Wall clock time and date at job start Tue Mar 31 2020 14:36:33 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 1.31591 * 1 3 3 Si 1.86797 * 120.00166 * 2 1 4 4 H 1.48494 * 109.47229 * 270.00407 * 3 2 1 5 5 H 1.48498 * 109.46953 * 30.00735 * 3 2 1 6 6 H 1.48501 * 109.46709 * 149.99991 * 3 2 1 7 7 C 1.38606 * 119.99724 * 180.02562 * 2 1 3 8 8 H 1.07996 * 120.00062 * 179.97438 * 7 2 1 9 9 O 1.34823 * 120.00144 * 359.97438 * 7 2 1 10 10 C 1.35777 * 116.99825 * 174.61149 * 9 7 2 11 11 C 1.38919 * 119.99123 * 186.54845 * 10 9 7 12 12 C 1.37994 * 120.01103 * 179.72920 * 11 10 9 13 13 C 1.38988 * 119.98431 * 0.54200 * 12 11 10 14 14 N 1.39757 * 120.00232 * 179.70485 * 13 12 11 15 15 C 1.39911 * 120.00049 * 329.16169 * 14 13 12 16 16 C 1.39326 * 120.09556 * 333.76501 * 15 14 13 17 17 C 1.36109 * 120.67099 * 179.71386 * 16 15 14 18 18 C 1.41105 * 120.66220 * 0.56703 * 17 16 15 19 19 N 1.34956 * 128.70866 * 179.74106 * 18 17 16 20 20 C 1.28611 * 117.92644 * 179.97438 * 19 18 17 21 21 O 1.35363 * 124.79784 * 179.97438 * 20 19 18 22 22 S 1.75798 * 110.40533 * 359.97438 * 20 19 18 23 23 C 1.39789 * 118.47484 * 359.71953 * 18 17 16 24 24 C 1.38353 * 120.09388 * 154.04585 * 15 14 13 25 25 C 1.38980 * 119.98977 * 359.72854 * 13 12 11 26 26 C 1.37996 * 119.98906 * 359.97438 * 25 13 12 27 27 H 0.97001 * 119.99855 * 359.97438 * 1 2 3 28 28 H 1.08001 * 119.99520 * 359.97235 * 11 10 9 29 29 H 1.07997 * 120.00396 * 180.25090 * 12 11 10 30 30 H 0.97005 * 119.99989 * 149.15579 * 14 13 12 31 31 H 1.07999 * 119.66474 * 0.02562 * 16 15 14 32 32 H 1.07995 * 119.66903 * 180.28386 * 17 16 15 33 33 H 0.96706 * 113.99615 * 0.02562 * 21 20 19 34 34 H 1.07998 * 120.00836 * 0.02562 * 24 15 14 35 35 H 1.07994 * 120.00482 * 179.97438 * 25 13 12 36 36 H 1.07996 * 119.99441 * 180.02562 * 26 25 13 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 1.3159 0.0000 0.0000 3 14 2.2499 1.6177 0.0000 4 1 2.4974 2.0464 -1.4000 5 1 1.4475 2.6526 0.7002 6 1 3.5475 1.4400 0.7001 7 6 2.0089 -1.2004 -0.0005 8 1 3.0888 -1.2005 -0.0010 9 8 1.3347 -2.3680 -0.0005 10 6 2.0696 -3.5040 -0.1147 11 6 1.4338 -4.7308 -0.2585 12 6 2.1803 -5.8850 -0.3801 13 6 3.5683 -5.8211 -0.3475 14 7 4.3246 -6.9906 -0.4645 15 6 3.8172 -8.2028 0.0156 16 6 2.8830 -8.2087 1.0493 17 6 2.3773 -9.3809 1.5214 18 6 2.7976 -10.6151 0.9818 19 7 2.4117 -11.8618 1.3257 20 6 2.9331 -12.8506 0.6899 21 8 2.6481 -14.1537 0.9202 22 16 4.0686 -12.2708 -0.5205 23 6 3.7393 -10.6048 -0.0512 24 6 4.2459 -9.3994 -0.5308 25 6 4.2040 -4.5943 -0.1980 26 6 3.4569 -3.4399 -0.0825 27 1 -0.4850 0.8401 0.0004 28 1 0.3551 -4.7807 -0.2790 29 1 1.6859 -6.8381 -0.4960 30 1 5.2013 -6.9618 -0.8786 31 1 2.5530 -7.2735 1.4769 32 1 1.6506 -9.3664 2.3201 33 1 1.9994 -14.2961 1.6232 34 1 4.9736 -9.3987 -1.3288 35 1 5.2825 -4.5445 -0.1721 36 1 3.9507 -2.4865 0.0332 RHF calculation, no. of doubly occupied orbitals= 56 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 ZINC001212608822.mol2 36 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 14:36:33 Heat of formation + Delta-G solvation = 6.372311 kcal Electronic energy + Delta-G solvation = -23208.042611 eV Core-core repulsion = 19556.145324 eV Total energy + Delta-G solvation = -3651.897287 eV No. of doubly occupied orbitals = 56 Molecular weight (most abundant/longest-lived isotopes) = 328.067 amu Computer time = 0.73 seconds Orbital eigenvalues (eV) -41.59282 -40.81735 -39.76738 -38.68019 -37.13246 -35.00038 -34.08405 -32.25063 -31.85985 -30.04728 -28.48944 -27.12987 -25.40240 -24.40818 -23.34164 -23.11118 -22.25341 -19.95561 -19.59380 -19.40934 -18.80088 -18.37367 -17.69741 -16.56724 -16.49104 -16.30919 -16.01331 -15.74378 -15.53052 -15.49655 -15.23010 -14.72340 -14.49715 -14.41371 -14.19109 -13.93562 -13.64258 -13.51448 -13.30672 -12.99324 -12.79953 -12.42749 -12.35214 -12.10945 -11.87325 -11.22920 -11.17546 -10.99571 -10.91798 -10.57579 -9.83823 -9.27997 -9.13307 -8.42742 -7.97355 -6.08187 -0.47575 -0.24647 0.13126 0.53217 0.54695 0.69499 1.37449 1.38126 1.47879 1.54917 2.20500 2.31878 2.55908 2.65478 2.87642 3.18804 3.50683 3.57807 3.79300 4.07164 4.09220 4.13242 4.18067 4.39120 4.51143 4.59520 4.77370 4.80602 4.92767 5.07546 5.11881 5.20046 5.25401 5.38900 5.47336 5.54177 5.70694 5.91925 6.06382 6.11100 6.44704 6.59123 6.79619 7.02538 7.84768 8.80673 Molecular weight = 328.07amu Principal moments of inertia in cm(-1) A = 0.039829 B = 0.002095 C = 0.002025 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 702.828835 B =13362.399378 C =13823.534542 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.923 5.923 2 C -0.026 4.026 3 Si 1.017 2.983 4 H -0.265 1.265 5 H -0.275 1.275 6 H -0.251 1.251 7 C -0.408 4.408 8 H 0.104 0.896 9 O -0.234 6.234 10 C 0.094 3.906 11 C -0.171 4.171 12 C -0.102 4.102 13 C 0.100 3.900 14 N -0.665 5.665 15 C 0.210 3.790 16 C -0.147 4.147 17 C -0.041 4.041 18 C 0.046 3.954 19 N -0.544 5.544 20 C 0.285 3.715 21 O -0.430 6.430 22 S 0.145 5.855 23 C -0.161 4.161 24 C -0.131 4.131 25 C -0.099 4.099 26 C -0.210 4.210 27 H 0.271 0.729 28 H 0.116 0.884 29 H 0.137 0.863 30 H 0.421 0.579 31 H 0.136 0.864 32 H 0.143 0.857 33 H 0.430 0.570 34 H 0.154 0.846 35 H 0.149 0.851 36 H 0.125 0.875 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 11.362 -23.422 -0.223 26.033 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 -0.561 5.561 2 C -0.223 4.223 3 Si 0.837 3.163 4 H -0.190 1.190 5 H -0.200 1.200 6 H -0.175 1.175 7 C -0.484 4.484 8 H 0.121 0.879 9 O -0.141 6.141 10 C 0.044 3.956 11 C -0.190 4.190 12 C -0.123 4.123 13 C 0.004 3.996 14 N -0.289 5.289 15 C 0.106 3.894 16 C -0.170 4.170 17 C -0.063 4.063 18 C -0.072 4.072 19 N -0.278 5.278 20 C -0.039 4.039 21 O -0.231 6.231 22 S 0.392 5.608 23 C -0.280 4.280 24 C -0.159 4.159 25 C -0.120 4.120 26 C -0.230 4.230 27 H 0.080 0.920 28 H 0.134 0.866 29 H 0.155 0.845 30 H 0.260 0.740 31 H 0.153 0.847 32 H 0.161 0.839 33 H 0.290 0.710 34 H 0.172 0.828 35 H 0.167 0.833 36 H 0.143 0.857 Dipole moment (debyes) X Y Z Total from point charges 11.494 -24.129 -0.905 26.742 hybrid contribution -0.639 1.615 0.838 1.929 sum 10.855 -22.514 -0.067 24.994 Atomic orbital electron populations 1.70204 1.07999 1.28612 1.49311 1.26555 0.96829 1.02742 0.96190 0.84603 0.77872 0.74747 0.79126 1.18978 1.19966 1.17476 1.21799 0.92523 0.81439 1.52655 0.87881 1.83951 1.35853 1.12493 1.81790 1.19860 0.91597 0.87944 