Wall clock time and date at job start Tue Mar 31 2020 22:37:02 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 1.31411 * 1 3 3 Si 1.86798 * 119.99848 * 2 1 4 4 H 1.48501 * 109.47494 * 240.00124 * 3 2 1 5 5 H 1.48501 * 109.47067 * 0.02562 * 3 2 1 6 6 H 1.48501 * 109.47228 * 119.99967 * 3 2 1 7 7 C 1.38954 * 120.00319 * 180.02562 * 2 1 3 8 8 H 1.08000 * 119.99904 * 180.02562 * 7 2 1 9 9 N 1.37095 * 119.99765 * 0.02562 * 7 2 1 10 10 C 1.34774 * 119.99963 * 180.02562 * 9 7 2 11 11 O 1.21291 * 120.00028 * 359.97438 * 10 9 7 12 12 C 1.50704 * 120.00181 * 179.97438 * 10 9 7 13 13 N 1.46901 * 109.47416 * 179.97438 * 12 10 9 14 14 C 1.46891 * 111.00236 * 180.02562 * 13 12 10 15 15 H 1.09004 * 112.85375 * 23.80422 * 14 13 12 16 16 C 1.53778 * 113.61601 * 154.99847 * 14 13 12 17 17 C 1.53787 * 87.08069 * 89.11622 * 16 14 13 18 18 H 1.08990 * 113.61394 * 270.80166 * 17 16 14 19 19 C 1.53000 * 113.61270 * 139.97924 * 17 16 14 20 20 N 1.46499 * 109.46840 * 176.52995 * 19 17 16 21 21 C 1.34779 * 119.99872 * 180.02562 * 20 19 17 22 22 O 1.21567 * 119.99912 * 0.02562 * 21 20 19 23 23 C 1.47751 * 119.99834 * 180.02562 * 21 20 19 24 24 C 1.39351 * 124.11423 * 179.72717 * 23 21 20 25 25 N 1.30097 * 112.14340 * 179.81937 * 24 23 21 26 26 S 1.55918 * 108.75526 * 0.42763 * 25 24 23 27 27 N 1.31495 * 124.11768 * 0.02562 * 23 21 20 28 28 C 1.53783 * 87.17078 * 25.39268 * 17 16 14 29 29 H 0.96998 * 120.00083 * 359.97438 * 1 2 3 30 30 H 0.96999 * 120.00087 * 359.97438 * 9 7 2 31 31 H 1.09000 * 109.46794 * 59.99944 * 12 10 9 32 32 H 1.09001 * 109.47011 * 300.00363 * 12 10 9 33 33 H 1.00902 * 110.99321 * 56.04476 * 13 12 10 34 34 H 1.09000 * 113.61215 * 334.57211 * 16 14 13 35 35 H 1.08993 * 113.69471 * 203.67273 * 16 14 13 36 36 H 1.09002 * 109.47398 * 296.53321 * 19 17 16 37 37 H 1.09001 * 109.47194 * 56.53501 * 19 17 16 38 38 H 0.97000 * 120.00420 * 0.02562 * 20 19 17 39 39 H 1.08000 * 123.93253 * 0.02562 * 24 23 21 40 40 H 1.09003 * 113.61584 * 89.15627 * 28 17 16 41 41 H 1.09000 * 113.61286 * 220.05881 * 28 17 16 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 3.1018 1.6965 -1.2125 5 1 1.2830 2.7464 0.0006 6 1 3.1018 1.6965 1.2125 7 6 2.0090 -1.2033 -0.0005 8 1 3.0889 -1.2033 -0.0001 9 7 1.3235 -2.3906 -0.0016 10 6 1.9974 -3.5578 -0.0016 11 8 3.2103 -3.5578 -0.0011 12 6 1.2439 -4.8630 -0.0022 13 7 2.1985 -5.9795 -0.0027 14 6 1.4983 -7.2708 -0.0039 15 1 0.4888 -7.2046 -0.4096 16 6 2.3274 -8.4206 -0.5999 17 6 2.8732 -8.6575 0.8182 18 1 3.7694 -8.0795 1.0433 19 6 3.0134 -10.1371 1.1817 20 7 3.6150 -10.2581 