Wall clock time and date at job start Tue Mar 31 2020 11:57:18 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 1.31412 * 1 3 3 Si 1.86801 * 119.99620 * 2 1 4 4 H 1.48506 * 109.47264 * 240.00138 * 3 2 1 5 5 H 1.48500 * 109.47245 * 359.97438 * 3 2 1 6 6 H 1.48495 * 109.47140 * 120.00147 * 3 2 1 7 7 C 1.38945 * 120.00459 * 180.02562 * 2 1 3 8 8 H 1.07998 * 120.00389 * 178.82721 * 7 2 1 9 9 N 1.37102 * 120.00054 * 358.83002 * 7 2 1 10 10 C 1.46505 * 119.99581 * 347.08964 * 9 7 2 11 11 C 1.50699 * 109.47315 * 84.24507 * 10 9 7 12 12 O 1.20829 * 119.99938 * 5.29482 * 11 10 9 13 13 O 1.34223 * 120.00031 * 185.29097 * 11 10 9 14 14 C 1.34770 * 120.00339 * 167.08771 * 9 7 2 15 15 O 1.21297 * 120.00094 * 5.11833 * 14 9 7 16 16 C 1.50701 * 120.00070 * 185.11513 * 14 9 7 17 17 H 1.08997 * 110.28704 * 26.89813 * 16 14 9 18 18 C 1.54260 * 110.32686 * 264.76470 * 16 14 9 19 19 C 1.54375 * 105.06274 * 241.10545 * 18 16 14 20 20 N 1.48559 * 104.59554 * 336.14791 * 19 18 16 21 21 C 1.39667 * 111.00034 * 159.04290 * 20 19 18 22 22 C 1.38915 * 120.07453 * 216.82691 * 21 20 19 23 23 C 1.38101 * 119.92615 * 179.76499 * 22 21 20 24 24 C 1.38286 * 120.07419 * 0.51228 * 23 22 21 25 25 C 1.38285 * 120.15194 * 359.74165 * 24 23 22 26 26 C 1.38109 * 120.07207 * 0.02562 * 25 24 23 27 27 C 1.48556 * 104.21981 * 39.48203 * 20 19 18 28 28 H 0.96997 * 120.00473 * 359.97438 * 1 2 3 29 29 H 1.09005 * 109.46659 * 204.24518 * 10 9 7 30 30 H 1.09001 * 109.47022 * 324.24232 * 10 9 7 31 31 H 0.96699 * 117.00369 * 179.97438 * 13 11 10 32 32 H 1.09007 * 110.32254 * 0.02562 * 18 16 14 33 33 H 1.09004 * 110.32369 * 122.20313 * 18 16 14 34 34 H 1.08997 * 110.40877 * 94.92915 * 19 18 16 35 35 H 1.09000 * 110.41147 * 217.36906 * 19 18 16 36 36 H 1.08005 * 120.03431 * 0.02562 * 22 21 20 37 37 H 1.08000 * 119.96515 * 180.25411 * 23 22 21 38 38 H 1.08000 * 119.92629 * 179.76752 * 24 23 22 39 39 H 1.07996 * 119.96791 * 179.97438 * 25 24 23 40 40 H 1.07995 * 120.03959 * 180.02562 * 26 25 24 41 41 H 1.09010 * 110.40888 * 201.73570 * 27 20 19 42 42 H 1.08997 * 110.51074 * 79.34995 * 27 20 19 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 1.3141 0.0000 0.0000 3 14 2.2480 1.6178 0.0000 4 1 3.1018 1.6966 -1.2126 5 1 1.2830 2.7465 -0.0006 6 1 3.1018 1.6965 1.2124 7 6 2.0089 -1.2032 -0.0005 8 1 3.0887 -1.2033 -0.0197 9 7 1.3238 -2.3905 0.0232 10 6 -0.1083 -2.4037 0.3322 11 6 -0.8954 -2.1220 -0.9217 12 8 -0.3264 -2.0249 -1.9832 13 8 -2.2285 -1.9792 -0.8593 14 6 1.9675 -3.5454 -0.2378 15 8 3.1693 -3.5462 -0.4020 16 6 1.1942 -4.8359 -0.3255 17 1 0.1654 -4.6402 -0.6276 18 6 1.2239 -5.5717 1.0300 19 6 1.9183 -6.9196 