Wall clock time and date at job start Sat Apr 11 2020 04:55:38 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 1.52998 * 1 3 3 H 1.09002 * 109.47077 * 2 1 4 4 C 1.50697 * 109.46793 * 240.00039 * 2 1 3 5 5 H 1.08006 * 120.00101 * 245.46547 * 4 2 1 6 6 C 1.37874 * 120.00311 * 65.46379 * 4 2 1 7 7 N 1.31514 * 120.00099 * 9.65009 * 6 4 2 8 8 Si 1.86797 * 120.00314 * 189.64790 * 6 4 2 9 9 H 1.48506 * 109.46965 * 84.99700 * 8 6 4 10 10 H 1.48497 * 109.47546 * 204.99604 * 8 6 4 11 11 H 1.48501 * 109.47460 * 324.99612 * 8 6 4 12 12 C 1.50698 * 109.47312 * 120.00007 * 2 1 3 13 13 O 1.21277 * 119.99760 * 119.99867 * 12 2 1 14 14 N 1.34773 * 119.99843 * 299.72126 * 12 2 1 15 15 C 1.46505 * 119.99794 * 180.27453 * 14 12 2 16 16 H 1.08999 * 112.85258 * 336.19913 * 15 14 12 17 17 C 1.53784 * 113.61146 * 107.50857 * 15 14 12 18 18 C 1.53779 * 87.08118 * 89.11437 * 17 15 14 19 19 H 1.09000 * 113.69178 * 270.86906 * 18 17 15 20 20 S 1.81399 * 113.61172 * 139.98040 * 18 17 15 21 21 O 1.42102 * 110.54607 * 194.12489 * 20 18 17 22 22 O 1.42105 * 110.54423 * 330.87913 * 20 18 17 23 23 C 1.76209 * 104.45253 * 82.50086 * 20 18 17 24 24 C 1.38234 * 119.99708 * 269.73190 * 23 20 18 25 25 C 1.38236 * 119.99622 * 179.74365 * 24 23 20 26 26 C 1.38234 * 119.99901 * 0.54283 * 25 24 23 27 27 C 1.38236 * 120.00183 * 359.70693 * 26 25 24 28 28 C 1.38235 * 120.00028 * 0.02562 * 27 26 25 29 29 C 1.53775 * 87.08253 * 25.43259 * 18 17 15 30 30 H 1.09008 * 109.47176 * 183.69624 * 1 2 3 31 31 H 1.09005 * 109.47313 * 303.69252 * 1 2 3 32 32 H 1.08997 * 109.47280 * 63.69068 * 1 2 3 33 33 H 0.96998 * 120.00768 * 179.97438 * 7 6 4 34 34 H 0.96997 * 120.00470 * 0.28306 * 14 12 2 35 35 H 1.09001 * 113.61133 * 203.66627 * 17 15 14 36 36 H 1.08994 * 113.61396 * 334.56069 * 17 15 14 37 37 H 1.08002 * 120.00499 * 359.97438 * 24 23 20 38 38 H 1.08005 * 119.99913 * 180.26982 * 25 24 23 39 39 H 1.07998 * 119.99877 * 179.72818 * 26 25 24 40 40 H 1.08002 * 120.00363 * 180.02562 * 27 26 25 41 41 H 1.07992 * 120.00333 * 179.97438 * 28 27 26 42 42 H 1.09005 * 113.61369 * 220.01473 * 29 18 17 43 43 H 1.09001 * 113.61780 * 89.11892 * 29 18 17 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 1.8933 1.0277 0.0000 4 6 2.0322 -0.7104 -1.2305 5 1 2.5784 -1.6372 -1.1339 6 6 1.7945 -0.1774 -2.4796 7 7 1.3010 1.0363 -2.5936 8 14 2.1735 -1.1790 -4.0101 9 1 1.0199 -2.0603 -4.3231 10 1 2.4209 -0.2631 -5.1525 11 1 3.3808 -2.0100 -3.7716 12 6 2.0324 -0.7104 1.2304 13 8 2.7296 -1.6964 1.1191 14 7 1.7114 -0.2466 2.4545 15 6 2.2048 -0.9338 3.6506 16 1 2.4478 -1.9804 3.4676 17 6 3.3101 -0.1632 4.3918 18 6 2.1881 0.5264 5.1857 19 1 1.8157 1.4371 4.7166 