2.5120 21 6 3.8362 -11.4769 3.0431 22 8 3.5370 -12.4758 2.4181 23 6 4.4423 -11.5990 4.3850 24 6 4.7033 -12.8132 5.0172 25 7 5.2429 -12.6495 6.1897 26 16 5.3913 -11.1220 6.4644 27 7 4.7960 -10.5752 5.1305 28 6 1.5780 -8.0147 1.3417 29 1 -0.4850 0.8400 0.0004 30 1 0.3535 -2.3907 -0.0016 31 1 0.6176 -4.9205 -0.8924 32 1 0.6169 -4.9209 0.8875 33 1 2.8334 -5.9127 0.7787 34 1 3.0855 -8.0899 -1.3099 35 1 1.7238 -9.2453 -0.9788 36 1 2.0292 -10.6056 1.1839 37 1 3.6501 -10.6326 0.4487 38 1 3.8541 -9.4612 3.0106 39 1 4.4863 -13.7779 4.5829 40 1 0.7678 -8.7275 1.4952 41 1 1.7319 -7.3567 2.1970 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). 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=WATER ZINC001707076853.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 22:37:02 Heat of formation + Delta-G solvation = -16.786319 kcal Electronic energy + Delta-G solvation = -25271.789086 eV Core-core repulsion = 21313.363919 eV Total energy + Delta-G solvation = -3958.425167 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.59 seconds Orbital eigenvalues (eV) -42.18999 -40.83111 -40.11427 -39.59771 -36.24726 -35.87274 -34.79383 -34.11682 -33.22275 -29.82283 -28.43827 -27.54097 -26.53025 -25.69736 -24.24994 -22.99664 -21.55538 -21.11246 -20.42481 -20.01688 -19.90836 -18.79933 -17.69858 -17.26451 -17.16415 -16.89223 -16.53658 -16.34200 -16.19650 -16.04125 -15.67691 -15.52356 -14.95293 -14.87476 -14.37679 -14.10504 -13.59947 -13.47608 -13.29950 -13.22675 -13.20258 -12.92485 -12.65382 -12.52469 -12.43202 -12.29680 -12.12688 -12.11959 -11.78544 -11.51086 -11.48465 -11.25504 -11.01539 -10.36570 -10.32558 -10.07205 -10.01616 -9.26083 -8.46416 -5.95242 -0.67416 0.33381 0.43643 0.60268 1.40052 1.42078 1.52939 1.97392 1.99525 2.05515 2.29280 2.90607 3.20819 3.36923 3.49720 3.62309 3.64969 3.77650 3.85304 4.02007 4.06994 4.30439 4.36553 4.46678 4.48444 4.54979 4.67188 4.71810 4.85266 4.89624 4.95029 5.14416 5.26533 5.28947 5.34221 5.40941 5.45918 5.94219 6.17982 6.33862 6.44800 6.60339 6.95205 7.12591 7.56457 8.11690 8.70613 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.016036 B = 0.001753 C = 0.001617 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1745.633986 B =15970.322680 C =17317.161291 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.920 5.920 2 C -0.013 4.013 3 Si 0.993 3.007 4 H -0.273 1.273 5 H -0.270 1.270 6 H -0.271 1.271 7 C -0.335 4.335 8 H 0.079 0.921 9 N -0.573 5.573 10 C 0.436 3.564 11 O -0.624 6.624 12 C 0.067 3.933 13 N -0.664 5.664 14 C 0.058 3.942 15 H 0.095 0.905 16 C -0.114 4.114 17 C -0.114 4.114 18 H 0.090 0.910 19 C 0.134 3.866 20 N -0.699 5.699 21 C 0.603 3.397 22 O -0.554 6.554 23 C -0.006 4.006 24 C 0.088 3.912 25 N -0.600 5.600 26 S 0.790 5.210 27 N -0.565 5.565 28 C -0.155 4.155 29 H 0.278 0.722 30 H 0.397 0.603 31 H 0.104 0.896 32 H 0.067 0.933 33 H 0.345 0.655 34 H 0.066 0.934 35 H 0.108 0.892 36 H 0.079 0.921 37 H 0.071 0.929 38 H 0.415 0.585 39 H 0.226 0.774 40 H 0.102 0.898 41 H 0.061 0.939 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 3.664 -24.548 10.762 27.053 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 -0.560 5.560 2 C -0.213 4.213 3 Si 0.817 3.183 4 H -0.198 1.198 5 H -0.195 1.195 6 H -0.197 1.197 7 C -0.465 4.465 8 H 0.097 0.903 9 N -0.210 5.210 10 C 0.224 3.776 11 O -0.511 6.511 12 C -0.066 4.066 13 N -0.296 5.296 14 C -0.052 4.052 15 H 0.113 0.887 16 C -0.153 4.153 17 C -0.133 4.133 18 H 0.108 0.892 19 C 0.012 3.988 20 N -0.350 5.350 21 C 0.384 3.616 22 O -0.432 6.432 23 C -0.179 4.179 24 C -0.103 4.103 25 N -0.442 5.442 26 S 0.831 5.169 27 N -0.417 5.417 28 C -0.194 4.194 29 H 0.087 0.913 30 H 0.231 0.769 31 H 0.122 0.878 32 H 0.085 0.915 33 H 0.164 0.836 34 H 0.085 0.915 35 H 0.126 0.874 36 H 0.097 0.903 37 H 0.090 0.910 38 H 0.251 0.749 39 H 0.242 0.758 40 H 0.121 0.879 41 H 0.080 0.920 Dipole moment (debyes) X Y Z Total from point charges 4.960 -24.071 11.281 27.042 hybrid contribution -0.903 0.468 -0.345 1.074 sum 4.057 -23.603 10.936 26.328 Atomic orbital electron populations 1.69663 1.06800 1.29367 1.50211 1.26045 0.96567 1.02425 0.96274 0.84989 0.77760 0.76647 0.78944 1.19784 1.19496 1.19653 1.19630 0.92709 0.84065 1.50050 0.90332 1.41930 1.09346 1.04718 1.65002 1.20927 0.88272 0.86232 0.82182 1.90488 1.15897 1.87996 1.56721 1.21566 0.94022 0.87929 1.03053 1.59928 1.18388 1.00298 1.50974 1.22738 0.97723 0.87807 0.96923 0.88703 1.23025 0.99608 0.97457 0.95180 1.22689 0.98431 0.94043 0.98139 0.89219 1.21510 0.98766 0.96305 0.82247 1.45855 1.61690 1.07783 1.19671 1.16896 0.77958 0.83939 0.82849 1.90821 1.53346 1.37466 1.61561 1.22358 1.07790 0.88874 0.98913 1.23922 0.96217 1.01643 0.88560 1.72207 1.23488 1.26597 1.21873 1.78937 1.37928 0.87635 1.12375 1.72305 1.19236 1.37458 1.12730 1.23754 0.98122 1.00271 0.97221 0.91288 0.76946 0.87782 0.91512 0.83579 0.91538 0.87395 0.90327 0.91043 0.74881 0.75772 0.87916 0.91982 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 -0.92 -49.31 13.05 21.66 0.28 -49.03 16 2 C -0.01 -0.71 5.50 84.93 0.47 -0.24 16 3 Si 0.99 42.69 29.55 68.60 2.03 44.71 16 4 H -0.27 -11.62 7.11 