Wall clock time and date at job start Tue Mar 31 2020 05:50:50 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 1.30717 * 1 3 3 Si 1.86795 * 119.99962 * 2 1 4 4 H 1.48498 * 109.47517 * 274.65640 * 3 2 1 5 5 H 1.48508 * 109.47125 * 34.65163 * 3 2 1 6 6 H 1.48496 * 109.47496 * 154.64939 * 3 2 1 7 7 C 1.40151 * 120.00271 * 180.02562 * 2 1 3 8 8 H 1.07994 * 120.00463 * 163.61141 * 7 2 1 9 9 C 1.40830 * 119.99740 * 343.61115 * 7 2 1 10 10 C 1.40721 * 120.31966 * 333.52666 * 9 7 2 11 11 C 1.37653 * 119.84902 * 179.97438 * 10 9 7 12 12 F 1.35100 * 119.74856 * 179.97438 * 11 10 9 13 13 C 1.39203 * 120.51407 * 0.02562 * 11 10 9 14 14 C 1.37994 * 120.66041 * 359.71550 * 13 11 10 15 15 C 1.39225 * 120.12526 * 0.56320 * 14 13 11 16 16 C 1.47699 * 120.25455 * 179.72080 * 15 14 13 17 17 C 1.40118 * 120.46742 * 309.74468 * 16 15 14 18 18 C 1.38162 * 118.36241 * 179.97438 * 17 16 15 19 19 C 1.39550 * 119.21603 * 359.97438 * 18 17 16 20 20 C 1.47966 * 119.56345 * 180.02562 * 19 18 17 21 21 N 1.34771 * 120.00090 * 179.97438 * 20 19 18 22 22 O 1.21546 * 119.99622 * 0.02562 * 20 19 18 23 23 N 1.32871 * 120.87393 * 359.97438 * 19 18 17 24 24 C 1.31263 * 121.79777 * 0.02562 * 23 19 18 25 25 H 0.96996 * 120.00246 * 359.97438 * 1 2 3 26 26 H 1.08002 * 120.07625 * 359.95664 * 10 9 7 27 27 H 1.08006 * 119.67212 * 180.02562 * 13 11 10 28 28 H 1.07997 * 119.93628 * 180.28138 * 14 13 11 29 29 H 1.08000 * 120.81715 * 359.97438 * 17 16 15 30 30 H 1.07993 * 120.39113 * 179.97438 * 18 17 16 31 31 H 0.97003 * 120.00491 * 0.02562 * 21 20 19 32 32 H 0.96999 * 120.00189 * 179.97438 * 21 20 19 33 33 H 1.07997 * 119.65507 * 180.27180 * 24 23 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 1.3072 0.0000 0.0000 3 14 2.2411 1.6177 0.0000 4 1 2.3903 2.1033 -1.3954 5 1 1.4912 2.6223 0.7961 6 1 3.5844 1.4139 0.5994 7 6 2.0080 -1.2137 -0.0005 8 1 3.0550 -1.2326 -0.2644 9 6 1.3468 -2.4087 0.3431 10 6 0.2230 -2.3807 1.1896 11 6 -0.4163 -3.5545 1.5187 12 9 -1.4947 -3.5253 2.3320 13 6 0.0404 -4.7717 1.0209 14 6 1.1371 -4.8231 0.1850 15 6 1.8077 -3.6530 -0.1608 16 6 2.9856 -3.7054 -1.0503 17 6 4.0344 -4.5968 -0.7886 18 6 5.1150 -4.6098 -1.6494 19 6 5.1256 -3.7422 -2.7424 20 6 6.2788 -3.7501 -3.6695 21 7 6.2980 -2.9163 -4.7282 22 8 7.2082 -4.5093 -3.4769 23 7 4.1135 -2.9099 -2.9621 24 6 3.0689 -2.8665 -2.1684 25 1 -0.4850 0.8400 0.0004 26 1 -0.1370 -1.4404 1.5803 27 1 -0.4718 -5.6844 1.2877 28 1 1.4787 -5.7733 -0.1980 29 1 3.9991 -5.2575 0.0651 30 1 5.9416 -5.2834 -1.4785 31 1 5.5560 -2.3107 -4.8822 32 1 7.0541 -2.9212 -5.3358 33 1 2.2636 -2.1795 -2.3822 RHF calculation, no. of doubly occupied orbitals= 51 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) F: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988). 