Wall clock time and date at job start Tue Mar 31 2020 18:45:45 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 C 2 2 C 1.52999 * 1 3 3 H 1.08994 * 109.47678 * 2 1 4 4 C 1.53002 * 109.47189 * 239.99487 * 2 1 3 5 5 C 1.53003 * 109.47269 * 175.00147 * 4 2 1 6 6 H 1.09000 * 109.46953 * 305.00936 * 5 4 2 7 7 C 1.52996 * 109.47332 * 185.00423 * 5 4 2 8 8 N 1.46505 * 109.46807 * 65.00478 * 5 4 2 9 9 C 1.36931 * 119.99788 * 205.00000 * 8 5 4 10 10 H 1.08002 * 120.00438 * 0.02562 * 9 8 5 11 11 C 1.38817 * 119.99680 * 179.72358 * 9 8 5 12 12 N 1.31614 * 119.99888 * 0.27479 * 11 9 8 13 13 Si 1.86803 * 119.99862 * 180.27671 * 11 9 8 14 14 H 1.48498 * 109.47174 * 90.00121 * 13 11 9 15 15 H 1.48501 * 109.47062 * 210.00072 * 13 11 9 16 16 H 1.48504 * 109.46913 * 329.99871 * 13 11 9 17 17 N 1.46508 * 109.46657 * 120.00295 * 2 1 3 18 18 C 1.34771 * 119.99837 * 274.99636 * 17 2 1 19 19 O 1.21571 * 119.99859 * 0.02562 * 18 17 2 20 20 C 1.47718 * 120.00073 * 180.02562 * 18 17 2 21 21 C 1.40115 * 120.35279 * 359.97438 * 20 18 17 22 22 N 1.31253 * 121.15024 * 179.97438 * 21 20 18 23 23 C 1.32719 * 121.80482 * 0.02719 * 22 21 20 24 24 C 1.40776 * 120.67902 * 359.97438 * 23 22 21 25 25 C 1.39436 * 120.35044 * 179.72454 * 20 18 17 26 26 N 1.35327 * 107.76140 * 180.02562 * 24 23 22 27 27 N 1.28666 * 109.99673 * 0.02562 * 26 24 23 28 28 N 1.37120 * 133.40818 * 179.97438 * 23 22 21 29 29 C 1.46497 * 126.58879 * 359.97438 * 28 23 22 30 30 H 1.08998 * 109.47359 * 179.97438 * 1 2 3 31 31 H 1.09002 * 109.46944 * 300.00322 * 1 2 3 32 32 H 1.09010 * 109.46692 * 59.99697 * 1 2 3 33 33 H 1.09000 * 109.46766 * 55.00662 * 4 2 1 34 34 H 1.08992 * 109.47398 * 295.00756 * 4 2 1 35 35 H 1.08998 * 109.47019 * 59.99816 * 7 5 4 36 36 H 1.08998 * 109.47099 * 180.02562 * 7 5 4 37 37 H 1.09002 * 109.46807 * 300.00318 * 7 5 4 38 38 H 0.97000 * 119.99792 * 24.99795 * 8 5 4 39 39 H 0.97005 * 119.99715 * 179.97438 * 12 11 9 40 40 H 0.96999 * 120.00119 * 94.99915 * 17 2 1 41 41 H 1.07998 * 119.41962 * 359.97438 * 21 20 18 42 42 H 1.08005 * 120.95196 * 359.97438 * 25 20 18 43 43 H 1.09003 * 109.46873 * 90.00127 * 29 28 23 44 44 H 1.09003 * 109.47130 * 209.99670 * 29 28 23 45 45 H 1.09001 * 109.47294 * 330.00600 * 29 28 23 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 1 1.8934 1.0276 0.0000 4 6 2.0400 -0.7214 -1.2492 5 6 3.5649 -0.6135 -1.3136 6 1 3.8571 0.4356 -1.2677 7 6 4.0645 -1.2252 -2.6239 8 7 4.1536 -1.3344 -0.1823 9 6 5.3943 -0.9859 0.2807 10 1 5.9386 -0.1792 -0.1877 11 6 5.9497 -1.6652 1.3564 12 7 5.2861 -2.6479 1.9276 13 14 7.6389 -1.1846 1.9930 14 1 7.4946 -0.1451 3.0435 15 1 8.3096 -2.3787 2.5670 16 1 8.4552 -0.6482 0.8744 17 7 2.0182 -0.6907 1.1962 18 6 2.1470 -0.0184 2.3572 19 8 1.8575 1.1611 2.4118 20 6 2.6398 -0.7147 