Wall clock time and date at job start Tue Mar 31 2020 14:38:39 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 * DEV - DEVELOPER OPTIONS ARE ALLOWED * SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED * - CHARGE MODEL 2 WILL BE USED (CM2A) * - THE SOLVENT IS USER-SPECIFIED * DIELEC - THE SOLVENT DIELECTRIC CONSTANT IS 2.06 * IOFR - THE SOLVENT INDEX OF REFRACTION IS 1.4345 * ALPHA - THE SOLVENT ALPHA IS 0.00 * BETA - THE SOLVENT BETA IS 0.00 * GAMMA - THE SOLVENT MACROSCOPIC SURFACE TENSION IS * 38.93 CAL MOL^-1 ANGSTROM^-2 * FACARB - THE FRACTION OF AROMATIC CARBONS IS 0.00 * FEHALO - THE FRACTION OF ELECTRONEGATIVE HALOGENS IS 0.00 ******************************************************************************* 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 1.31625 * 1 3 3 Si 1.86799 * 120.00063 * 2 1 4 4 H 1.48501 * 109.47446 * 270.00556 * 3 2 1 5 5 H 1.48500 * 109.46848 * 30.00443 * 3 2 1 6 6 H 1.48500 * 109.47087 * 150.00456 * 3 2 1 7 7 C 1.38795 * 120.00187 * 180.02562 * 2 1 3 8 8 H 1.08008 * 120.00150 * 359.97438 * 7 2 1 9 9 S 1.76201 * 120.00203 * 179.97438 * 7 2 1 10 10 C 1.81004 * 100.00200 * 179.97438 * 9 7 2 11 11 C 1.50694 * 109.47273 * 180.02562 * 10 9 7 12 12 O 1.21277 * 120.00030 * 359.97438 * 11 10 9 13 13 N 1.34776 * 120.00230 * 179.97438 * 11 10 9 14 14 C 1.46494 * 120.00208 * 179.97438 * 13 11 10 15 15 C 1.50698 * 109.47316 * 180.02562 * 14 13 11 16 16 C 1.38293 * 119.97363 * 269.98007 * 15 14 13 17 17 C 1.38247 * 120.11281 * 180.02562 * 16 15 14 18 18 C 1.38170 * 120.05292 * 359.67902 * 17 16 15 19 19 C 1.38712 * 119.94573 * 0.61946 * 18 17 16 20 20 O 1.35897 * 120.05594 * 179.67820 * 19 18 17 21 21 C 1.42899 * 116.99793 * 359.72146 * 20 19 18 22 22 C 1.50702 * 109.46876 * 179.97438 * 21 20 19 23 23 N 1.34777 * 119.99928 * 179.72354 * 22 21 20 24 24 O 1.21283 * 120.00262 * 0.02562 * 22 21 20 25 25 C 1.38123 * 119.97376 * 89.99732 * 15 14 13 26 26 H 0.96996 * 120.00254 * 359.97438 * 1 2 3 27 27 H 1.08998 * 109.47274 * 59.99906 * 10 9 7 28 28 H 1.09004 * 109.46861 * 300.00122 * 10 9 7 29 29 H 0.97006 * 119.99548 * 0.02562 * 13 11 10 30 30 H 1.08998 * 109.47096 * 59.99957 * 14 13 11 31 31 H 1.09004 * 109.47251 * 300.00044 * 14 13 11 32 32 H 1.08001 * 119.94264 * 359.97438 * 16 15 14 33 33 H 1.07998 * 119.97015 * 179.97438 * 17 16 15 34 34 H 1.08001 * 120.02378 * 180.29425 * 18 17 16 35 35 H 1.09004 * 109.47206 * 60.00256 * 21 20 19 36 36 H 1.08994 * 109.47548 * 299.99913 * 21 20 19 37 37 H 0.96999 * 120.00047 * 180.27521 * 23 22 21 38 38 H 0.97000 * 120.00317 * 0.28382 * 23 22 21 39 39 H 1.08003 * 120.02893 * 0.02760 * 25 15 14 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 1.3162 0.0000 0.0000 3 