0.7397 20 7 1.7037 -7.1461 -0.7127 21 6 2.6407 -8.0476 -1.2225 22 6 3.1552 -7.8687 -2.5005 23 6 4.0852 -8.7593 -2.9997 24 6 4.4964 -9.8342 -2.2330 25 6 3.9825 -10.0182 -0.9625 26 6 3.0557 -9.1287 -0.4553 27 6 1.8731 -5.8013 -1.3207 28 1 -0.4851 0.8400 0.0004 29 1 -0.3864 -3.3822 0.7237 30 1 -0.3262 -1.6388 1.0775 31 1 -2.6901 -1.7991 -1.6897 32 1 1.7975 -4.9992 1.7590 33 1 0.2096 -5.7386 1.3925 34 1 2.9836 -6.8537 0.9609 35 1 1.4570 -7.7178 1.3212 36 1 2.8313 -7.0317 -3.1013 37 1 4.4886 -8.6185 -3.9915 38 1 5.2211 -10.5313 -2.6272 39 1 4.3054 -10.8589 -0.3665 40 1 2.6549 -9.2727 0.5372 41 1 1.3778 -5.7575 -2.2908 42 1 2.9309 -5.5592 -1.4237 RHF calculation, no. of doubly occupied orbitals= 59 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). 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 ZINC001608184546.mol2 42 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 11:57:18 Heat of formation + Delta-G solvation = -90.004935 kcal Electronic energy + Delta-G solvation = -27242.076029 eV Core-core repulsion = 23379.994396 eV Total energy + Delta-G solvation = -3862.081632 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 318.141 amu Computer time = 0.83 seconds Orbital eigenvalues (eV) -41.79598 -40.92259 -39.97870 -38.33537 -37.00760 -36.30971 -34.14171 -33.31341 -32.12366 -30.15721 -29.59596 -29.29621 -26.93821 -24.43862 -23.90602 -22.83662 -22.19077 -21.67397 -20.17869 -19.09484 -18.75561 -18.53219 -18.33120 -17.32853 -16.87564 -16.64956 -16.20886 -16.12347 -15.98311 -15.86030 -15.28926 -15.12554 -14.71104 -14.42487 -14.31055 -14.02784 -13.69973 -13.58936 -13.43905 -13.22565 -13.02235 -12.73193 -12.55092 -12.41854 -12.38524 -12.22053 -12.17544 -12.10336 -11.82118 -11.74135 -11.51513 -10.98504 -10.85558 -10.46226 -9.98632 -9.84663 -8.85953 -8.40191 -6.02979 0.45827 0.49359 1.32336 1.38373 1.48007 1.67705 1.94300 2.18609 2.53599 2.62454 2.91532 3.07358 3.19151 3.42750 3.59967 3.80406 4.02689 4.08651 4.13042 4.21904 4.30426 4.32161 4.38625 4.53049 4.58057 4.60021 4.67925 4.81932 4.85157 4.91179 4.93086 5.01196 5.04318 5.14709 5.25287 5.38043 5.50848 5.65497 5.83192 5.87206 5.94687 6.01717 6.30597 6.34626 7.04528 7.27941 7.49031 7.84633 8.58473 Molecular weight = 318.14amu Principal moments of inertia in cm(-1) A = 0.020145 B = 0.003553 C = 0.003344 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1389.589927 B = 7878.374277 C = 8370.282525 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.904 5.904 2 C -0.002 4.002 3 Si 0.996 3.004 4 H -0.286 1.286 5 H -0.269 1.269 6 H -0.263 1.263 7 C -0.324 4.324 8 H 0.080 0.920 9 N -0.444 5.444 10 C 0.146 3.854 