3.5632 21 6 2.9750 -2.0740 3.5086 22 7 3.4148 -2.7080 4.5704 23 6 3.5618 -2.0966 5.7392 24 6 3.2476 -0.7316 5.8804 25 6 2.7812 -0.0248 4.7666 26 7 3.4926 -0.3823 7.1646 27 7 3.9262 -1.3996 7.8223 28 7 3.9901 -2.5134 6.9734 29 6 4.4306 -3.8629 7.3350 30 1 -0.3634 -1.0276 -0.0005 31 1 -0.3633 0.5139 0.8900 32 1 -0.3633 0.5139 -0.8901 33 1 1.6055 -0.2618 -2.1369 34 1 1.7516 -1.7715 -1.2056 35 1 3.6264 -0.6888 -3.4656 36 1 5.1509 -1.1487 -2.6696 37 1 3.7722 -2.2743 -2.6698 38 1 3.6646 -2.0586 0.2387 39 1 5.6745 -3.1228 2.6790 40 1 2.2489 -1.6319 1.1527 41 1 2.8697 -2.6094 2.5766 42 1 2.5348 1.0244 4.8378 43 1 5.5050 -3.9499 7.1733 44 1 4.2048 -4.0497 8.3849 45 1 3.9098 -4.5933 6.7157 RHF calculation, no. of doubly occupied orbitals= 62 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 ZINC001135061845.mol2 45 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 18:45:45 Heat of formation + Delta-G solvation = 89.583042 kcal Electronic energy + Delta-G solvation = -29775.183553 eV Core-core repulsion = 25829.937323 eV Total energy + Delta-G solvation = -3945.246230 eV No. of doubly occupied orbitals = 62 Molecular weight (most abundant/longest-lived isotopes) = 332.170 amu Computer time = 0.95 seconds Orbital eigenvalues (eV) -43.36728 -41.06994 -39.28887 -38.21797 -35.92377 -35.74038 -34.08696 -33.21751 -32.45006 -31.18676 -30.08533 -28.62893 -27.52593 -26.02614 -25.53490 -25.18165 -22.68488 -22.47163 -21.70261 -21.31885 -19.59490 -19.06522 -18.90358 -17.89135 -17.49483 -17.22808 -16.80966 -16.53214 -15.92306 -15.55623 -15.44781 -15.04649 -14.85100 -14.58317 -14.30570 -14.18762 -14.11401 -13.94172 -13.85234 -13.60958 -13.52446 -13.26783 -13.15103 -12.93702 -12.74484 -12.71004 -12.58578 -12.24469 -12.16004 -11.96963 -11.64357 -11.57754 -11.35515 -11.16646 -10.87957 -10.47164 -10.24920 -10.03960 -9.74824 -8.76713 -7.84731 -5.01615 -0.82234 -0.35189 0.79275 0.99810 1.37768 1.45239 1.46147 1.83836 2.22508 2.58181 2.73536 2.80529 3.13231 3.23022 3.51216 3.60384 3.74029 3.81785 3.96372 4.08703 4.24700 4.29905 4.31974 4.39907 4.46968 4.58872 4.65364 4.70779 4.75930 4.86308 4.92174 4.95955 4.99602 5.12219 5.16798 5.21574 5.24688 5.42219 5.46404 5.49393 5.65579 5.69220 5.78526 6.39382 6.54455 6.65785 6.72843 7.32892 7.49695 8.19960 8.48772 9.35103 Molecular weight = 332.17amu Principal moments of inertia in cm(-1) A = 0.011404 B = 0.005099 C = 0.003984 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2454.693540 B = 5489.631768 C = 7026.046863 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.154 4.154 2 C 0.146 3.854 3 H 0.061 0.939 4 C -0.120 4.120 5 C 0.161 3.839 6 H 0.031 0.969 7 C -0.154 4.154 8 N -0.717 5.717 9 C -0.213 4.213 10 H 0.054 0.946 11 C -0.041 4.041 12 N -0.921 5.921 13 