Wall clock time and date at job start Mon Mar 30 2020 02:26:22 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 C 2 2 C 1.53004 * 1 3 3 H 1.08992 * 109.47250 * 2 1 4 4 C 1.53007 * 109.46865 * 239.99703 * 2 1 3 5 5 C 1.50701 * 109.46943 * 65.00301 * 4 2 1 6 6 H 1.08004 * 119.99895 * 0.02562 * 5 4 2 7 7 C 1.37879 * 119.99837 * 179.97438 * 5 4 2 8 8 N 1.31515 * 120.00138 * 0.02562 * 7 5 4 9 9 Si 1.86796 * 119.99835 * 180.02562 * 7 5 4 10 10 H 1.48503 * 109.47029 * 60.00300 * 9 7 5 11 11 H 1.48502 * 109.47151 * 180.02562 * 9 7 5 12 12 H 1.48495 * 109.47416 * 300.00497 * 9 7 5 13 13 C 1.52997 * 109.46728 * 120.00393 * 2 1 3 14 14 N 1.46904 * 109.47098 * 294.99550 * 13 2 1 15 15 C 1.46903 * 111.00157 * 180.02562 * 14 13 2 16 16 H 1.08996 * 108.77792 * 327.84929 * 15 14 13 17 17 C 1.54213 * 108.92155 * 86.45285 * 15 14 13 18 18 S 1.83830 * 102.85552 * 145.78928 * 17 15 14 19 19 O 1.42100 * 109.81250 * 77.68365 * 18 17 15 20 20 O 1.42105 * 109.80896 * 211.99543 * 18 17 15 21 21 C 1.83816 * 94.23798 * 324.85745 * 18 17 15 22 22 C 1.52382 * 108.92502 * 209.24441 * 15 14 13 23 23 H 1.08999 * 108.81835 * 118.58597 * 22 15 14 24 24 C 1.53000 * 108.92685 * 359.97438 * 22 15 14 25 25 H 1.09005 * 109.46801 * 59.99780 * 1 2 3 26 26 H 1.08998 * 109.47665 * 180.02562 * 1 2 3 27 27 H 1.08998 * 109.46688 * 300.00377 * 1 2 3 28 28 H 1.09000 * 109.46856 * 185.00068 * 4 2 1 29 29 H 1.09003 * 109.47111 * 305.00404 * 4 2 1 30 30 H 0.96997 * 119.99809 * 179.97438 * 8 7 5 31 31 H 1.09003 * 109.47168 * 174.99511 * 13 2 1 32 32 H 1.09002 * 109.47474 * 54.99527 * 13 2 1 33 33 H 1.00905 * 110.99930 * 303.95813 * 14 13 2 34 34 H 1.08993 * 110.73525 * 27.44662 * 17 15 14 35 35 H 1.09000 * 110.73291 * 264.12456 * 17 15 14 36 36 H 1.08995 * 110.73984 * 153.48144 * 21 18 17 37 37 H 1.09005 * 110.73855 * 276.62213 * 21 18 17 38 38 H 1.09002 * 109.47406 * 295.75602 * 24 22 15 39 39 H 1.09001 * 109.46697 * 55.75720 * 24 22 15 40 40 H 1.08999 * 109.47126 * 175.75294 * 24 22 15 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 1 1.8934 1.0276 0.0000 4 6 2.0400 -0.7214 -1.2493 5 6 1.6413 0.0570 -2.4766 6 1 1.0807 0.9746 -2.3757 7 6 1.9932 -0.4018 -3.7283 8 7 2.6763 -1.5189 -3.8512 9 14 1.4997 0.5633 -5.2496 10 1 2.0920 1.9236 -5.1865 11 1 1.9945 -0.1369 -6.4621 12 1 0.0198 0.6701 -5.3095 13 6 2.0399 -0.7213 1.2492 14 7 1.6513 0.0373 2.4456 15 6 2.1256 -0.6267 3.6672 16 1 2.1256 -1.7042 3.5034 17 6 3.5678 -0.1651 3.9595 18 16 3.6246 -0.1399 5.7968 19 8 3.7652 -1.4641 6.2925 20 8 4.5037 0.8861 6.2373 21 6 1.8807 0.4118 5.9791 22 6 1.1713 -0.3003 4.8095 23 1 0.7306 -1.2277 5.1752 24 6 0.0562 0.6043 4.2814 25 1 -0.3633 0.5139 -0.8900 26 1 -0.3634 -1.0276 0.0005 27 1 -0.3632 0.5139 0.8900 28 1 3.1263 -0.7996 -1.2056 29 1 1.6053 -1.7199 -1.2952 30 1 2.9235 -1.8419 -4.7318 31 1 3.1263 -0.7997 1.2056 32 1 1.6052 -1.7199 1.2951 33 1 1.9882 0.9873 2.3967 34 1 3.7437 0.8312 3.5542 35 1 4.2894 -0.8782 3.5609 36 1 1.4707 0.0858 6.9349 37 1 1.8057 1.4945 5.8777 38 1 0.4813 1.5548 3.9588 39 1 -0.4348 0.1206 3.4369 40 1 -0.6726 0.7821 5.0722 RHF calculation, no. of doubly occupied orbitals= 50 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 ZINC001308946256.mol2 40 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 02:26:22 Heat of formation + Delta-G solvation = -105.814070 