Wall clock time and date at job start Tue Mar 31 2020 03:06:13 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 1.86807 * 119.99444 * 2 1 4 4 H 1.48494 * 109.47215 * 270.00073 * 3 2 1 5 5 H 1.48498 * 109.47161 * 30.00407 * 3 2 1 6 6 H 1.48506 * 109.46747 * 149.99939 * 3 2 1 7 7 C 1.37872 * 120.00459 * 180.02562 * 2 1 3 8 8 H 1.08002 * 120.00152 * 179.97438 * 7 2 1 9 9 S 1.76198 * 119.99971 * 359.97438 * 7 2 1 10 10 O 1.42100 * 106.40203 * 66.46418 * 9 7 2 11 11 O 1.42092 * 106.40312 * 293.53918 * 9 7 2 12 12 N 1.65603 * 107.21650 * 179.97438 * 9 7 2 13 13 C 1.47159 * 120.98027 * 94.62955 * 12 9 7 14 14 C 1.53300 * 108.38257 * 230.51339 * 13 12 9 15 15 O 1.42959 * 109.21924 * 307.69502 * 14 13 12 16 16 C 1.42963 * 114.16976 * 62.58624 * 15 14 13 17 17 C 1.47150 * 120.98585 * 274.60311 * 12 9 7 18 18 H 1.08993 * 109.68307 * 249.21081 * 17 12 9 19 19 C 1.50704 * 109.70971 * 9.74710 * 17 12 9 20 20 C 1.38227 * 119.99805 * 245.72581 * 19 17 12 21 21 C 1.38244 * 120.00158 * 179.74627 * 20 19 17 22 22 C 1.38237 * 119.99414 * 0.52995 * 21 20 19 23 23 C 1.38232 * 120.00084 * 359.74523 * 22 21 20 24 24 C 1.38236 * 120.00336 * 359.97438 * 23 22 21 25 25 H 0.96994 * 120.00414 * 0.02562 * 1 2 3 26 26 H 1.08992 * 109.68120 * 110.78412 * 13 12 9 27 27 H 1.09005 * 109.67907 * 350.23126 * 13 12 9 28 28 H 1.09004 * 109.51005 * 187.77199 * 14 13 12 29 29 H 1.09002 * 109.51294 * 67.62137 * 14 13 12 30 30 H 1.08995 * 109.51201 * 57.33378 * 16 15 14 31 31 H 1.09001 * 109.51327 * 177.49256 * 16 15 14 32 32 H 1.08002 * 120.00345 * 359.97438 * 20 19 17 33 33 H 1.08000 * 120.00369 * 180.29764 * 21 20 19 34 34 H 1.07994 * 120.00106 * 179.77139 * 22 21 20 35 35 H 1.08001 * 120.00326 * 180.02562 * 23 22 21 36 36 H 1.07999 * 120.00631 * 179.97438 * 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 1.3152 0.0000 0.0000 3 14 2.2490 1.6179 0.0000 4 1 2.4965 2.0466 -1.4000 5 1 1.4464 2.6527 0.7001 6 1 3.5466 1.4404 0.7001 7 6 2.0046 -1.1940 -0.0005 8 1 3.0846 -1.1939 -0.0010 9 16 1.1237 -2.7199 -0.0005 10 8 0.4512 -2.7950 -1.2501 11 8 0.4521 -2.7956 1.2494 12 7 2.2487 -3.9353 -0.0019 13 6 2.6894 -4.5609 1.2550 14 6 4.2222 -4.5620 1.2829 15 8 4.7144 -5.1479 0.0754 16 6 4.3621 -4.4298 -1.1096 17 6 2.8366 -4.4219 -1.2601 18 1 2.4826 -5.4323 -1.4640 19 6 2.4429 -3.5081 -2.3919 20 6 1.6285 -3.9755 -3.4062 21 6 1.2630 -3.1358 -4.4418 22 6 1.7211 -1.8318 -4.4686 23 6 2.5403 -1.3660 -3.4572 24 6 2.9009 -2.2040 -2.4187 25 1 -0.4850 0.8400 -0.0004 26 1 2.3205 -5.5853 1.3042 27 1 2.3073 -3.9914 2.1022 28 1 4.5703 -5.1423 2.1374 29 1 4.5856 -3.5377 1.3652 30 1 4.7260 -3.4050 -1.0360 31 1 4.8110 -4.9150 -1.9763 32 1 1.2745 -4.9957 -3.3878 33 1 0.6227 -3.4996 -5.2318 34 1 1.4387 -1.1768 -5.2795 35 1 2.8979 -0.3472 -3.4779 36 1 3.5413 -1.8403 -1.6287 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) 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 ZINC001192950981.