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 ZINC001239561223.mol2 33 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 05:50:50 Heat of formation + Delta-G solvation = -60.413343 kcal Electronic energy + Delta-G solvation = -21243.552351 eV Core-core repulsion = 17760.824891 eV Total energy + Delta-G solvation = -3482.727460 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 286.086 amu Computer time = 0.51 seconds Orbital eigenvalues (eV) -49.58418 -41.49387 -40.00734 -38.89877 -35.71016 -34.87513 -33.66052 -32.87833 -31.64790 -29.86379 -27.53183 -25.57127 -24.37934 -23.10781 -22.45737 -21.52987 -19.55727 -19.12050 -18.12403 -17.80320 -17.36344 -16.86276 -16.63737 -16.38811 -16.23551 -16.03428 -15.81089 -15.13351 -14.80169 -14.52725 -14.45112 -13.98852 -13.88967 -13.73760 -13.45125 -13.01201 -12.83760 -12.48351 -12.17373 -11.94699 -11.57949 -11.49752 -11.12582 -10.80903 -10.71025 -10.54122 -10.04457 -9.54464 -9.05333 -8.72480 -6.47071 -0.39830 0.36847 0.74512 0.90796 1.38843 1.45793 1.51943 1.77888 2.14698 2.47456 2.58272 2.95784 3.33281 3.50227 3.76986 3.97947 4.02775 4.11583 4.20564 4.35695 4.53249 4.62653 4.85654 4.99055 4.99915 5.10905 5.20705 5.33398 5.56323 5.64257 5.73367 5.83125 5.86611 5.93938 6.19223 6.31774 6.50181 6.76371 6.79419 6.88010 7.27728 8.17576 Molecular weight = 286.09amu Principal moments of inertia in cm(-1) A = 0.014530 B = 0.005873 C = 0.004369 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1926.583972 B = 4766.758599 C = 6406.603606 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.804 5.804 2 C 0.045 3.955 3 Si 0.969 3.031 4 H -0.258 1.258 5 H -0.268 1.268 6 H -0.261 1.261 7 C -0.461 4.461 8 H 0.085 0.915 9 C 0.129 3.871 10 C -0.221 4.221 11 C 0.099 3.901 12 F -0.167 7.167 13 C -0.275 4.275 14 C -0.034 4.034 15 C -0.203 4.203 16 C -0.012 4.012 17 C -0.092 4.092 18 C -0.104 4.104 19 C 0.024 3.976 20 C 0.583 3.417 21 N -0.818 5.818 22 O -0.577 6.577 23 N -0.459 5.459 24 C 0.105 3.895 25 H 0.294 0.706 26 H 0.111 0.889 27 H 0.128 0.872 28 H 0.137 0.863 29 H 0.158 0.842 30 H 0.155 0.845 31 H 0.419 0.581 32 H 0.414 0.586 33 H 0.157 0.843 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 5.900 -2.255 -4.870 7.976 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 -0.428 5.428 2 C -0.174 4.174 3 Si 0.790 3.210 4 H -0.182 1.182 5 H -0.192 1.192 6 H -0.185 1.185 7 C -0.488 4.488 8 H 0.103 0.897 9 C 0.126 3.874 10 C -0.241 4.241 11 C 0.080 3.920 12 F -0.146 7.146 13 C -0.295 4.295 14 C -0.052 4.052 15 C -0.205 4.205 16 C -0.014 4.014 17 C -0.118 4.118 18 C -0.125 4.125 19 C -0.113 4.113 20 C 0.367 3.633 21 N -0.381 5.381 22 O -0.457 6.457 23 N -0.170 5.170 24 C -0.055 4.055 25 H 0.105 0.895 26 H 0.129 0.871 27 H 0.146 0.854 28 H 0.155 0.845 29 H 0.176 0.824 30 H 0.173 0.827 31 H 0.251 0.749 32 H 0.247 0.753 33 H 0.174 0.826 Dipole moment (debyes) X Y Z Total from point charges 6.221 -2.074 -5.361 8.471 hybrid contribution -0.548 0.722 0.788 1.201 sum 5.674 -1.352 -4.573 7.412 Atomic orbital electron populations 1.69785 1.09035 1.31308 1.32698 1.26698 0.95257 1.04313 0.91094 0.85359 0.79302 0.76579 0.79785 1.18225 1.19213 1.18482 1.19714 0.97838 0.91298 1.39986 0.89701 1.17496 0.89666 0.92463 0.87784 1.21175 1.02089 0.95814 1.05007 1.18037 0.85256 0.95854 0.92848 