Wall clock time and date at job start Tue Mar 31 2020 05:37:29 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 1.31521 * 1 3 3 Si 1.86798 * 120.00036 * 2 1 4 4 H 1.48500 * 109.47215 * 270.00030 * 3 2 1 5 5 H 1.48505 * 109.47003 * 29.99965 * 3 2 1 6 6 H 1.48499 * 109.47325 * 149.99486 * 3 2 1 7 7 C 1.37867 * 119.99685 * 179.97438 * 2 1 3 8 8 H 1.07997 * 120.00638 * 0.02562 * 7 2 1 9 9 C 1.50705 * 119.99932 * 179.97438 * 7 2 1 10 10 C 1.53002 * 109.47153 * 180.02562 * 9 7 2 11 11 C 1.50700 * 109.46754 * 180.02562 * 10 9 7 12 12 O 1.20822 * 120.00494 * 0.02562 * 11 10 9 13 13 O 1.34236 * 119.99902 * 179.97438 * 11 10 9 14 14 C 1.45196 * 116.99990 * 179.97438 * 13 11 10 15 15 C 1.50700 * 109.46859 * 180.02562 * 14 13 11 16 16 C 1.33858 * 122.44352 * 269.97538 * 15 14 13 17 17 S 1.70620 * 110.95987 * 180.02562 * 16 15 14 18 18 C 1.75827 * 91.56631 * 0.02562 * 17 16 15 19 19 C 1.46390 * 125.46582 * 179.97438 * 18 17 16 20 20 O 1.21634 * 120.00320 * 180.02562 * 19 18 17 21 21 O 1.34902 * 119.99825 * 0.04151 * 19 18 17 22 22 C 1.36755 * 109.07624 * 0.02562 * 18 17 16 23 23 H 0.97006 * 119.99559 * 0.02562 * 1 2 3 24 24 H 1.09000 * 109.46634 * 60.00436 * 9 7 2 25 25 H 1.09003 * 109.47309 * 300.00659 * 9 7 2 26 26 H 1.09000 * 109.47323 * 60.00456 * 10 9 7 27 27 H 1.08998 * 109.47285 * 299.99825 * 10 9 7 28 28 H 1.08994 * 109.47143 * 60.00281 * 14 13 11 29 29 H 1.09008 * 109.47273 * 300.00217 * 14 13 11 30 30 H 1.07999 * 124.52105 * 0.02562 * 16 15 14 31 31 H 0.96705 * 116.99990 * 180.02562 * 21 19 18 32 32 H 1.07995 * 123.35949 * 179.73286 * 22 18 17 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 2.2492 1.6177 0.0000 4 1 2.4967 2.0464 -1.4001 5 1 1.4466 2.6527 0.7001 6 1 3.5467 1.4402 0.7001 7 6 2.0045 -1.1940 0.0005 8 1 1.4646 -2.1293 0.0005 9 6 3.5115 -1.1941 0.0000 10 6 4.0215 -2.6366 0.0001 11 6 5.5285 -2.6366 0.0001 12 8 6.1327 -1.5903 0.0005 13 8 6.1997 -3.7991 0.0008 14 6 7.6496 -3.7231 0.0002 15 6 8.2256 -5.1157 0.0004 16 6 8.5009 -5.7787 1.1301 17 16 9.1404 -7.3237 0.7907 18 6 9.0243 -7.0443 -0.9414 19 6 9.4179 -7.9943 -1.9833 20 8 9.2947 -7.6963 -3.1561 21 8 9.9169 -9.2005 -1.6426 22 6 8.5084 -5.7966 -1.1592 23 1 -0.4850 0.8401 -0.0004 24 1 3.8751 -0.6797 0.8895 25 1 3.8746 -0.6807 -0.8905 26 1 3.6579 -3.1506 -0.8897 27 1 3.6585 -3.1502 0.8903 28 1 7.9859 -3.1903 0.8896 29 1 7.9853 -3.1915 -0.8903 30 1 8.3398 -5.3879 2.1240 31 1 10.1631 -9.7938 -2.3655 32 1 8.3430 -5.3861 -2.1443 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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93 & DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV ZINC001608180613.mol2 32 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 05:37:29 Heat of formation + Delta-G solvation = -152.278155 kcal Electronic energy + Delta-G solvation = -18612.015382 eV Core-core repulsion = 15243.394254 eV Total energy + Delta-G solvation = -3368.621128 