14 2.2503 1.6177 0.0000 4 1 2.4977 2.0465 -1.4001 5 1 1.4477 2.6526 0.7001 6 1 3.5479 1.4401 0.6999 7 6 2.0103 -1.2020 -0.0005 8 1 1.4703 -2.1374 -0.0005 9 16 3.7723 -1.2020 -0.0012 10 6 4.0866 -2.9845 -0.0009 11 6 5.5730 -3.2325 -0.0008 12 8 6.3440 -2.2963 -0.0014 13 7 6.0457 -4.4946 -0.0001 14 6 7.4907 -4.7357 -0.0006 15 6 7.7524 -6.2197 -0.0002 16 6 7.8733 -6.8997 1.1979 17 6 8.1140 -8.2611 1.2016 18 6 8.2277 -8.9469 0.0075 19 6 8.1131 -8.2661 -1.1956 20 8 8.2311 -8.9373 -2.3713 21 6 8.4792 -10.3425 -2.2941 22 6 8.5786 -10.9122 -3.6857 23 7 8.8162 -12.2274 -3.8600 24 8 8.4502 -10.1864 -4.6488 25 6 7.8718 -6.8997 -1.1965 26 1 -0.4850 0.8400 0.0004 27 1 3.6434 -3.4318 -0.8906 28 1 3.6440 -3.4313 0.8893 29 1 5.4290 -5.2434 0.0000 30 1 7.9340 -4.2880 0.8889 31 1 7.9333 -4.2893 -0.8911 32 1 7.7803 -6.3662 2.1323 33 1 8.2083 -8.7897 2.1386 34 1 8.4110 -10.0112 0.0110 35 1 7.6611 -10.8271 -1.7611 36 1 9.4139 -10.5178 -1.7617 37 1 8.8842 -12.5934 -4.7557 38 1 8.9192 -12.8080 -3.0898 39 1 7.7781 -6.3681 -2.1320 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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93 & DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV ZINC001116144100.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 14:38:39 Heat of formation + Delta-G solvation = -87.206227 kcal Electronic energy + Delta-G solvation = -22995.236509 eV Core-core repulsion = 19222.428484 eV Total energy + Delta-G solvation = -3772.808025 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 324.098 amu Computer time = 0.53 seconds Orbital eigenvalues (eV) -40.89897 -39.82183 -39.15546 -37.80010 -34.69925 -34.34844 -32.41504 -31.79486 -30.96327 -29.31457 -28.65351 -25.97692 -25.50241 -22.95575 -22.27164 -20.95352 -20.47944 -18.69031 -18.26144 -17.79363 -16.96569 -16.90380 -16.40847 -16.33748 -16.19527 -15.84698 -15.18796 -14.93413 -14.78354 -14.48185 -14.32953 -13.83683 -13.60592 -13.28898 -13.09516 -12.92327 -12.79014 -12.73888 -11.97321 -11.80650 -11.59802 -11.30866 -11.23461 -10.98308 -10.58643 -10.53814 -10.35918 -9.85519 -9.67735 -9.19984 -9.00736 -8.95139 -8.61956 -8.47265 -6.88967 -6.26372 -3.97941 0.81356 1.05325 1.96017 2.13242 2.79636 2.99727 3.21214 3.25791 3.35729 3.49911 3.53228 3.80811 4.08660 4.28001 4.34631 4.35795 4.39025 4.45900 4.65020 4.77775 4.90919 4.94552 5.11286 5.12735 5.29690 5.42052 5.63211 5.71406 5.80251 5.85316 6.01473 6.05109 6.09172 6.22443 6.31441 6.50376 6.59206 6.92910 7.59782 7.62672 7.96704 8.44355 8.50296 9.19842 10.82853 Molecular weight = 324.10amu Principal moments of inertia in cm(-1) A = 0.021060 B = 0.001972 C = 0.001885 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1329.236249 B =14195.366828 C =14853.030083 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.881 5.881 2 C 0.095 3.905 3 Si 0.857 3.143 4 H -0.267 1.267 5 H -0.274 1.274 6 H -0.235 1.235 7 C -0.521 4.521 8 H 0.088 0.912 9 S -0.142 6.142 10 C -0.124 4.124 11 C 0.531 3.469 12 O -0.519 6.519 13 N -0.733 5.733 14 C 0.161 3.839 15 C -0.062 4.062 16 C -0.135 4.135 17 C -0.081 4.081 18 C -0.206 4.206 19 C 0.124 3.876 20 O -0.289 6.289 21 C 0.040 3.960 22 C 0.518 3.482 23 N -0.851 5.851 24 O -0.514 6.514 25 C -0.126 4.126 26 H 0.270 0.730 27 H 0.098 0.902 28 H 0.098 0.902 29 H 0.401 0.599 30 H 0.079 0.921 31 H 0.078 0.922 32 H 0.129 0.871 33 H 0.128 0.872 34 H 0.127 0.873 35 H 0.095 0.905 36 H 0.094 0.906 37 H 0.409 0.591 38 H 0.403 0.597 39 H 0.136 0.864 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 20.065 -28.910 0.449 35.194 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 -0.517 5.517 2 C -0.113 4.113 3 Si 0.682 3.318 4 H -0.192 1.192 5 H -0.200 1.200 6 H -0.159 1.159 7 C -0.669 4.669 8 H 0.106 0.894 9 S 0.085 5.915 10 C -0.274 4.274 11 C 0.317 3.683 12 O -0.394 6.394 13 N -0.387 5.387 14 C 0.038 3.962 15 C -0.063 4.063 16 C -0.154 4.154 17 C -0.099 4.099 18 C -0.225 4.225 19 C 0.079 3.921 20 O -0.202 6.202 21 C -0.039 4.039 22 C 0.301 3.699 23 N -0.418 5.418 24 O -0.388 6.388 25 C -0.146 4.146 26 H 0.080 0.920 27 H 0.116 0.884 28 H 0.116 0.884 29 H 0.235 0.765 30 H 0.097 0.903 31 H 0.096 0.904 32 H 0.147 0.853 33 H 0.146 0.854 34 H 0.145 0.855 35 H 0.113 0.887 36 H 0.112 0.888 37 H 0.241 0.759 38 H 0.231 0.769 39 H 0.154 0.846 Dipole moment (debyes) X Y Z Total from point charges 21.058 -26.496 -0.265 33.846 hybrid contribution -0.985 -1.541 0.192 1.839 sum 20.073 -28.037 -0.073 34.482 Atomic orbital electron populations 1.69936 1.05914 1.27743 1.48128 1.24714 0.94456 0.98974 0.93198 0.86730 0.81887 0.83258 0.79945 1.19202 1.19970 1.15912 1.22324 0.88292 0.97544 1.58712 0.89376 1.84781 1.09255 1.00077 1.97429 1.23278 0.93910 1.04346 1.05890 1.20296 0.90617 0.82145 0.75198 1.90703 1.58741 1.42161 1.47776 1.46001 1.06838 1.08171 1.77712 1.20153 0.82392 0.90113 1.03545 1.19726 0.98801 0.95318 0.92454 1.21090 1.01996 0.94436 0.97842 1.20938 0.97340 0.94200 0.97438 1.21246 1.08702 1.00277 0.92236 1.18955 0.97047 0.91913 0.84169 1.86172 1.86688 1.19415 1.27907 1.22430 1.03363 0.82242 0.95873 1.20070 0.76469 0.82660 0.90669 1.43653 1.76426 1.08829 1.12908 1.90844 1.47354 1.58598 1.41995 1.20401 1.03915 0.91160 0.99080 0.91964 0.88422 0.88416 0.76476 0.90284 0.90394 0.85318 0.85412 0.85511 0.88731 0.88770 0.75868 0.76868 0.84576 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 13. 