.23111 5.26308 5.36391 5.45172 5.49361 5.59087 5.69252 5.90307 5.99440 6.43847 6.85098 7.08318 7.44985 7.71527 9.18716 Molecular weight = 273.12amu Principal moments of inertia in cm(-1) A = 0.017716 B = 0.007856 C = 0.006234 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1580.148581 B = 3563.388789 C = 4490.449333 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.851 5.851 2 C 0.056 3.944 3 Si 0.910 3.090 4 H -0.280 1.280 5 H -0.294 1.294 6 H -0.281 1.281 7 C -0.530 4.530 8 H 0.038 0.962 9 C 0.240 3.760 10 N -0.639 5.639 11 C 0.111 3.889 12 H 0.084 0.916 13 C -0.099 4.099 14 C -0.568 4.568 15 S 2.402 3.598 16 O -0.976 6.976 17 O -0.983 6.983 18 C -0.608 4.608 19 C -0.150 4.150 20 C -0.113 4.113 21 C -0.121 4.121 22 C -0.087 4.087 23 H 0.249 0.751 24 H 0.316 0.684 25 H 0.079 0.921 26 H 0.085 0.915 27 H 0.155 0.845 28 H 0.146 0.854 29 H 0.148 0.852 30 H 0.142 0.858 31 H 0.065 0.935 32 H 0.045 0.955 33 H 0.050 0.950 34 H 0.071 0.929 35 H 0.056 0.944 36 H 0.067 0.933 37 H 0.028 0.972 38 H 0.038 0.962 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 0.316 -6.165 -3.919 7.312 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 -0.486 5.486 2 C -0.149 4.149 3 Si 0.738 3.262 4 H -0.206 1.206 5 H -0.220 1.220 6 H -0.207 1.207 7 C -0.569 4.569 8 H 0.056 0.944 9 C 0.150 3.850 10 N -0.267 5.267 11 C -0.002 4.002 12 H 0.102 0.898 13 C -0.138 4.138 14 C -0.700 4.700 15 S 2.590 3.410 16 O -0.973 6.973 17 O -0.980 6.980 18 C -0.741 4.741 19 C -0.189 4.189 20 C -0.151 4.151 21 C -0.159 4.159 22 C -0.126 4.126 23 H 0.058 0.942 24 H 0.134 0.866 25 H 0.098 0.902 26 H 0.103 0.897 27 H 0.173 0.827 28 H 0.164 0.836 29 H 0.166 0.834 30 H 0.160 0.840 31 H 0.084 0.916 32 H 0.064 0.936 33 H 0.068 0.932 34 H 0.089 0.911 35 H 0.075 0.925 36 H 0.086 0.914 37 H 0.047 0.953 38 H 0.057 0.943 Dipole moment (debyes) X Y Z Total from point charges 0.056 -6.067 -4.569 7.596 hybrid contribution 0.834 1.066 0.707 1.527 sum 0.890 -5.001 -3.863 6.381 Atomic orbital electron populations 1.70197 1.05760 1.25327 1.47270 1.25275 0.95073 0.99661 0.94938 0.86352 0.79131 0.82903 0.77786 1.20622 1.22039 1.20650 1.21090 0.91663 0.91235 1.52879 0.94354 1.19157 0.86874 0.91273 0.87664 1.60544 1.22773 1.43620 0.99809 1.21740 0.99168 0.88199 0.91099 0.89824 1.22082 1.00160 1.03287 0.88293 1.30499 1.12292 1.21823 1.05392 1.08451 0.73659 0.79843 0.79061 1.93537 1.50429 1.71927 1.81413 1.93526 1.44125 1.84806 1.75503 1.31292 1.12390 1.07275 1.23166 1.23280 1.00188 0.98949 0.96523 1.22322 0.96894 1.00081 0.95811 1.22387 0.96713 0.97932 0.98876 1.21965 0.97945 0.95471 0.97201 0.94164 0.86575 0.90235 0.89654 0.82734 0.83580 0.83439 0.83971 0.91633 0.93623 0.93160 0.91076 0.92480 