11 C 0.507 3.493 12 O -0.570 6.570 13 O -0.516 6.516 14 C 0.459 3.541 15 O -0.620 6.620 16 C -0.102 4.102 17 H 0.094 0.906 18 C -0.107 4.107 19 C 0.043 3.957 20 N -0.462 5.462 21 C 0.085 3.915 22 C -0.181 4.181 23 C -0.103 4.103 24 C -0.154 4.154 25 C -0.097 4.097 26 C -0.160 4.160 27 C 0.059 3.941 28 H 0.276 0.724 29 H 0.111 0.889 30 H 0.134 0.866 31 H 0.410 0.590 32 H 0.069 0.931 33 H 0.114 0.886 34 H 0.046 0.954 35 H 0.121 0.879 36 H 0.111 0.889 37 H 0.137 0.863 38 H 0.146 0.854 39 H 0.152 0.848 40 H 0.141 0.859 41 H 0.081 0.919 42 H 0.049 0.951 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -1.785 -15.366 2.381 15.652 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 -0.547 5.547 2 C -0.200 4.200 3 Si 0.820 3.180 4 H -0.212 1.212 5 H -0.194 1.194 6 H -0.188 1.188 7 C -0.452 4.452 8 H 0.098 0.902 9 N -0.163 5.163 10 C 0.021 3.979 11 C 0.351 3.649 12 O -0.461 6.461 13 O -0.327 6.327 14 C 0.248 3.752 15 O -0.507 6.507 16 C -0.124 4.124 17 H 0.113 0.887 18 C -0.145 4.145 19 C -0.083 4.083 20 N -0.176 5.176 21 C -0.013 4.013 22 C -0.202 4.202 23 C -0.122 4.122 24 C -0.172 4.172 25 C -0.115 4.115 26 C -0.180 4.180 27 C -0.068 4.068 28 H 0.087 0.913 29 H 0.129 0.871 30 H 0.151 0.849 31 H 0.269 0.731 32 H 0.088 0.912 33 H 0.132 0.868 34 H 0.065 0.935 35 H 0.139 0.861 36 H 0.129 0.871 37 H 0.155 0.845 38 H 0.164 0.836 39 H 0.170 0.830 40 H 0.158 0.842 41 H 0.099 0.901 42 H 0.067 0.933 Dipole moment (debyes) X Y Z Total from point charges -1.582 -15.403 2.339 15.659 hybrid contribution 0.690 1.897 -1.065 2.282 sum -0.892 -13.505 1.274 13.595 Atomic orbital electron populations 1.69513 1.06237 1.28460 1.50489 1.25898 0.96684 1.02087 0.95342 0.84943 0.77761 0.76664 0.78660 1.21185 1.19370 1.18805 1.19719 0.92493 0.83497 1.49444 0.90159 1.43566 1.07086 1.05736 1.59879 1.21082 0.79335 1.03930 0.93590 1.23651 0.80154 0.70101 0.90989 1.90583 1.71371 1.50482 1.33700 1.84443 1.21513 1.83962 1.42821 1.20634 0.87962 0.85924 0.80634 1.90485 1.16740 1.87182 1.56278 1.21894 0.99687 0.92080 0.98780 0.88727 1.22360 1.03640 0.94431 0.94103 1.23289 0.99705 0.98292 0.87001 1.62413 1.42986 1.06573 1.05671 1.19426 0.91583 0.95392 0.94935 1.21210 1.00863 1.01832 0.96286 1.21277 0.96029 0.94298 1.00580 1.21412 1.01982 0.98733 0.95117 1.21379 0.95418 0.98834 0.95864 1.21175 1.00535 0.95548 1.00764 1.22934 0.99829 0.86423 0.97593 0.91285 0.87135 0.84898 0.73145 0.91191 0.86799 0.93549 0.86079 0.87101 0.84524 0.83605 0.83040 0.84166 0.90087 0.93291 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 -0.90 -45.27 7.99 21.66 0.17 -45.09 16 2 C 0.00 -0.09 5.36 84.92 0.45 0.37 16 3 Si 1.00 