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 -0.88 -26.78 13.97 55.49 0.78 -26.00 16 2 C 0.10 2.81 5.50 -17.43 -0.10 2.71 16 3 Si 0.86 22.00 27.74 -169.99 -4.71 17.28 16 4 H -0.27 -6.79 7.11 56.52 0.40 -6.39 16 5 H -0.27 -6.77 7.11 56.52 0.40 -6.37 16 6 H -0.24 -6.02 6.74 56.52 0.38 -5.64 16 7 C -0.52 -15.16 10.04 30.94 0.31 -14.85 16 8 H 0.09 2.67 8.03 -52.48 -0.42 2.25 16 9 S -0.14 -3.63 18.55 -107.50 -1.99 -5.63 16 10 C -0.12 -2.42 6.16 36.00 0.22 -2.20 16 11 C 0.53 9.52 7.85 -10.99 -0.09 9.44 16 12 O -0.52 -11.27 15.86 5.56 0.09 -11.18 16 13 N -0.73 -9.55 5.55 -61.48 -0.34 -9.90 16 14 C 0.16 1.85 5.80 -5.20 -0.03 1.82 16 15 C -0.06 -0.60 5.25 -104.64 -0.55 -1.15 16 16 C -0.13 -1.11 9.70 -39.56 -0.38 -1.49 16 17 C -0.08 -0.55 10.04 -39.60 -0.40 -0.95 16 18 C -0.21 -1.41 9.04 -39.43 -0.36 -1.76 16 19 C 0.12 1.15 6.69 -39.21 -0.26 0.89 16 20 O -0.29 -2.88 9.67 -39.33 -0.38 -3.26 16 21 C 0.04 0.21 5.22 36.01 0.19 0.40 16 22 C 0.52 3.67 8.18 -10.98 -0.09 3.58 16 23 N -0.85 -1.96 8.87 31.22 0.28 -1.69 16 24 O -0.51 -6.65 17.34 -14.35 -0.25 -6.90 16 25 C -0.13 -1.28 9.64 -39.43 -0.38 -1.66 16 26 H 0.27 7.64 8.31 -40.82 -0.34 7.30 16 27 H 0.10 1.79 8.14 -51.92 -0.42 1.37 16 28 H 0.10 1.77 8.14 -51.91 -0.42 1.34 16 29 H 0.40 4.31 8.46 -40.82 -0.35 3.97 16 30 H 0.08 0.91 8.09 -51.93 -0.42 0.49 16 31 H 0.08 0.94 8.08 -51.93 -0.42 0.52 16 32 H 0.13 0.93 8.06 -52.49 -0.42 0.51 16 33 H 0.13 0.57 8.06 -52.49 -0.42 0.15 16 34 H 0.13 0.48 6.30 -52.49 -0.33 0.15 16 35 H 0.09 0.26 7.65 -51.93 -0.40 -0.14 16 36 H 0.09 0.24 7.67 -51.93 -0.40 -0.16 16 37 H 0.41 0.75 8.93 -40.82 -0.36 0.39 16 38 H 0.40 -0.53 8.83 -40.82 -0.36 -0.89 16 39 H 0.14 1.43 8.06 -52.48 -0.42 1.00 16 LS Contribution 358.40 15.07 5.40 5.40 Total: -1.00 -39.45 358.40 -7.78 -47.22 By element: Atomic # 1 Polarization: 4.59 SS G_CDS: -4.73 Total: -0.14 kcal Atomic # 6 Polarization: -3.31 SS G_CDS: -1.91 Total: -5.22 kcal Atomic # 7 Polarization: -38.30 SS G_CDS: 0.71 Total: -37.58 kcal Atomic # 8 Polarization: -20.80 SS G_CDS: -0.54 Total: -21.34 kcal Atomic # 14 Polarization: 22.00 SS G_CDS: -4.71 Total: 17.28 kcal Atomic # 16 Polarization: -3.63 SS G_CDS: -1.99 Total: -5.63 kcal Total LS contribution 5.40 Total: 5.40 kcal Total: -39.45 -7.78 -47.22 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. ZINC001116144100.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 -39.984 kcal (2) G-P(sol) polarization free energy of solvation -39.447 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -79.431 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -7.776 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -47.222 kcal (6) G-S(sol) free energy of system = (1) + (5) -87.206 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.53 seconds