kcal Electronic energy + Delta-G solvation = -19862.099235 eV Core-core repulsion = 16802.647880 eV Total energy + Delta-G solvation = -3059.451354 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 275.134 amu Computer time = 0.47 seconds Orbital eigenvalues (eV) -39.69865 -38.11002 -37.25467 -37.02018 -34.79752 -33.26108 -30.74648 -28.82967 -28.24076 -26.51498 -25.04276 -24.05961 -21.05924 -20.30057 -19.88405 -18.51574 -17.70503 -17.24159 -17.05535 -16.59253 -16.48779 -15.89628 -15.45963 -15.06755 -14.84946 -14.36324 -14.24017 -13.79470 -13.63175 -13.32777 -13.26090 -13.12995 -12.99505 -12.91750 -12.74640 -12.71193 -12.59001 -12.20144 -12.09895 -11.89322 -11.59324 -11.52485 -11.45633 -11.17501 -11.02924 -10.83543 -10.51804 -9.27959 -8.16673 -6.25545 -0.88626 1.40981 1.43100 1.50752 1.55265 2.42606 2.65287 2.97636 3.12283 3.17201 3.49801 3.76690 3.86345 3.97357 4.07758 4.21054 4.39240 4.51649 4.58697 4.69850 4.74122 4.84973 4.94307 4.97006 5.01793 5.07234 5.29069 5.33181 5.40489 5.51533 5.56386 5.59120 5.77490 5.85646 5.91591 6.03859 6.32417 6.50350 6.91263 7.42997 8.95072 Molecular weight = 275.13amu Principal moments of inertia in cm(-1) A = 0.034746 B = 0.003509 C = 0.003348 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 805.650133 B = 7976.590675 C = 8361.018731 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.114 4.114 2 C -0.074 4.074 3 H 0.056 0.944 4 C 0.031 3.969 5 C -0.528 4.528 6 H 0.062 0.938 7 C -0.002 4.002 8 N -0.936 5.936 9 Si 0.958 3.042 10 H -0.267 1.267 11 H -0.287 1.287 12 H -0.267 1.267 13 C 0.071 3.929 14 N -0.658 5.658 15 C 0.087 3.913 16 H 0.095 0.905 17 C -0.607 4.607 18 S 2.385 3.615 19 O -0.973 6.973 20 O -0.981 6.981 21 C -0.545 4.545 22 C -0.082 4.082 23 H 0.103 0.897 24 C -0.120 4.120 25 H 0.033 0.967 26 H 0.033 0.967 27 H 0.074 0.926 28 H -0.016 1.016 29 H -0.012 1.012 30 H 0.261 0.739 31 H 0.022 0.978 32 H 0.063 0.937 33 H 0.351 0.649 34 H 0.151 0.849 35 H 0.136 0.864 36 H 0.158 0.842 37 H 0.159 0.841 38 H 0.061 0.939 39 H 0.065 0.935 40 H 0.057 0.943 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -4.019 5.053 20.250 21.254 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 C -0.171 4.171 2 C -0.093 4.093 3 H 0.074 0.926 4 C -0.007 4.007 5 C -0.566 4.566 6 H 0.080 0.920 7 C -0.199 4.199 8 N -0.577 5.577 9 Si 0.784 3.216 10 H -0.192 1.192 11 H -0.212 1.212 12 H -0.192 1.192 13 C -0.058 4.058 14 N -0.289 5.289 15 C -0.025 4.025 16 H 0.113 0.887 17 C -0.738 4.738 18 S 2.574 3.426 19 O -0.970 6.970 20 O -0.978 6.978 21 C -0.678 4.678 22 C -0.103 4.103 23 H 0.121 0.879 24 C -0.179 4.179 25 H 0.052 0.948 26 H 0.052 0.948 27 H 0.093 0.907 28 H 0.003 0.997 29 H 0.007 0.993 30 H 0.070 0.930 31 H 0.040 0.960 32 H 0.082 0.918 33 H 0.171 0.829 34 H 0.169 0.831 35 H 0.154 0.846 36 H 0.176 0.824 37 H 0.177 0.823 38 H 0.080 0.920 39 H 0.084 0.916 40 H 0.076 0.924 Dipole moment (debyes) X Y Z Total from point charges -3.789 4.434 20.845 21.645 hybrid contribution 0.687 0.286 -1.908 2.048 sum -3.102 4.720 18.937 19.761 Atomic orbital electron populations 1.21505 0.94585 1.00325 1.00692 1.21003 0.96766 0.98479 0.93031 0.92556 1.19031 0.94021 0.94682 0.92970 1.21637 1.34318 1.08580 0.92104 0.92011 1.25934 0.95308 0.96063 1.02635 1.70092 1.40379 1.22992 1.24265 0.85598 0.78950 0.78807 0.78292 