20 16 2.5723 0.7466 6.9448 21 8 1.3989 1.0807 7.6735 22 8 3.4481 -0.2775 7.3960 23 6 3.5506 2.2110 7.0014 24 6 4.9263 2.1276 6.8949 25 6 5.6934 3.2770 6.9340 26 6 5.0856 4.5086 7.0908 27 6 3.7103 4.5914 7.2025 28 6 2.9427 3.4426 7.1579 29 6 1.3267 -0.7135 4.8938 30 1 -0.3634 -1.0256 0.0663 31 1 -0.3634 0.5701 0.8551 32 1 -0.3634 0.4555 -0.9212 33 1 1.1341 1.4115 -3.4723 34 1 1.1537 0.5419 2.5436 35 1 3.9506 -0.7988 5.0033 36 1 3.8732 0.5160 3.7518 37 1 5.4016 1.1650 6.7774 38 1 6.7680 3.2122 6.8463 39 1 5.6853 5.4061 7.1258 40 1 3.2354 5.5537 7.3247 41 1 1.8683 3.5073 7.2456 42 1 0.2885 -0.4786 4.6591 43 1 1.4249 -1.4996 5.6426 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 ZINC000871401039.mol2 43 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sat Apr 11 2020 04:55:38 Heat of formation + Delta-G solvation = -85.122619 kcal Electronic energy + Delta-G solvation = -26548.986412 eV Core-core repulsion = 22686.157031 eV Total energy + Delta-G solvation = -3862.829381 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 337.118 amu Computer time = 0.76 seconds Orbital eigenvalues (eV) -41.14687 -40.01158 -39.24880 -38.17927 -37.04706 -35.70881 -34.18956 -32.31703 -32.25309 -31.97534 -27.20630 -27.01188 -26.87702 -24.54416 -24.05792 -23.68953 -21.40626 -20.93346 -19.85387 -19.03757 -18.31317 -18.17841 -17.54703 -16.96203 -16.92740 -16.84196 -16.37181 -15.89655 -15.73748 -15.49798 -15.29989 -14.72281 -14.47405 -14.46875 -14.17551 -13.95980 -13.76646 -13.69575 -13.50169 -13.21371 -13.20096 -13.09169 -12.93149 -12.79605 -12.56732 -12.25625 -12.19647 -12.04361 -11.99479 -11.92871 -11.70737 -11.17078 -11.06051 -10.52826 -10.35870 -10.31199 -10.01900 -9.96063 -8.18824 -6.23458 -0.96498 -0.14515 0.32510 1.41038 1.42254 1.52546 1.81457 1.92468 2.30735 2.45226 2.50422 2.76152 2.92281 3.13955 3.14541 3.42791 3.67381 3.85832 3.92780 3.97740 4.12131 4.29786 4.40767 4.45333 4.51540 4.56262 4.63321 4.73408 4.75360 4.78903 4.89954 4.92976 4.98037 4.98495 5.05862 5.11110 5.29192 5.40722 5.50083 5.65614 5.74987 5.86526 5.89022 6.19127 6.75809 6.88735 7.40895 7.56349 8.90485 Molecular weight = 337.12amu Principal moments of inertia in cm(-1) A = 0.016813 B = 0.002629 C = 0.002473 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1664.939093 B =10646.073703 C =11317.830818 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.115 4.115 2 C 0.023 3.977 3 H 0.046 0.954 4 C -0.530 4.530 5 H 0.048 0.952 6 C 0.023 3.977 7 N -0.911 5.911 8 Si 0.949 3.051 9 H -0.273 1.273 10 H -0.278 1.278 11 H -0.279 1.279 12 C 0.526 3.474 13 O -0.583 6.583 14 N -0.707 5.707 15 C 0.120 3.880 16 H 0.092 0.908 17 C -0.126 