Si 0.922 3.078 14 H -0.315 1.315 15 H -0.300 1.300 16 H -0.282 1.282 17 N -0.682 5.682 18 C 0.579 3.421 19 O -0.583 6.583 20 C -0.207 4.207 21 C 0.270 3.730 22 N -0.488 5.488 23 C 0.279 3.721 24 C -0.103 4.103 25 C 0.065 3.935 26 N -0.219 5.219 27 N -0.008 5.008 28 N -0.383 5.383 29 C 0.094 3.906 30 H 0.071 0.929 31 H 0.040 0.960 32 H 0.085 0.915 33 H 0.110 0.890 34 H 0.081 0.919 35 H 0.067 0.933 36 H 0.026 0.974 37 H 0.049 0.951 38 H 0.376 0.624 39 H 0.249 0.751 40 H 0.405 0.595 41 H 0.188 0.812 42 H 0.161 0.839 43 H 0.089 0.911 44 H 0.124 0.876 45 H 0.107 0.893 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -9.940 -3.668 -0.162 10.596 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 C -0.212 4.212 2 C 0.042 3.958 3 H 0.080 0.920 4 C -0.159 4.159 5 C 0.053 3.947 6 H 0.049 0.951 7 C -0.214 4.214 8 N -0.360 5.360 9 C -0.346 4.346 10 H 0.072 0.928 11 C -0.236 4.236 12 N -0.572 5.572 13 Si 0.757 3.243 14 H -0.244 1.244 15 H -0.227 1.227 16 H -0.207 1.207 17 N -0.333 5.333 18 C 0.366 3.634 19 O -0.465 6.465 20 C -0.216 4.216 21 C 0.096 3.904 22 N -0.203 5.203 23 C 0.035 3.965 24 C -0.229 4.229 25 C 0.034 3.966 26 N -0.099 5.099 27 N 0.011 4.989 28 N -0.180 5.180 29 C -0.045 4.045 30 H 0.090 0.910 31 H 0.059 0.941 32 H 0.104 0.896 33 H 0.128 0.872 34 H 0.099 0.901 35 H 0.086 0.914 36 H 0.046 0.954 37 H 0.069 0.931 38 H 0.211 0.789 39 H 0.059 0.941 40 H 0.244 0.756 41 H 0.204 0.796 42 H 0.178 0.822 43 H 0.107 0.893 44 H 0.142 0.858 45 H 0.126 0.874 Dipole moment (debyes) X Y Z Total from point charges -9.448 -3.268 1.341 10.087 hybrid contribution 1.544 0.142 -0.037 1.551 sum -7.904 -3.126 1.304 8.599 Atomic orbital electron populations 1.22125 0.93642 1.02955 1.02453 1.21025 0.94447 0.96489 0.83850 0.92048 1.22146 0.94637 1.01861 0.97224 1.20514 0.92243 0.94513 0.87448 0.95112 1.22269 0.99965 1.00930 0.98238 1.42496 1.17517 1.40105 1.35858 1.19225 0.94405 1.11716 1.09245 0.92789 1.24719 0.99116 0.99842 0.99905 1.69438 1.37416 1.24489 1.25812 0.85932 0.84573 0.75996 0.77848 1.24432 1.22719 1.20738 1.45902 1.64638 1.14272 1.08517 1.17631 0.76741 0.85706 0.83363 1.90693 1.53416 1.16526 1.85858 1.20839 1.09142 0.96639 0.94991 1.23126 0.82924 0.89767 0.94567 1.66730 1.18077 1.39036 0.96413 1.19889 0.96601 0.90930 0.89094 1.20461 1.13698 0.94640 0.94092 1.21031 0.87425 1.00418 0.87708 1.74720 1.11057 1.20547 1.03540 1.81523 1.15427 0.87698 1.14241 1.50184 1.50964 1.12305 1.04567 1.22436 1.02084 0.74895 1.05121 0.91031 0.94076 0.89571 0.87218 0.90051 0.91424 0.95446 0.93147 0.78859 0.94091 0.75579 0.79584 0.82165 0.89295 0.85779 0.87407 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 C -0.15 -3.24 9.48 71.98 0.68 -2.56 16 2 C 0.15 3.92 2.57 44.99 0.12 4.03 16 3 H 0.06 1.98 7.58 -2.39 -0.02 1.96 16 4 C -0.12 -2.78 4.43 30.60 0.14 -2.65 16 5 C 0.16 5.13 2.89 44.99 0.13 5.26 16 6 H 0.03 1.10 8.08 -2.39 -0.02 1.08 16 7 C -0.15 -4.47 9.49 71.98 0.68 -3.79 16 8 N -0.72 -28.54 3.84 -322.93 -1.24 -29.78 16 9 C -0.21 -10.33 9.93 84.04 0.83 -9.50 16 10 H 0.05 2.74 7.83 -2.91 -0.02 2.72 16 11 C -0.04 -2.07 5.50 84.86 0.47 -1.61 16 12 N -0.92 -44.97 10.69 21.65 0.23 -44.74 16 13 Si 0.92 44.84 29.55 68.60 2.03 46.86 16 14 H -0.31 -16.31 7.11 99.48 0.71 -15.61 16 15 H -0.30 -14.83 7.11 99.48 0.71 -14.12 16 16 H -0.28 -13.45 7.11 99.48 0.71 -12.74 16 17 N -0.68 -21.36 3.75 -445.52 -1.67 -23.03 16 18 C 0.58 21.49 7.74 86.75 0.67 22.16 16 19 O -0.58 -24.40 16.06 -3.94 -0.06 -24.46 16 20 C -0.21 -7.66 5.88 -20.03 -0.12 -7.78 16 21 C 0.27 9.74 8.98 85.24 0.77 10.51 16 22 N -0.49 -17.95 10.37 -191.99 -1.99 -19.94 16 23 C 0.28 10.18 8.05 134.00 1.08 11.26 16 24 C -0.10 -3.88 7.27 39.63 0.29 -3.59 16 25 C 0.07 2.41 9.76 22.96 0.22 2.63 16 26 N -0.22 -8.10 12.40 -52.15 -0.65 -8.75 16 27 N -0.01 -0.26 13.71 37.02 0.51 0.24 16 28 N -0.38 -11.95 4.10 -366.45 -1.50 -13.45 16 29 C 0.09 1.88 11.54 127.77 1.47 3.36 16 30 H 0.07 1.29 8.14 -2.39 -0.02 1.27 16 31 H 0.04 1.03 8.14 -2.39 -0.02 1.01 16 32 H 0.09 1.41 8.14 -2.38 -0.02 1.39 16 33 H 0.11 1.88 8.14 -2.39 -0.02 1.86 16 34 H 0.08 1.70 8.14 -2.39 -0.02 1.68 16 35 H 0.07 1.54 8.14 -2.39 -0.02 1.52 16 36 H 0.03 0.91 8.14 -2.39 -0.02 0.89 16 37 H 0.05 1.42 8.14 -2.39 -0.02 1.40 16 38 H 0.38 14.85 5.70 -92.71 -0.53 14.32 16 39 H 0.25 12.67 8.31 -92.70 -0.77 11.90 16 40 H 0.41 12.28 4.54 -92.71 -0.42 11.86 16 41 H 0.19 6.47 5.82 -2.91 -0.02 6.45 16 42 H 0.16 5.60 7.71 -2.91 -0.02 5.58 16 43 H 0.09 1.68 8.14 -2.39 -0.02 1.66 16 44 H 0.12 1.70 8.14 -2.39 -0.02 1.68 16 45 H 0.11 1.98 8.14 -2.39 -0.02 1.96 16 Total: -1.00 -62.75 374.46 3.17 -59.58 By element: Atomic # 1 Polarization: 29.64 SS G_CDS: 0.09 Total: 29.73 kcal Atomic # 6 Polarization: 20.31 SS G_CDS: 7.43 Total: 27.74 kcal Atomic # 7 Polarization: -133.14 SS G_CDS: -6.31 Total: -139.45 kcal Atomic # 8 Polarization: -24.40 SS G_CDS: -0.06 Total: -24.46 kcal Atomic # 14 Polarization: 44.84 SS G_CDS: 2.03 Total: 46.86 kcal Total: -62.75 3.17 -59.58 kcal The number of atoms in the molecule is 45 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. ZINC001135061845.mol2 45 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 149.162 kcal (2) G-P(sol) polarization free energy of solvation -62.749 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 86.413 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.170 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -59.579 kcal (6) G-S(sol) free energy of system = (1) + (5) 89.583 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.95 seconds