0.96242 1.20233 0.99892 0.90048 1.08867 1.20674 0.92430 0.97251 1.01926 1.17286 0.90281 0.86102 1.05894 1.41758 1.20465 1.02434 1.64259 1.17560 0.94467 0.85502 0.91845 1.20680 1.00412 0.98738 0.97215 1.20296 0.98788 0.88063 0.99127 1.18623 0.99400 0.90667 0.98518 1.66503 1.30823 0.98990 1.31493 1.25189 0.95716 0.88001 0.94956 1.85073 1.63641 1.14932 1.59478 1.84792 1.43692 0.95292 1.37028 1.23412 1.03843 0.98201 1.02553 1.19818 1.05678 0.87559 1.02874 1.20735 1.00283 0.90069 1.00880 1.21106 0.92804 0.99755 1.09289 0.92024 0.86622 0.84510 0.74020 0.84663 0.83901 0.71005 0.82827 0.83345 0.85689 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 -56.12 13.67 21.61 0.30 -55.83 16 2 C -0.03 -1.46 5.49 84.82 0.47 -0.99 16 3 Si 1.02 42.06 29.55 68.60 2.03 44.08 16 4 H -0.26 -10.43 7.11 99.48 0.71 -9.73 16 5 H -0.27 -11.06 7.11 99.48 0.71 -10.35 16 6 H -0.25 -9.54 7.11 99.48 0.71 -8.83 16 7 C -0.41 -23.06 9.48 67.91 0.64 -22.42 16 8 H 0.10 5.27 5.21 -2.91 -0.02 5.25 16 9 O -0.23 -13.66 9.75 -22.96 -0.22 -13.89 16 10 C 0.09 4.44 6.65 22.60 0.15 4.59 16 11 C -0.17 -6.90 9.98 22.38 0.22 -6.68 16 12 C -0.10 -3.27 7.74 22.39 0.17 -3.09 16 13 C 0.10 2.84 5.94 38.24 0.23 3.07 16 14 N -0.66 -14.00 5.47 -180.37 -0.99 -14.99 16 15 C 0.21 4.53 6.03 38.14 0.23 4.76 16 16 C -0.15 -3.43 7.75 22.04 0.17 -3.26 16 17 C -0.04 -0.95 10.04 22.48 0.23 -0.73 16 18 C 0.05 1.09 6.94 39.74 0.28 1.37 16 19 N -0.54 -12.53 10.60 -306.15 -3.25 -15.78 16 20 C 0.29 5.43 8.81 130.71 1.15 6.58 16 21 O -0.43 -5.72 13.63 -86.54 -1.18 -6.90 16 22 S 0.14 2.51 23.39 -56.49 -1.32 1.19 16 23 C -0.16 -3.42 6.52 22.89 0.15 -3.27 16 24 C -0.13 -2.51 9.96 22.55 0.22 -2.28 16 25 C -0.10 -3.02 9.95 22.39 0.22 -2.80 16 26 C -0.21 -8.41 9.16 22.37 0.20 -8.21 16 27 H 0.27 15.14 8.31 -92.71 -0.77 14.37 16 28 H 0.12 4.69 8.06 -2.91 -0.02 4.67 16 29 H 0.14 3.86 6.53 -2.91 -0.02 3.84 16 30 H 0.42 6.49 8.89 -92.70 -0.82 5.67 16 31 H 0.14 3.38 6.33 -2.91 -0.02 3.36 16 32 H 0.14 2.93 8.06 -2.91 -0.02 2.91 16 33 H 0.43 2.20 9.06 -74.05 -0.67 1.53 16 34 H 0.15 2.14 8.06 -2.91 -0.02 2.12 16 35 H 0.15 3.44 8.06 -2.91 -0.02 3.42 16 36 H 0.13 5.09 5.64 -2.91 -0.02 5.07 16 Total: -1.00 -71.97 330.06 -0.20 -72.18 By element: Atomic # 1 Polarization: 23.61 SS G_CDS: -0.31 Total: 23.30 kcal Atomic # 6 Polarization: -38.10 SS G_CDS: 4.74 Total: -33.36 kcal Atomic # 7 Polarization: -82.66 SS G_CDS: -3.94 Total: -86.60 kcal Atomic # 8 Polarization: -19.39 SS G_CDS: -1.40 Total: -20.79 kcal Atomic # 14 Polarization: 42.06 SS G_CDS: 2.03 Total: 44.08 kcal Atomic # 16 Polarization: 2.51 SS G_CDS: -1.32 Total: 1.19 kcal Total: -71.97 -0.20 -72.18 kcal The number of atoms in the molecule is 36 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. ZINC001212608822.mol2 36 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 78.550 kcal (2) G-P(sol) polarization free energy of solvation -71.974 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 6.576 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.204 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.177 kcal (6) G-S(sol) free energy of system = (1) + (5) 6.372 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.73 seconds