4.126 18 C -0.578 4.578 19 H 0.178 0.822 20 S 2.512 3.488 21 O -0.966 6.966 22 O -0.962 6.962 23 C -0.667 4.667 24 C -0.042 4.042 25 C -0.149 4.149 26 C -0.069 4.069 27 C -0.147 4.147 28 C -0.043 4.043 29 C -0.114 4.114 30 H 0.030 0.970 31 H 0.060 0.940 32 H 0.050 0.950 33 H 0.265 0.735 34 H 0.412 0.588 35 H 0.119 0.881 36 H 0.089 0.911 37 H 0.145 0.855 38 H 0.153 0.847 39 H 0.158 0.842 40 H 0.156 0.844 41 H 0.149 0.851 42 H 0.115 0.885 43 H 0.119 0.881 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 2.872 8.628 21.745 23.570 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 -0.173 4.173 2 C 0.002 3.998 3 H 0.064 0.936 4 C -0.569 4.569 5 H 0.067 0.933 6 C -0.176 4.176 7 N -0.550 5.550 8 Si 0.775 3.225 9 H -0.198 1.198 10 H -0.203 1.203 11 H -0.204 1.204 12 C 0.315 3.685 13 O -0.462 6.462 14 N -0.360 5.360 15 C 0.013 3.987 16 H 0.110 0.890 17 C -0.166 4.166 18 C -0.689 4.689 19 H 0.196 0.804 20 S 2.697 3.303 21 O -0.964 6.964 22 O -0.959 6.959 23 C -0.755 4.755 24 C -0.061 4.061 25 C -0.168 4.168 26 C -0.087 4.087 27 C -0.165 4.165 28 C -0.062 4.062 29 C -0.153 4.153 30 H 0.049 0.951 31 H 0.078 0.922 32 H 0.070 0.930 33 H 0.074 0.926 34 H 0.249 0.751 35 H 0.138 0.862 36 H 0.108 0.892 37 H 0.163 0.837 38 H 0.171 0.829 39 H 0.175 0.825 40 H 0.174 0.826 41 H 0.167 0.833 42 H 0.134 0.866 43 H 0.137 0.863 Dipole moment (debyes) X Y Z Total from point charges 3.067 7.564 22.270 23.719 hybrid contribution 0.334 0.514 -1.516 1.635 sum 3.401 8.078 20.754 22.529 Atomic orbital electron populations 1.21519 0.95084 0.99470 1.01265 1.18814 0.95143 0.96308 0.89584 0.93605 1.21268 1.35924 1.08374 0.91306 0.93335 1.25544 0.95153 0.95574 1.01367 1.70009 1.45761 1.14620 1.24627 0.85710 0.78585 0.78902 0.79321 1.19805 1.20279 1.20412 1.21511 0.78041 0.83496 0.85454 1.90520 1.39673 1.28604 1.87399 1.45657 1.54031 1.32285 1.04016 1.21700 0.95052 0.97529 0.84430 0.88960 1.23271 0.95460 0.99475 0.98368 1.31634 1.08019 1.08583 1.20662 0.80427 1.04804 0.73783 0.73949 0.77720 1.93519 1.49321 1.83976 1.69540 1.93525 1.65960 1.57044 1.79410 1.30415 1.08008 1.17888 1.19192 1.21222 0.91830 1.00701 0.92316 1.21684 1.01705 0.92448 1.00919 1.21928 0.95316 0.98879 0.92574 1.21694 0.94598 0.99412 1.00827 1.21254 1.01377 0.91244 0.92305 1.23172 1.00471 0.94071 0.97584 0.95062 0.92163 0.93048 0.92635 0.75111 0.86243 0.89245 0.83737 0.82944 0.82450 0.82605 0.83324 0.86644 0.86281 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 C -0.12 -4.86 8.94 71.98 0.64 -4.22 16 2 C 0.02 1.09 2.50 -12.29 -0.03 1.06 16 3 H 0.05 2.30 8.09 -2.39 -0.02 2.28 16 4 C -0.53 -29.99 8.28 25.60 0.21 -29.78 16 5 H 0.05 2.95 6.79 -2.91 -0.02 2.93 16 6 C 0.02 1.28 5.17 84.65 0.44 1.72 16 7 N -0.91 -50.54 12.17 21.45 0.26 -50.28 16 8 Si 0.95 44.24 29.55 68.60 2.03 46.27 16 9 H -0.27 -12.34 7.11 99.48 0.71 -11.63 16 10 H -0.28 -12.39 7.11 99.48 0.71 -11.68 16 11 H -0.28 -13.18 7.11 99.48 0.71 -12.47 16 12 C 0.53 22.51 7.15 87.66 0.63 23.14 16 13 O -0.58 -29.62 15.07 -3.02 -0.05 -29.67 16 14 N -0.71 -21.03 5.17 -440.03 -2.27 -23.30 16 15 C 0.12 2.97 4.32 45.52 0.20 3.17 16 16 H 0.09 2.67 7.46 -2.39 -0.02 2.65 16 17 C -0.13 -2.54 7.44 31.12 0.23 -2.31 16 18 C -0.58 -9.24 4.19 31.12 0.13 -9.11 16 19 H 0.18 2.02 8.14 -2.39 -0.02 2.00 16 20 S 2.51 48.92 5.13 -56.49 -0.29 48.63 16 21 O -0.97 -23.65 17.13 -127.65 -2.19 -25.83 16 22 O -0.96 -23.66 16.30 -127.65 -2.08 -25.74 16 23 C -0.67 -12.38 5.66 22.27 0.13 -12.25 16 24 C -0.04 -0.74 9.47 22.27 0.21 -0.52 16 25 C -0.15 -2.10 10.05 22.27 0.22 -1.88 16 26 C -0.07 -0.84 10.05 22.27 0.22 -0.61 16 27 C -0.15 -1.93 10.05 22.27 0.22 -1.71 16 28 C -0.04 -0.71 9.47 22.27 0.21 -0.50 16 29 C -0.11 -1.93 7.42 31.12 0.23 -1.70 16 30 H 0.03 1.30 8.14 -2.38 -0.02 1.28 16 31 H 0.06 1.97 7.68 -2.38 -0.02 1.95 16 32 H 0.05 2.42 6.83 -2.39 -0.02 2.41 16 33 H 0.26 13.94 8.31 -92.71 -0.77 13.17 16 34 H 0.41 9.73 8.20 -92.71 -0.76 8.97 16 35 H 0.12 2.19 7.43 -2.39 -0.02 2.17 16 36 H 0.09 1.89 8.14 -2.39 -0.02 1.87 16 37 H 0.14 2.30 7.56 -2.91 -0.02 2.28 16 38 H 0.15 1.40 8.06 -2.91 -0.02 1.38 16 39 H 0.16 0.94 8.06 -2.91 -0.02 0.92 16 40 H 0.16 1.20 8.06 -2.91 -0.02 1.17 16 41 H 0.15 2.08 7.57 -2.91 -0.02 2.06 16 42 H 0.12 1.59 8.14 -2.38 -0.02 1.58 16 43 H 0.12 1.67 8.10 -2.39 -0.02 1.65 16 Total: -1.00 -78.09 372.74 -0.42 -78.52 By element: Atomic # 1 Polarization: 16.66 SS G_CDS: 0.27 Total: 16.93 kcal Atomic # 6 Polarization: -39.41 SS G_CDS: 3.90 Total: -35.51 kcal Atomic # 7 Polarization: -71.57 SS G_CDS: -2.01 Total: -73.58 kcal Atomic # 8 Polarization: -76.93 SS G_CDS: -4.31 Total: -81.25 kcal Atomic # 14 Polarization: 44.24 SS G_CDS: 2.03 Total: 46.27 kcal Atomic # 16 Polarization: 48.92 SS G_CDS: -0.29 Total: 48.63 kcal Total: -78.09 -0.42 -78.52 kcal The number of atoms in the molecule is 43 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. ZINC000871401039.mol2 43 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 -6.606 kcal (2) G-P(sol) polarization free energy of solvation -78.095 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -84.701 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.422 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.517 kcal (6) G-S(sol) free energy of system = (1) + (5) -85.123 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.76 seconds