42.66 29.55 68.60 2.03 44.69 16 4 H -0.29 -12.77 7.11 99.48 0.71 -12.07 16 5 H -0.27 -10.85 7.11 99.48 0.71 -10.14 16 6 H -0.26 -10.82 7.11 99.48 0.71 -10.11 16 7 C -0.32 -18.11 9.44 84.04 0.79 -17.31 16 8 H 0.08 4.81 7.22 -2.91 -0.02 4.79 16 9 N -0.44 -22.38 2.14 -639.59 -1.37 -23.75 16 10 C 0.15 6.18 4.90 85.63 0.42 6.60 16 11 C 0.51 22.20 5.64 71.24 0.40 22.61 16 12 O -0.57 -29.86 17.07 21.96 0.37 -29.48 16 13 O -0.52 -17.88 13.42 -51.35 -0.69 -18.57 16 14 C 0.46 22.26 6.50 87.66 0.57 22.83 16 15 O -0.62 -34.94 15.36 -3.08 -0.05 -34.99 16 16 C -0.10 -3.74 2.50 -10.64 -0.03 -3.77 16 17 H 0.09 3.32 6.39 -2.39 -0.02 3.30 16 18 C -0.11 -3.00 6.33 31.49 0.20 -2.80 16 19 C 0.04 1.10 5.29 86.45 0.46 1.55 16 20 N -0.46 -13.79 5.49 -681.36 -3.74 -17.53 16 21 C 0.08 2.45 5.64 38.22 0.22 2.67 16 22 C -0.18 -5.31 8.85 22.40 0.20 -5.11 16 23 C -0.10 -2.47 10.04 22.25 0.22 -2.25 16 24 C -0.15 -3.08 10.04 22.29 0.22 -2.86 16 25 C -0.10 -1.89 10.04 22.25 0.22 -1.67 16 26 C -0.16 -3.73 9.03 22.40 0.20 -3.53 16 27 C 0.06 2.13 4.59 86.45 0.40 2.53 16 28 H 0.28 13.24 8.31 -92.71 -0.77 12.47 16 29 H 0.11 3.69 6.15 -2.38 -0.01 3.68 16 30 H 0.13 5.91 6.24 -2.39 -0.01 5.90 16 31 H 0.41 10.79 9.10 -74.06 -0.67 10.12 16 32 H 0.07 2.12 7.70 -2.38 -0.02 2.10 16 33 H 0.11 2.41 8.14 -2.39 -0.02 2.39 16 34 H 0.05 1.31 7.82 -2.39 -0.02 1.29 16 35 H 0.12 2.27 7.61 -2.39 -0.02 2.25 16 36 H 0.11 3.43 6.59 -2.91 -0.02 3.41 16 37 H 0.14 2.67 8.06 -2.91 -0.02 2.65 16 38 H 0.15 2.04 8.06 -2.91 -0.02 2.02 16 39 H 0.15 1.97 8.06 -2.91 -0.02 1.94 16 40 H 0.14 2.66 6.87 -2.91 -0.02 2.64 16 41 H 0.08 2.89 7.71 -2.38 -0.02 2.87 16 42 H 0.05 2.07 6.32 -2.39 -0.02 2.05 16 Total: -1.00 -73.40 342.88 2.08 -71.32 By element: Atomic # 1 Polarization: 33.14 SS G_CDS: 0.39 Total: 33.54 kcal Atomic # 6 Polarization: 14.91 SS G_CDS: 4.95 Total: 19.86 kcal Atomic # 7 Polarization: -81.44 SS G_CDS: -4.94 Total: -86.37 kcal Atomic # 8 Polarization: -82.67 SS G_CDS: -0.36 Total: -83.04 kcal Atomic # 14 Polarization: 42.66 SS G_CDS: 2.03 Total: 44.69 kcal Total: -73.40 2.08 -71.32 kcal The number of atoms in the molecule is 42 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. ZINC001608184546.mol2 42 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 -18.684 kcal (2) G-P(sol) polarization free energy of solvation -73.396 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -92.080 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.075 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -71.321 kcal (6) G-S(sol) free energy of system = (1) + (5) -90.005 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.84 seconds