99.48 0.71 -10.92 16 5 H -0.27 -10.94 7.11 99.48 0.71 -10.23 16 6 H -0.27 -11.49 7.11 99.48 0.71 -10.78 16 7 C -0.33 -18.96 9.68 84.04 0.81 -18.14 16 8 H 0.08 4.73 7.16 -2.91 -0.02 4.71 16 9 N -0.57 -29.17 5.29 -306.98 -1.62 -30.79 16 10 C 0.44 20.51 7.82 87.66 0.69 21.20 16 11 O -0.62 -34.35 15.78 -3.06 -0.05 -34.40 16 12 C 0.07 2.20 6.01 85.56 0.51 2.72 16 13 N -0.66 -19.77 6.19 -492.55 -3.05 -22.81 16 14 C 0.06 1.20 4.28 45.50 0.19 1.40 16 15 H 0.09 1.78 7.87 -2.38 -0.02 1.76 16 16 C -0.11 -1.98 7.44 31.12 0.23 -1.75 16 17 C -0.11 -1.85 3.51 -10.26 -0.04 -1.88 16 18 H 0.09 1.67 8.08 -2.39 -0.02 1.65 16 19 C 0.13 2.09 5.50 86.38 0.47 2.57 16 20 N -0.70 -11.67 5.55 -466.05 -2.59 -14.26 16 21 C 0.60 11.78 7.82 86.76 0.68 12.46 16 22 O -0.55 -13.51 16.81 -3.93 -0.07 -13.57 16 23 C -0.01 -0.10 6.81 41.98 0.29 0.18 16 24 C 0.09 1.31 11.22 85.22 0.96 2.26 16 25 N -0.60 -8.72 11.41 -92.44 -1.05 -9.77 16 26 S 0.79 8.42 23.69 -56.49 -1.34 7.09 16 27 N -0.57 -8.74 11.00 -80.57 -0.89 -9.63 16 28 C -0.15 -2.54 7.17 31.18 0.22 -2.32 16 29 H 0.28 13.97 8.31 -92.71 -0.77 13.20 16 30 H 0.40 19.12 7.90 -92.71 -0.73 18.39 16 31 H 0.10 3.11 8.13 -2.39 -0.02 3.09 16 32 H 0.07 1.93 8.14 -2.39 -0.02 1.91 16 33 H 0.34 10.83 7.82 -89.69 -0.70 10.13 16 34 H 0.07 1.40 8.14 -2.39 -0.02 1.38 16 35 H 0.11 1.41 8.10 -2.39 -0.02 1.39 16 36 H 0.08 1.18 7.88 -2.39 -0.02 1.16 16 37 H 0.07 1.18 8.14 -2.39 -0.02 1.16 16 38 H 0.41 6.37 8.06 -92.71 -0.75 5.62 16 39 H 0.23 2.53 8.06 -2.91 -0.02 2.51 16 40 H 0.10 1.38 7.92 -2.39 -0.02 1.36 16 41 H 0.06 1.13 8.07 -2.39 -0.02 1.11 16 Total: -1.00 -71.50 370.16 -3.92 -75.42 By element: Atomic # 1 Polarization: 39.67 SS G_CDS: -1.07 Total: 38.60 kcal Atomic # 6 Polarization: 12.96 SS G_CDS: 5.49 Total: 18.45 kcal Atomic # 7 Polarization: -127.37 SS G_CDS: -8.92 Total: -136.29 kcal Atomic # 8 Polarization: -47.86 SS G_CDS: -0.11 Total: -47.97 kcal Atomic # 14 Polarization: 42.69 SS G_CDS: 2.03 Total: 44.71 kcal Atomic # 16 Polarization: 8.42 SS G_CDS: -1.34 Total: 7.09 kcal Total: -71.50 -3.92 -75.42 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. ZINC001707076853.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 58.629 kcal (2) G-P(sol) polarization free energy of solvation -71.497 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -12.868 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.918 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.415 kcal (6) G-S(sol) free energy of system = (1) + (5) -16.786 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.59 seconds