0.91389 0.95280 0.94290 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 -0.85 -43.33 12.02 21.45 0.26 -43.07 16 2 C 0.06 2.75 5.09 84.66 0.43 3.18 16 3 Si 0.91 40.58 29.54 68.60 2.03 42.61 16 4 H -0.28 -12.29 7.11 99.48 0.71 -11.58 16 5 H -0.29 -13.33 7.11 99.48 0.71 -12.62 16 6 H -0.28 -12.65 7.11 99.48 0.71 -11.95 16 7 C -0.53 -25.46 6.38 25.60 0.16 -25.29 16 8 H 0.04 1.91 7.56 -2.91 -0.02 1.89 16 9 C 0.24 9.82 0.40 3.51 0.00 9.83 16 10 N -0.64 -24.31 4.78 -444.84 -2.13 -26.44 16 11 C 0.11 3.64 2.30 45.61 0.10 3.74 16 12 H 0.08 3.13 6.55 -2.39 -0.02 3.11 16 13 C -0.10 -2.95 6.10 31.59 0.19 -2.76 16 14 C -0.57 -13.05 7.31 72.69 0.53 -12.52 16 15 S 2.40 62.38 6.11 -56.49 -0.34 62.03 16 16 O -0.98 -30.67 18.14 -127.49 -2.31 -32.99 16 17 O -0.98 -31.64 18.15 -127.49 -2.31 -33.96 16 18 C -0.61 -15.68 5.37 72.39 0.39 -15.29 16 19 C -0.15 -5.21 4.55 31.67 0.14 -5.07 16 20 C -0.11 -3.62 6.91 31.89 0.22 -3.40 16 21 C -0.12 -3.96 6.83 31.67 0.22 -3.75 16 22 C -0.09 -3.59 5.58 31.32 0.17 -3.41 16 23 H 0.25 12.54 8.32 -92.71 -0.77 11.77 16 24 H 0.32 10.84 7.82 -89.69 -0.70 10.14 16 25 H 0.08 2.78 8.14 -2.39 -0.02 2.76 16 26 H 0.08 2.43 8.14 -2.39 -0.02 2.41 16 27 H 0.15 2.81 8.14 -2.39 -0.02 2.79 16 28 H 0.15 3.05 8.14 -2.39 -0.02 3.03 16 29 H 0.15 3.33 7.48 -2.39 -0.02 3.32 16 30 H 0.14 3.45 7.11 -2.39 -0.02 3.44 16 31 H 0.07 1.98 6.17 -2.39 -0.01 1.97 16 32 H 0.04 1.66 7.67 -2.39 -0.02 1.64 16 33 H 0.05 1.72 8.14 -2.39 -0.02 1.70 16 34 H 0.07 1.89 8.14 -2.39 -0.02 1.88 16 35 H 0.06 1.76 8.14 -2.39 -0.02 1.74 16 36 H 0.07 1.95 8.14 -2.39 -0.02 1.93 16 37 H 0.03 1.37 7.49 -2.39 -0.02 1.35 16 38 H 0.04 1.64 7.85 -2.39 -0.02 1.62 16 Total: -1.00 -62.32 306.02 -1.90 -64.21 By element: Atomic # 1 Polarization: 21.98 SS G_CDS: 0.35 Total: 22.33 kcal Atomic # 6 Polarization: -57.30 SS G_CDS: 2.57 Total: -54.73 kcal Atomic # 7 Polarization: -67.64 SS G_CDS: -1.87 Total: -69.51 kcal Atomic # 8 Polarization: -62.32 SS G_CDS: -4.63 Total: -66.94 kcal Atomic # 14 Polarization: 40.58 SS G_CDS: 2.03 Total: 42.61 kcal Atomic # 16 Polarization: 62.38 SS G_CDS: -0.34 Total: 62.03 kcal Total: -62.32 -1.90 -64.21 kcal The number of atoms in the molecule is 38 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. ZINC001254328975.mol2 38 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 -27.289 kcal (2) G-P(sol) polarization free energy of solvation -62.318 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -89.608 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.895 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -64.214 kcal (6) G-S(sol) free energy of system = (1) + (5) -91.503 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.37 seconds