Wall clock time and date at job start Tue Mar 31 2020 13:38:07 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 1.31408 * 1 3 3 Si 1.86802 * 120.00111 * 2 1 4 4 H 1.48503 * 109.46989 * 275.22129 * 3 2 1 5 5 H 1.48498 * 109.47082 * 35.21712 * 3 2 1 6 6 H 1.48500 * 109.46999 * 155.22355 * 3 2 1 7 7 C 1.38979 * 120.00294 * 180.02562 * 2 1 3 8 8 H 1.08003 * 119.99655 * 344.37036 * 7 2 1 9 9 N 1.36973 * 120.00381 * 164.37148 * 7 2 1 10 10 C 1.46506 * 120.00010 * 317.71931 * 9 7 2 11 11 C 1.52997 * 109.46859 * 265.65020 * 10 9 7 12 12 C 1.50706 * 109.46852 * 180.02562 * 11 10 9 13 13 O 1.20826 * 120.00067 * 359.97438 * 12 11 10 14 14 O 1.34228 * 120.00004 * 180.02562 * 12 11 10 15 15 C 1.34782 * 120.00024 * 137.99574 * 9 7 2 16 16 O 1.21629 * 119.99642 * 173.62760 * 15 9 7 17 17 C 1.47358 * 119.99988 * 353.62362 * 15 9 7 18 18 C 1.38102 * 126.42040 * 353.14992 * 17 15 9 19 19 N 1.34290 * 107.40260 * 179.82945 * 18 17 15 20 20 H 0.97001 * 125.75283 * 180.15684 * 19 18 17 21 21 N 1.39931 * 108.49715 * 0.43667 * 19 18 17 22 22 C 1.30442 * 108.91334 * 359.72117 * 21 19 18 23 23 C 1.50702 * 125.99049 * 180.02562 * 22 21 19 24 24 H 1.08995 * 109.87288 * 164.27398 * 23 22 21 25 25 C 1.54106 * 109.87568 * 285.28204 * 23 22 21 26 26 C 1.54810 * 104.18629 * 121.44870 * 25 23 22 27 27 C 1.54992 * 102.09326 * 20.88117 * 26 25 23 28 28 O 1.43740 * 109.87691 * 43.26407 * 23 22 21 29 29 H 0.97000 * 120.00011 * 0.02562 * 1 2 3 30 30 H 1.08993 * 109.46713 * 25.64902 * 10 9 7 31 31 H 1.09003 * 109.46736 * 145.65035 * 10 9 7 32 32 H 1.09001 * 109.47097 * 299.99453 * 11 10 9 33 33 H 1.08998 * 109.47435 * 59.99984 * 11 10 9 34 34 H 0.96704 * 117.00110 * 179.97438 * 14 12 11 35 35 H 1.08005 * 126.29973 * 359.97438 * 18 17 15 36 36 H 1.08991 * 110.48955 * 240.12491 * 25 23 22 37 37 H 1.09000 * 110.48577 * 2.77875 * 25 23 22 38 38 H 1.08999 * 110.90643 * 139.07907 * 26 25 23 39 39 H 1.09001 * 110.91225 * 262.68232 * 26 25 23 40 40 H 1.09001 * 110.62050 * 81.47876 * 27 26 25 41 41 H 1.09001 * 110.61992 * 204.47135 * 27 26 25 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 2.2481 1.6177 0.0000 4 1 2.3853 2.1101 -1.3943 5 1 1.5051 2.6183 0.8074 6 1 3.5965 1.4108 0.5867 7 6 2.0090 -1.2036 -0.0005 8 1 1.4990 -2.1217 0.2511 9 7 3.3408 -1.2254 -0.3201 10 6 3.8389 -0.4215 -1.4391 11 6 3.8808 -1.2801 -2.7048 12 6 4.3937 -0.4534 -3.8558 13 8 4.6944 0.7038 -3.6816 14 8 4.5156 -1.0024 -5.0746 15 6 4.1921 -1.9906 0.3914 16 8 5.3507 -2.1011 0.0381 17 6 3.7192 -2.6932 1.5973 18 6 2.4795 -2.5596 2.1909 19 7 2.4552 -3.3743 3.2581 20 1 1.7081 -3.4903 3.8658 21 7 3.6916 -4.0232 3.3494 22 6 4.4514 -3.6256 2.3665 23 6 5.8626 -4.0812 2.0978 24 1 6.1519 -3.8115 1.0821 25 6 6.8255 -3.4275 3.1079 26 6 7.4986 -4.6257 3.8205 27 6 7.2743 -5.7751 2.8051 28 8 5.9580 -5.5048 2.2715 29 1 -0.4850 0.8400 -0.0004 30 1 3.1761 0.4289 -1.5988 31 1 4.8423 -0.0625 -1.2102 32 1 4.5435 -2.1306 -2.5451 33 1 2.8774 -1.6393 -2.9337 34 1 4.8485 -0.4327 -5.7814 35 1 1.6763 -1.9194 1.8569 36 1 7.5706 -2.8244 2.5894 37 1 6.2722 -2.8197 3.8239 38 1 8.5623 -4.4414 3.9706 39 1 7.0051 -4.8420 4.7681 40 1 8.0222 -5.7389 2.0130 41 1 7.2937 -6.7415 3.3088 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001601071679.mol2 41 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 13:38:07 Heat of formation + Delta-G solvation = -105.662201 kcal Electronic energy + Delta-G solvation = -28189.324787 eV Core-core repulsion = 24070.682242 eV Total energy + Delta-G solvation = -4118.642545 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 323.136 amu Computer time = 0.69 seconds Orbital eigenvalues (eV) -42.37523 -41.35404 -40.18096 -39.98479 -37.27805 -36.87639 -34.26634 -33.46129 -32.89000 -32.77572 -30.75250 -29.49921 -27.07122 -26.30569 -24.44284 -23.31219 -22.51076 -22.28044 -21.05531 -20.62888 -19.85984 -19.10090 -17.99866 -17.69200 -17.61261 -17.20077 -16.95591 -16.87587 -16.37450 -16.00764 -15.99197 -15.74104 -15.21156 -14.75135 -14.55445 -14.49193 -14.26698 -14.16235 -13.81890 -13.68146 -13.46248 -12.99500 -12.69407 -12.63873 -12.58661 -12.50192 -12.15864 -12.00038 -11.88069 -11.72511 -11.68798 -11.62402 -11.10261 -10.82398 -10.52265 -10.28046 -9.77896 -9.56346 -8.52117 -6.20094 0.78356 1.10710 1.15416 1.26495 1.36296 1.44203 1.88852 2.00927 2.17802 2.50444 2.78070 2.99439 3.09989 3.52825 3.73308 3.85925 3.89656 3.94378 4.04707 4.18966 4.35918 4.44717 4.48141 4.52640 4.59586 4.70714 4.75250 4.84805 4.89439 4.89962 4.94173 5.01825 5.10031 5.21455 5.39864 5.50042 5.55866 5.96029 6.03086 6.22267 6.42464 6.68729 6.94348 6.97328 7.41744 7.78545 8.57363 Molecular weight = 323.14amu Principal moments of inertia in cm(-1) A = 0.012118 B = 0.004836 C = 0.003835 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2310.120660 B = 5787.960783 C = 7299.664272 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 0.051 3.949 3 Si 0.908 3.092 4 H -0.274 1.274 5 H -0.282 1.282 6 H -0.271 1.271 7 C -0.340 4.340 8 H 0.107 0.893 9 N -0.472 5.472 10 C 0.118 3.882 11 C -0.119 4.119 12 C 0.496 3.504 13 O -0.553 6.553 14 O -0.505 6.505 15 C 0.559 