1.19244 1.21249 1.19217 1.21955 0.96963 0.97462 0.89455 1.60816 1.62441 1.05874 0.99813 1.21910 0.87509 1.00720 0.92382 0.88684 1.31131 1.05932 1.11920 1.24854 1.09022 0.80096 0.74273 0.79240 1.93578 1.86869 1.38099 1.78451 1.93555 1.64716 1.59195 1.80352 1.30390 1.18015 1.12137 1.07263 1.21328 0.97043 1.01204 0.90680 0.87912 1.21584 0.96536 0.99053 1.00713 0.94811 0.94820 0.90677 0.99726 0.99343 0.93030 0.96013 0.91803 0.82924 0.83093 0.84571 0.82373 0.82316 0.91980 0.91639 0.92431 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 18. 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 C -0.11 -3.92 8.89 71.98 0.64 -3.28 16 2 C -0.07 -2.74 2.48 -10.79 -0.03 -2.77 16 3 H 0.06 2.06 8.14 -2.39 -0.02 2.04 16 4 C 0.03 1.55 4.45 29.85 0.13 1.68 16 5 C -0.53 -29.11 8.41 25.60 0.22 -28.90 16 6 H 0.06 3.25 7.06 -2.91 -0.02 3.23 16 7 C 0.00 -0.13 5.46 84.66 0.46 0.34 16 8 N -0.94 -56.74 13.29 21.45 0.28 -56.46 16 9 Si 0.96 43.81 29.54 68.60 2.03 45.83 16 10 H -0.27 -11.71 7.11 99.48 0.71 -11.01 16 11 H -0.29 -12.97 7.11 99.48 0.71 -12.26 16 12 H -0.27 -11.72 7.11 99.48 0.71 -11.01 16 13 C 0.07 2.07 4.85 86.30 0.42 2.49 16 14 N -0.66 -13.38 3.41 -490.49 -1.67 -15.05 16 15 C 0.09 1.42 2.95 45.12 0.13 1.55 16 16 H 0.09 1.68 7.71 -2.39 -0.02 1.66 16 17 C -0.61 -9.06 6.85 72.39 0.50 -8.56 16 18 S 2.39 38.39 6.08 -56.49 -0.34 38.05 16 19 O -0.97 -23.22 18.17 -127.53 -2.32 -25.54 16 20 O -0.98 -23.28 18.17 -127.53 -2.32 -25.60 16 21 C -0.55 -4.77 6.86 72.39 0.50 -4.27 16 22 C -0.08 -0.99 3.18 -10.59 -0.03 -1.02 16 23 H 0.10 1.10 8.14 -2.39 -0.02 1.08 16 24 C -0.12 -1.53 7.92 71.98 0.57 -0.96 16 25 H 0.03 1.28 6.95 -2.38 -0.02 1.26 16 26 H 0.03 1.18 8.14 -2.39 -0.02 1.16 16 27 H 0.07 2.09 7.75 -2.39 -0.02 2.08 16 28 H -0.02 -0.87 8.14 -2.39 -0.02 -0.89 16 29 H -0.01 -0.66 8.14 -2.39 -0.02 -0.68 16 30 H 0.26 14.98 8.31 -92.71 -0.77 14.21 16 31 H 0.02 0.66 8.06 -2.39 -0.02 0.64 16 32 H 0.06 1.95 8.04 -2.39 -0.02 1.93 16 33 H 0.35 6.30 7.77 -89.69 -0.70 5.60 16 34 H 0.15 1.87 7.55 -2.39 -0.02 1.85 16 35 H 0.14 2.09 8.14 -2.39 -0.02 2.07 16 36 H 0.16 0.77 8.14 -2.39 -0.02 0.75 16 37 H 0.16 0.84 7.84 -2.38 -0.02 0.82 16 38 H 0.06 0.73 7.63 -2.39 -0.02 0.72 16 39 H 0.06 1.09 7.48 -2.39 -0.02 1.07 16 40 H 0.06 0.59 8.14 -2.39 -0.02 0.57 16 Total: -1.00 -75.04 329.53 -0.52 -75.56 By element: Atomic # 1 Polarization: 6.60 SS G_CDS: 0.31 Total: 6.91 kcal Atomic # 6 Polarization: -47.21 SS G_CDS: 3.50 Total: -43.70 kcal Atomic # 7 Polarization: -70.12 SS G_CDS: -1.39 Total: -71.51 kcal Atomic # 8 Polarization: -46.51 SS G_CDS: -4.63 Total: -51.14 kcal Atomic # 14 Polarization: 43.81 SS G_CDS: 2.03 Total: 45.83 kcal Atomic # 16 Polarization: 38.39 SS G_CDS: -0.34 Total: 38.05 kcal Total: -75.04 -0.52 -75.56 kcal The number of atoms in the molecule is 40 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. ZINC001308946256.mol2 40 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 -30.256 kcal (2) G-P(sol) polarization free energy of solvation -75.037 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -105.293 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.521 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.558 kcal (6) G-S(sol) free energy of system = (1) + (5) -105.814 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.48 seconds