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 03:06:13 Heat of formation + Delta-G solvation = -112.498399 kcal Electronic energy + Delta-G solvation = -23788.403794 eV Core-core repulsion = 20363.688689 eV Total energy + Delta-G solvation = -3424.715105 eV No. of doubly occupied orbitals = 52 Molecular weight (most abundant/longest-lived isotopes) = 297.087 amu Computer time = 0.52 seconds Orbital eigenvalues (eV) -40.86443 -39.33463 -37.27748 -36.01413 -35.82387 -35.09026 -33.45046 -31.62293 -30.19552 -28.23721 -27.69495 -25.32408 -23.59558 -22.58073 -21.87979 -20.45706 -19.21408 -18.44228 -17.51285 -17.22104 -17.00618 -16.68668 -16.38638 -15.99484 -15.82900 -15.55544 -15.34179 -15.08625 -14.57791 -14.13254 -13.93025 -13.64931 -13.45515 -13.16359 -13.02386 -12.91174 -12.61084 -12.38455 -12.34322 -12.29589 -12.18351 -11.90233 -11.66922 -11.34795 -11.23752 -11.17608 -10.74296 -9.70034 -9.48288 -9.26297 -8.68062 -7.32967 0.29867 0.67438 0.81538 1.32521 1.33727 1.46934 2.20597 2.65316 2.74782 2.89892 3.19653 3.69785 3.84353 3.89288 4.06078 4.09519 4.23488 4.29166 4.33151 4.38564 4.47766 4.56856 4.71235 4.74712 4.75240 4.81501 4.93404 5.04880 5.17031 5.29825 5.34373 5.41794 5.74574 5.82714 5.84591 5.93704 5.95309 6.15606 6.39629 6.85308 8.26797 Molecular weight = 297.09amu Principal moments of inertia in cm(-1) A = 0.013291 B = 0.010099 C = 0.007645 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2106.144991 B = 2771.970952 C = 3661.757368 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.893 5.893 2 C 0.086 3.914 3 Si 0.970 3.030 4 H -0.251 1.251 5 H -0.272 1.272 6 H -0.248 1.248 7 C -1.013 5.013 8 H 0.116 0.884 9 S 2.711 3.289 10 O -1.005 7.005 11 O -1.056 7.056 12 N -1.012 6.012 13 C 0.080 3.920 14 C 0.051 3.949 15 O -0.383 6.383 16 C 0.060 3.940 17 C 0.169 3.831 18 H 0.091 0.909 19 C -0.114 4.114 20 C -0.083 4.083 21 C -0.134 4.134 22 C -0.122 4.122 23 C -0.133 4.133 24 C -0.095 4.095 25 H 0.294 0.706 26 H 0.082 0.918 27 H 0.085 0.915 28 H 0.136 0.864 29 H 0.055 0.945 30 H 0.058 0.942 31 H 0.128 0.872 32 H 0.128 0.872 33 H 0.138 0.862 34 H 0.134 0.866 35 H 0.119 0.881 36 H 0.124 0.876 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 10.014 -5.873 -4.718 12.532 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 -0.525 5.525 2 C -0.127 4.127 3 Si 0.789 3.211 4 H -0.175 1.175 5 H -0.196 1.196 6 H -0.172 1.172 7 C -1.147 5.147 8 H 0.134 0.866 9 S 2.815 3.185 10 O -0.995 6.995 11 O -1.047 7.047 12 N -0.851 5.851 13 C -0.046 4.046 14 C -0.027 4.027 15 O -0.301 6.301 16 C -0.018 4.018 17 C 0.063 3.937 18 H 0.109 0.891 19 C -0.116 4.116 20 C -0.102 4.102 21 C -0.152 4.152 22 C -0.140 4.140 23 C -0.151 4.151 24 C -0.113 4.113 25 H 0.104 0.896 26 H 0.101 0.899 27 H 0.103 0.897 28 H 0.153 0.847 29 H 0.074 0.926 30 H 0.076 0.924 31 H 0.146 0.854 32 H 0.146 0.854 33 H 0.156 0.844 34 H 0.152 0.848 35 H 0.137 0.863 36 H 0.142 0.858 Dipole moment (debyes) X Y Z Total from point charges 8.986 -6.146 -4.681 11.851 hybrid contribution -0.066 1.617 0.350 1.656 sum 8.920 -4.529 -4.331 10.901 Atomic orbital electron populations 1.69994 1.08686 1.31730 1.42053 1.25677 0.94951 1.04316 0.87788 0.85410 0.79388 0.76057 0.80206 1.17499 1.19622 1.17158 1.30822 1.06321 1.11972 1.65542 0.86587 1.00333 0.72781 0.73852 0.71553 1.93409 1.73883 1.87611 1.44599 1.93272 