3.441 16 O -0.608 6.608 17 C -0.295 4.295 18 C 0.129 3.871 19 N -0.459 5.459 20 H 0.455 0.545 21 N -0.304 5.304 22 C 0.111 3.889 23 C 0.152 3.848 24 H 0.092 0.908 25 C -0.138 4.138 26 C -0.141 4.141 27 C 0.038 3.962 28 O -0.393 6.393 29 H 0.282 0.718 30 H 0.065 0.935 31 H 0.065 0.935 32 H 0.114 0.886 33 H 0.120 0.880 34 H 0.428 0.572 35 H 0.223 0.777 36 H 0.087 0.913 37 H 0.064 0.936 38 H 0.108 0.892 39 H 0.076 0.924 40 H 0.073 0.927 41 H 0.111 0.889 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 7.792 -5.440 2.245 9.764 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 -0.156 4.156 3 Si 0.736 3.264 4 H -0.200 1.200 5 H -0.208 1.208 6 H -0.195 1.195 7 C -0.468 4.468 8 H 0.125 0.875 9 N -0.192 5.192 10 C -0.005 4.005 11 C -0.158 4.158 12 C 0.340 3.660 13 O -0.444 6.444 14 O -0.319 6.319 15 C 0.352 3.648 16 O -0.495 6.495 17 C -0.310 4.310 18 C -0.022 4.022 19 N -0.166 5.166 20 H 0.303 0.697 21 N -0.127 5.127 22 C -0.058 4.058 23 C 0.093 3.907 24 H 0.110 0.890 25 C -0.176 4.176 26 C -0.178 4.178 27 C -0.038 4.038 28 O -0.312 6.312 29 H 0.092 0.908 30 H 0.083 0.917 31 H 0.083 0.917 32 H 0.132 0.868 33 H 0.138 0.862 34 H 0.290 0.710 35 H 0.239 0.761 36 H 0.106 0.894 37 H 0.083 0.917 38 H 0.126 0.874 39 H 0.095 0.905 40 H 0.091 0.909 41 H 0.129 0.871 Dipole moment (debyes) X Y Z Total from point charges 7.839 -6.227 3.390 10.570 hybrid contribution -0.199 2.183 -1.030 2.422 sum 7.640 -4.044 2.360 8.961 Atomic orbital electron populations 1.69712 1.06588 1.29202 1.46152 1.25644 0.95368 0.99798 0.94821 0.86401 0.79818 0.81856 0.78365 1.20020 1.20827 1.19541 1.19147 0.82710 0.95408 1.49498 0.87540 1.43505 1.07758 1.42148 1.25838 1.21330 0.99532 0.93397 0.86270 1.21614 1.04998 0.99486 0.89695 1.23346 0.72921 0.85714 0.84018 1.90696 1.48497 1.20160 1.85033 1.84509 1.78846 1.48827 1.19705 1.17666 0.84061 0.80723 0.82368 1.90546 1.18850 1.67635 1.72482 1.20117 0.96796 1.10534 1.03510 1.24923 0.99260 0.91925 0.86141 1.46320 1.13510 1.32885 1.23888 0.69709 1.76920 0.92252 1.20595 1.22916 1.22364 0.96518 0.94804 0.92147 1.21199 0.87584 0.81290 1.00639 0.89019 1.22877 0.98035 0.99190 0.97546 1.23101 1.02572 0.93307 0.98842 1.23860 0.83935 1.00026 0.95952 1.88940 1.35301 1.21352 1.85656 0.90760 0.91723 0.91675 0.86776 0.86162 0.71014 0.76078 0.89408 0.91690 0.87364 0.90502 0.90862 0.87142 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 -0.88 -42.92 13.96 21.67 0.30 -42.62 16 2 C 0.05 2.38 5.36 84.93 0.46 2.83 16 3 Si 0.91 40.19 24.82 68.60 1.70 41.90 16 4 H -0.27 -12.30 6.77 99.48 