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 284.060 amu Computer time = 0.30 seconds Orbital eigenvalues (eV) -40.53774 -40.17067 -38.52194 -36.46798 -36.05173 -33.64088 -31.55582 -31.08617 -28.04111 -26.28417 -25.58096 -22.17767 -21.50531 -19.85331 -19.62823 -18.97999 -17.89733 -17.58363 -16.81163 -16.60700 -16.06836 -15.94174 -15.60902 -14.68547 -14.14186 -13.97250 -13.59553 -13.55126 -13.20130 -12.90974 -12.66142 -12.37182 -12.17797 -11.98822 -11.51418 -11.37852 -11.09522 -11.03924 -10.55766 -10.34680 -10.18636 -9.99339 -9.75874 -9.39556 -9.27350 -8.95360 -8.56845 -6.08314 -4.08358 -0.07337 0.98828 1.39604 1.61897 2.42909 2.55149 2.64412 3.24718 3.33498 3.40516 3.49112 4.45090 4.48622 4.56117 4.78975 4.82191 5.08356 5.19285 5.26383 5.39089 5.49710 5.74451 5.88619 5.97584 5.99970 6.00162 6.44530 6.73483 7.21925 7.29130 7.41803 7.69307 8.15844 8.45641 8.94030 9.53358 11.04266 Molecular weight = 284.06amu Principal moments of inertia in cm(-1) A = 0.035442 B = 0.002766 C = 0.002718 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 789.838228 B =10118.800297 C =10299.433880 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.900 5.900 2 C 0.070 3.930 3 Si 0.878 3.122 4 H -0.276 1.276 5 H -0.287 1.287 6 H -0.262 1.262 7 C -0.527 4.527 8 H 0.075 0.925 9 C -0.002 4.002 10 C -0.095 4.095 11 C 0.458 3.542 12 O -0.511 6.511 13 O -0.359 6.359 14 C 0.124 3.876 15 C -0.126 4.126 16 C -0.202 4.202 17 S 0.265 5.735 18 C -0.276 4.276 19 C 0.561 3.439 20 O -0.504 6.504 21 O -0.514 6.514 22 C -0.017 4.017 23 H 0.264 0.736 24 H 0.026 0.974 25 H 0.021 0.979 26 H 0.099 0.901 27 H 0.099 0.901 28 H 0.080 0.920 29 H 0.081 0.919 30 H 0.178 0.822 31 H 0.419 0.581 32 H 0.160 0.840 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 22.144 -17.898 1.532 28.514 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 -0.539 5.539 2 C -0.131 4.131 3 Si 0.705 3.295 4 H -0.201 1.201 5 H -0.213 1.213 6 H -0.186 1.186 7 C -0.565 4.565 8 H 0.094 0.906 9 C -0.040 4.040 10 C -0.133 4.133 11 C 0.302 3.698 12 O -0.398 6.398 13 O -0.277 6.277 14 C 0.048 3.952 15 C -0.139 4.139 16 C -0.340 4.340 17 S 0.534 5.466 18 C -0.394 4.394 19 C 0.404 3.596 20 O -0.394 6.394 21 O -0.327 6.327 22 C -0.051 4.051 23 H 0.074 0.926 24 H 0.044 0.956 25 H 0.040 0.960 26 H 0.117 0.883 27 H 0.117 0.883 28 H 0.099 0.901 29 H 0.099 0.901 30 H 0.195 0.805 31 H 0.278 0.722 32 H 0.177 0.823 Dipole moment (debyes) X Y Z Total from point charges 22.577 -18.369 2.468 29.210 hybrid contribution 0.084 1.855 -1.331 2.284 sum 22.661 -16.515 1.137 28.063 Atomic orbital electron populations 1.69910 1.06277 1.27079 1.50599 1.24959 0.94732 0.99216 0.94227 0.86797 0.80549 0.83398 0.78801 1.20147 1.21326 1.18603 1.21027 0.88833 0.94807 1.51847 0.90646 1.19488 0.96929 0.89610 0.97938 1.21558 0.83274 1.03536 1.04919 1.24780 0.92722 0.80855 0.71397 1.90625 1.70612 1.33079 1.45455 1.86636 1.20105 1.36256 1.84700 1.21355 0.78437 0.91804 1.03651 1.18390 1.05328 0.98379 0.91801 1.25582 1.04179 1.00289 1.03951 1.83217 1.56054 1.10761 0.96529 1.23356 1.19114 0.99557 0.97410 1.19247 0.73632 0.79959 0.86775 1.90977 1.51624 1.77331 1.19444 1.84575 1.76065 1.27082 1.44934 1.20698 0.92975 0.90926 1.00468 0.92589 0.95594 0.96022 0.88252 0.88278 0.90130 0.90057 0.80480 0.72203 0.82283 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 12. 