1.74708 1.88540 1.48163 1.58158 1.61419 1.53871 1.11625 1.22199 0.97184 0.99471 0.85704 1.23084 0.91475 0.99807 0.88313 1.87883 1.75265 1.52430 1.14559 1.23101 0.91896 0.97886 0.88946 1.20478 0.95390 0.96941 0.80851 0.89123 1.19676 1.00342 0.94874 0.96671 1.20961 0.95260 1.00154 0.93823 1.21216 1.00409 0.94223 0.99350 1.21322 0.97471 0.96276 0.98980 1.21101 0.99583 0.99269 0.95159 1.21231 0.99755 0.92885 0.97470 0.89636 0.89928 0.89684 0.84657 0.92619 0.92384 0.85399 0.85407 0.84402 0.84798 0.86278 0.85805 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 21. 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 -0.89 -52.20 13.19 21.45 0.28 -51.92 16 2 C 0.09 4.57 5.46 84.65 0.46 5.04 16 3 Si 0.97 39.98 29.54 68.60 2.03 42.00 16 4 H -0.25 -9.66 7.11 99.48 0.71 -8.95 16 5 H -0.27 -10.90 7.11 99.48 0.71 -10.19 16 6 H -0.25 -9.55 7.11 99.48 0.71 -8.84 16 7 C -1.01 -52.59 7.07 67.73 0.48 -52.11 16 8 H 0.12 5.43 6.44 -2.91 -0.02 5.41 16 9 S 2.71 143.04 4.34 -56.49 -0.25 142.80 16 10 O -1.01 -56.48 13.70 -128.00 -1.75 -58.24 16 11 O -1.06 -63.72 16.68 -128.00 -2.14 -65.85 16 12 N -1.01 -40.71 3.33 -493.22 -1.64 -42.35 16 13 C 0.08 2.66 6.59 86.35 0.57 3.23 16 14 C 0.05 1.36 6.99 72.08 0.50 1.86 16 15 O -0.38 -10.66 10.74 -148.98 -1.60 -12.26 16 16 C 0.06 1.66 6.15 72.08 0.44 2.11 16 17 C 0.17 5.76 3.28 44.22 0.14 5.90 16 18 H 0.09 2.81 7.90 -2.39 -0.02 2.79 16 19 C -0.11 -4.27 2.65 -19.87 -0.05 -4.33 16 20 C -0.08 -2.97 8.59 22.27 0.19 -2.77 16 21 C -0.13 -4.53 10.05 22.27 0.22 -4.30 16 22 C -0.12 -4.23 10.05 22.27 0.22 -4.01 16 23 C -0.13 -5.02 10.05 22.27 0.22 -4.80 16 24 C -0.09 -3.70 5.86 22.27 0.13 -3.57 16 25 H 0.29 15.68 8.31 -92.71 -0.77 14.91 16 26 H 0.08 2.44 8.14 -2.39 -0.02 2.42 16 27 H 0.08 3.07 7.12 -2.38 -0.02 3.06 16 28 H 0.14 2.59 8.14 -2.39 -0.02 2.57 16 29 H 0.06 1.51 8.14 -2.39 -0.02 1.49 16 30 H 0.06 1.65 6.78 -2.39 -0.02 1.64 16 31 H 0.13 2.82 8.14 -2.39 -0.02 2.80 16 32 H 0.13 3.92 7.96 -2.91 -0.02 3.90 16 33 H 0.14 3.75 8.06 -2.91 -0.02 3.73 16 34 H 0.13 3.80 8.06 -2.91 -0.02 3.78 16 35 H 0.12 4.12 8.06 -2.91 -0.02 4.10 16 36 H 0.12 4.78 4.91 -2.91 -0.01 4.77 16 Total: -1.00 -73.76 301.79 -0.43 -74.19 By element: Atomic # 1 Polarization: 28.28 SS G_CDS: 1.09 Total: 29.38 kcal Atomic # 6 Polarization: -61.29 SS G_CDS: 3.54 Total: -57.75 kcal Atomic # 7 Polarization: -92.91 SS G_CDS: -1.36 Total: -94.27 kcal Atomic # 8 Polarization: -130.86 SS G_CDS: -5.49 Total: -136.35 kcal Atomic # 14 Polarization: 39.98 SS G_CDS: 2.03 Total: 42.00 kcal Atomic # 16 Polarization: 143.04 SS G_CDS: -0.25 Total: 142.80 kcal Total: -73.76 -0.43 -74.19 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. ZINC001192950981.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 -38.313 kcal (2) G-P(sol) polarization free energy of solvation -73.755 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -112.068 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.430 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -74.185 kcal (6) G-S(sol) free energy of system = (1) + (5) -112.498 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.52 seconds