0.67 -11.62 16 5 H -0.28 -12.14 7.11 99.48 0.71 -11.43 16 6 H -0.27 -12.48 7.08 99.48 0.70 -11.77 16 7 C -0.34 -15.56 6.89 84.07 0.58 -14.98 16 8 H 0.11 4.98 6.05 -2.91 -0.02 4.96 16 9 N -0.47 -21.16 2.12 -639.29 -1.36 -22.52 16 10 C 0.12 5.04 3.16 86.38 0.27 5.32 16 11 C -0.12 -4.25 6.11 29.85 0.18 -4.06 16 12 C 0.50 16.26 8.33 71.24 0.59 16.85 16 13 O -0.55 -21.47 16.74 21.96 0.37 -21.11 16 14 O -0.51 -12.18 13.42 -51.40 -0.69 -12.87 16 15 C 0.56 25.47 7.58 86.64 0.66 26.13 16 16 O -0.61 -28.85 14.41 -4.12 -0.06 -28.90 16 17 C -0.30 -12.39 6.01 -20.15 -0.12 -12.51 16 18 C 0.13 4.77 10.12 84.28 0.85 5.63 16 19 N -0.46 -14.53 7.29 -56.26 -0.41 -14.93 16 20 H 0.46 10.46 8.96 -213.43 -1.91 8.54 16 21 N -0.30 -11.17 12.63 -46.66 -0.59 -11.76 16 22 C 0.11 4.36 5.94 43.52 0.26 4.62 16 23 C 0.15 5.45 3.65 30.22 0.11 5.56 16 24 H 0.09 3.66 6.04 -2.39 -0.01 3.64 16 25 C -0.14 -3.96 6.63 31.59 0.21 -3.75 16 26 C -0.14 -2.99 7.16 31.89 0.23 -2.76 16 27 C 0.04 0.88 7.72 72.66 0.56 1.44 16 28 O -0.39 -13.42 11.19 -148.98 -1.67 -15.08 16 29 H 0.28 13.07 8.31 -92.71 -0.77 12.30 16 30 H 0.06 2.90 3.59 -2.39 -0.01 2.89 16 31 H 0.06 2.91 7.62 -2.39 -0.02 2.89 16 32 H 0.11 3.99 8.09 -2.39 -0.02 3.98 16 33 H 0.12 4.10 8.14 -2.39 -0.02 4.08 16 34 H 0.43 5.98 9.10 -74.05 -0.67 5.30 16 35 H 0.22 8.38 5.01 -2.91 -0.01 8.37 16 36 H 0.09 2.36 8.14 -2.39 -0.02 2.34 16 37 H 0.06 1.99 7.69 -2.39 -0.02 1.97 16 38 H 0.11 1.64 8.14 -2.39 -0.02 1.62 16 39 H 0.08 1.63 8.14 -2.39 -0.02 1.61 16 40 H 0.07 1.48 8.14 -2.39 -0.02 1.46 16 41 H 0.11 2.04 8.14 -2.39 -0.02 2.02 16 Total: -1.00 -65.39 341.51 0.94 -64.45 By element: Atomic # 1 Polarization: 34.63 SS G_CDS: -1.50 Total: 33.13 kcal Atomic # 6 Polarization: 25.48 SS G_CDS: 4.84 Total: 30.32 kcal Atomic # 7 Polarization: -89.79 SS G_CDS: -2.05 Total: -91.84 kcal Atomic # 8 Polarization: -75.91 SS G_CDS: -2.05 Total: -77.96 kcal Atomic # 14 Polarization: 40.19 SS G_CDS: 1.70 Total: 41.90 kcal Total: -65.39 0.94 -64.45 kcal The number of atoms in the molecule is 41 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. ZINC001601071679.mol2 41 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 -41.211 kcal (2) G-P(sol) polarization free energy of solvation -65.391 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -106.602 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.940 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -64.451 kcal (6) G-S(sol) free energy of system = (1) + (5) -105.662 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.69 seconds