1.91337 1.54059 1.97652 1.71526 1.20524 1.04096 0.95336 1.09540 1.20752 0.93244 0.96965 0.94257 1.18662 1.01223 0.93774 1.06817 1.19943 0.93762 0.94101 0.93614 1.21948 0.91605 0.98547 0.99653 1.22074 0.99067 0.98142 0.93218 1.21118 0.95114 0.97638 0.97428 1.17849 0.84496 0.79823 0.81122 1.43489 1.26498 1.40646 1.27478 1.90775 1.37711 1.42114 1.75127 1.67404 1.00587 1.19320 1.29657 1.22966 0.95112 0.97240 0.90217 0.89483 0.87150 0.85384 0.84523 0.82406 0.82713 0.74918 0.75316 0.82581 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 17. 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 -0.80 -37.97 11.00 21.86 0.24 -37.73 16 2 C 0.05 2.02 5.15 85.32 0.44 2.46 16 3 Si 0.97 34.72 29.59 68.60 2.03 36.75 16 4 H -0.26 -8.88 7.11 99.48 0.71 -8.17 16 5 H -0.27 -9.30 7.11 99.48 0.71 -8.60 16 6 H -0.26 -9.41 7.11 99.48 0.71 -8.70 16 7 C -0.46 -21.40 7.14 23.37 0.17 -21.23 16 8 H 0.08 3.87 6.62 -2.91 -0.02 3.85 16 9 C 0.13 6.08 5.56 -21.12 -0.12 5.96 16 10 C -0.22 -10.81 8.64 22.74 0.20 -10.62 16 11 C 0.10 4.51 7.28 22.36 0.16 4.67 16 12 F -0.17 -7.43 17.26 44.97 0.78 -6.65 16 13 C -0.28 -10.92 10.01 22.44 0.22 -10.69 16 14 C -0.03 -1.27 9.52 22.45 0.21 -1.06 16 15 C -0.20 -8.32 5.54 -19.62 -0.11 -8.43 16 16 C -0.01 -0.43 4.93 -19.89 -0.10 -0.53 16 17 C -0.09 -2.84 9.68 22.71 0.22 -2.62 16 18 C -0.10 -3.11 9.61 22.57 0.22 -2.89 16 19 C 0.02 0.76 6.75 41.88 0.28 1.04 16 20 C 0.58 17.05 8.08 86.82 0.70 17.75 16 21 N -0.82 -17.12 8.86 -175.52 -1.56 -18.67 16 22 O -0.58 -19.73 17.14 -3.86 -0.07 -19.79 16 23 N -0.46 -15.18 9.51 -183.82 -1.75 -16.92 16 24 C 0.11 3.85 9.17 85.21 0.78 4.63 16 25 H 0.29 12.60 8.29 -92.71 -0.77 11.83 16 26 H 0.11 5.76 6.26 -2.91 -0.02 5.74 16 27 H 0.13 4.39 8.06 -2.91 -0.02 4.37 16 28 H 0.14 4.12 8.05 -2.91 -0.02 4.09 16 29 H 0.16 4.09 8.06 -2.91 -0.02 4.06 16 30 H 0.16 4.11 7.63 -2.91 -0.02 4.08 16 31 H 0.42 7.97 8.14 -92.71 -0.76 7.22 16 32 H 0.41 6.52 8.93 -92.71 -0.83 5.69 16 33 H 0.16 6.08 7.32 -2.91 -0.02 6.06 16 Total: -1.00 -55.62 299.08 2.58 -53.04 By element: Atomic # 1 Polarization: 31.92 SS G_CDS: -0.38 Total: 31.54 kcal Atomic # 6 Polarization: -24.84 SS G_CDS: 3.28 Total: -21.56 kcal Atomic # 7 Polarization: -70.26 SS G_CDS: -3.06 Total: -73.32 kcal Atomic # 8 Polarization: -19.73 SS G_CDS: -0.07 Total: -19.79 kcal Atomic # 9 Polarization: -7.43 SS G_CDS: 0.78 Total: -6.65 kcal Atomic # 14 Polarization: 34.72 SS G_CDS: 2.03 Total: 36.75 kcal Total: -55.62 2.58 -53.04 kcal The number of atoms in the molecule is 33 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. ZINC001239561223.mol2 33 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 -7.374 kcal (2) G-P(sol) polarization free energy of solvation -55.616 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -62.989 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.576 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -53.039 kcal (6) G-S(sol) free energy of system = (1) + (5) -60.413 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.51 seconds