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 -0.90 -27.54 13.96 55.43 0.77 -26.77 16 2 C 0.07 2.05 5.47 -17.82 -0.10 1.95 16 3 Si 0.88 22.06 27.47 -169.99 -4.67 17.39 16 4 H -0.28 -6.83 7.11 56.52 0.40 -6.43 16 5 H -0.29 -7.09 7.11 56.52 0.40 -6.69 16 6 H -0.26 -6.49 6.54 56.52 0.37 -6.12 16 7 C -0.53 -14.80 9.66 -34.44 -0.33 -15.13 16 8 H 0.08 2.22 7.99 -52.49 -0.42 1.80 16 9 C 0.00 -0.05 3.33 -27.88 -0.09 -0.14 16 10 C -0.10 -1.83 5.75 -27.88 -0.16 -1.99 16 11 C 0.46 8.30 7.96 36.01 0.29 8.59 16 12 O -0.51 -10.56 15.73 -18.75 -0.29 -10.85 16 13 O -0.36 -5.46 10.20 -39.27 -0.40 -5.86 16 14 C 0.12 1.49 5.71 36.01 0.21 1.70 16 15 C -0.13 -1.29 5.42 -106.46 -0.58 -1.87 16 16 C -0.20 -1.65 10.67 29.19 0.31 -1.34 16 17 S 0.26 1.92 22.92 -107.50 -2.46 -0.55 16 18 C -0.28 -2.67 6.45 -36.84 -0.24 -2.91 16 19 C 0.56 5.53 8.30 34.01 0.28 5.81 16 20 O -0.50 -6.47 17.63 -19.37 -0.34 -6.81 16 21 O -0.51 -3.34 13.29 -41.04 -0.55 -3.89 16 22 C -0.02 -0.18 9.79 -40.42 -0.40 -0.57 16 23 H 0.26 7.57 8.31 -40.82 -0.34 7.23 16 24 H 0.03 0.64 7.15 -51.93 -0.37 0.27 16 25 H 0.02 0.53 7.53 -51.93 -0.39 0.14 16 26 H 0.10 1.79 8.14 -51.93 -0.42 1.36 16 27 H 0.10 1.76 8.14 -51.93 -0.42 1.34 16 28 H 0.08 0.91 8.11 -51.93 -0.42 0.48 16 29 H 0.08 0.96 8.12 -51.92 -0.42 0.53 16 30 H 0.18 1.10 8.06 -52.49 -0.42 0.68 16 31 H 0.42 0.81 9.11 45.56 0.42 1.22 16 32 H 0.16 1.62 8.06 -52.49 -0.42 1.19 16 LS Contribution 309.20 15.07 4.66 4.66 Total: -1.00 -35.02 309.20 -6.56 -41.57 By element: Atomic # 1 Polarization: -0.52 SS G_CDS: -2.47 Total: -2.98 kcal Atomic # 6 Polarization: -5.10 SS G_CDS: -0.81 Total: -5.91 kcal Atomic # 7 Polarization: -27.54 SS G_CDS: 0.77 Total: -26.77 kcal Atomic # 8 Polarization: -25.83 SS G_CDS: -1.58 Total: -27.41 kcal Atomic # 14 Polarization: 22.06 SS G_CDS: -4.67 Total: 17.39 kcal Atomic # 16 Polarization: 1.92 SS G_CDS: -2.46 Total: -0.55 kcal Total LS contribution 4.66 Total: 4.66 kcal Total: -35.02 -6.56 -41.57 kcal The number of atoms in the molecule is 32 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. ZINC001608180613.mol2 32 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 -110.704 kcal (2) G-P(sol) polarization free energy of solvation -35.016 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -145.720 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -6.558 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -41.574 kcal (6) G-S(sol) free energy of system = (1) + (5) -152.278 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.30 seconds