Wall clock time and date at job start Tue Mar 31 2020 15:03:05 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 1.31511 * 1 3 3 Si 1.86793 * 120.00213 * 2 1 4 4 H 1.48495 * 109.47396 * 240.00321 * 3 2 1 5 5 H 1.48499 * 109.47080 * 0.02562 * 3 2 1 6 6 H 1.48502 * 109.47053 * 119.99834 * 3 2 1 7 7 C 1.37879 * 119.99860 * 180.02562 * 2 1 3 8 8 H 1.08002 * 120.00240 * 179.97438 * 7 2 1 9 9 C 1.50700 * 120.00064 * 0.02562 * 7 2 1 10 10 C 1.52994 * 109.47203 * 180.02562 * 9 7 2 11 11 S 1.81404 * 109.47465 * 179.97438 * 10 9 7 12 12 O 1.42096 * 110.54309 * 64.12174 * 11 10 9 13 13 O 1.42099 * 110.53860 * 287.37461 * 11 10 9 14 14 N 1.65593 * 104.45238 * 175.74974 * 11 10 9 15 15 C 1.46503 * 120.00199 * 64.00227 * 14 11 10 16 16 H 1.08995 * 109.47111 * 333.38028 * 15 14 11 17 17 C 1.52997 * 109.47455 * 213.37069 * 15 14 11 18 18 C 1.50699 * 109.46798 * 64.55622 * 17 15 14 19 19 O 1.20819 * 120.00298 * 6.01118 * 18 17 15 20 20 O 1.34233 * 119.99944 * 186.01295 * 18 17 15 21 21 C 1.50705 * 109.46909 * 93.37157 * 15 14 11 22 22 C 1.38222 * 119.61925 * 245.00386 * 21 15 14 23 23 C 1.38630 * 119.16377 * 179.97438 * 22 21 15 24 24 C 1.38677 * 118.41840 * 359.97438 * 23 22 21 25 25 C 1.38185 * 119.16213 * 0.27448 * 24 23 22 26 26 N 1.31857 * 119.61744 * 64.97782 * 21 15 14 27 27 H 0.96999 * 120.00067 * 359.97438 * 1 2 3 28 28 H 1.09003 * 109.47222 * 59.99880 * 9 7 2 29 29 H 1.09002 * 109.47015 * 299.99739 * 9 7 2 30 30 H 1.08999 * 109.47445 * 59.99418 * 10 9 7 31 31 H 1.09001 * 109.47352 * 299.99512 * 10 9 7 32 32 H 0.96998 * 120.00273 * 244.00622 * 14 11 10 33 33 H 1.08998 * 109.47264 * 184.55759 * 17 15 14 34 34 H 1.09004 * 109.47114 * 304.55950 * 17 15 14 35 35 H 0.96704 * 117.00109 * 180.02562 * 20 18 17 36 36 H 1.08003 * 120.42139 * 359.95257 * 22 21 15 37 37 H 1.08001 * 120.79190 * 180.02562 * 23 22 21 38 38 H 1.07996 * 120.41797 * 180.02562 * 24 23 22 39 39 H 1.07992 * 119.61587 * 179.70237 * 25 24 23 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 1.3151 0.0000 0.0000 3 14 2.2491 1.6176 0.0000 4 1 3.1028 1.6964 -1.2125 5 1 1.2842 2.7464 0.0006 6 1 3.1029 1.6963 1.2125 7 6 2.0045 -1.1941 -0.0005 8 1 3.0845 -1.1942 -0.0010 9 6 1.2510 -2.4992 -0.0017 10 6 2.2451 -3.6621 -0.0015 11 16 1.3382 -5.2331 -0.0021 12 8 0.5864 -5.3744 -1.1996 13 8 0.7442 -5.4664 1.2676 14 7 2.5165 -6.3905 -0.1206 15 6 3.4996 -6.5478 0.9541 16 1 3.6212 -5.5992 1.4770 17 6 4.8418 -6.9779 0.3588 18 6 5.3747 -5.8791 -0.5242 19 8 4.8024 -4.8164 -0.5783 20 8 6.4853 -6.0810 -1.2505 21 6 3.0205 -7.5976 1.9234 22 6 2.7112 -7.2384 3.2218 23 6 2.2709 -8.2117 4.1054 24 6 2.1571 -9.5158 3.6477 25 6 2.4895 -9.8008 2.3370 26 7 2.9008 -8.8482 1.5229 27 1 -0.4850 0.8400 0.0004 28 1 0.6246 -2.5563 -0.8920 29 1 0.6240 -2.5575 0.8880 30 1 2.8712 -3.6048 0.8890 31 1 2.8724 -3.6040 -0.8910 32 1 2.5559 -6.9644 -0.9016 33 1 5.5504 -7.1732 1.1636 34 1 4.7038 -7.8837 -0.2316 35 1 6.7891 -5.3466 -1.8016 36 1 2.8117 -6.2125 3.5441 37 1 2.0216 -7.9601 5.1257 38 1 1.8168 -10.2994 4.3083 39 1 2.4082 -10.8147 1.9742 RHF calculation, no. of doubly occupied orbitals= 58 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 ZINC001116663105.mol2 39 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 15:03:05 Heat of formation + Delta-G solvation = -166.844253 kcal Electronic energy + Delta-G solvation = -26321.854999 eV Core-core repulsion = 22355.137559 eV Total energy + Delta-G solvation = -3966.717440 eV No. of doubly occupied orbitals = 58 Molecular weight (most abundant/longest-lived isotopes) = 328.097 amu Computer time = 0.79 seconds Orbital eigenvalues (eV) -41.51587 -40.82026 -38.20021 -37.54760 -37.02550 -36.60339 -35.87776 -33.28004 -33.10291 -32.31166 -31.12240 -27.57676 -26.33825 -24.42858 -23.58256 -23.13214 -21.75730 -20.42091 -19.19667 -19.07237 -18.46529 -18.08642 -17.46876 -17.15616 -17.02052 -16.77923 -16.73060 -16.52245 -16.18853 -15.95191 -15.09442 -14.73421 -14.53759 -14.45099 -14.24902 -13.89553 -13.79761 -13.62909 -13.22534 -13.14416 -12.93386 -12.89276 -12.75851 -12.71389 -12.55754 -12.39187 -12.16391 -12.12632 -11.74934 -11.49876 -11.28718 -10.77236 -10.69808 -10.63236 -10.23519 -9.92508 -8.24975 -6.38604 -0.68909 0.17717 0.43115 1.34293 1.39456 1.43653 1.51893 1.80265 2.15531 2.38494 2.76622 2.89020 3.07719 3.24772 3.29084 3.56960 3.79870 3.98894 4.08021 4.13230 4.16687 4.28857 4.31172 4.32158 4.59864 4.68360 4.70819 4.78272 4.86855 4.93107 5.27984 5.28496 5.31970 5.34841 5.68681 5.78871 5.82998 6.02205 6.09230 6.74064 7.05752 7.10884 7.30811 8.87322 Molecular weight = 328.10amu Principal moments of inertia in cm(-1) A = 0.013546 B = 0.004007 C = 0.003532 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2066.566373 B = 6986.048390 C = 7925.241522 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.935 5.935 2 C -0.003 4.003 3 Si 0.974 3.026 4 H -0.265 1.265 5 H -0.282 1.282 6 H -0.262 1.262 7 C -0.536 4.536 8 H 0.071 0.929 9 C 0.023 3.977 10 C -0.568 4.568 11 S 2.614 3.386 12 O -1.004 7.004 13 O -0.987 6.987 14 N -1.093 6.093 15 C 0.213 3.787 16 H 0.108 0.892 17 C -0.103 4.103 18 C 0.479 3.521 19 O -0.536 6.536 20 O -0.514 6.514 21 C 0.093 3.907 22 C -0.163 4.163 23 C -0.083 4.083 24 C -0.165 4.165 25 C 0.082 3.918 26 N -0.484 5.484 27 H 0.267 0.733 28 H 0.002 0.998 29 H 0.007 0.993 30 H 0.135 0.865 31 H 0.137 0.863 32 H 0.424 0.576 33 H 0.146 0.854 34 H 0.135 0.865 35 H 0.426 0.574 36 H 0.139 0.861 37 H 0.157 0.843 38 H 0.165 0.835 39 H 0.183 0.817 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 14.307 -20.986 5.969 26.091 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 -0.574 5.574 2 C -0.201 4.201 3 Si 0.797 3.203 4 H -0.190 1.190 5 H -0.207 1.207 6 H -0.187 1.187 7 C -0.575 4.575 8 H 0.089 0.911 9 C -0.016 4.016 10 C -0.700 4.700 11 S 2.711 3.289 12 O -0.994 6.994 13 O -0.977 6.977 14 N -0.853 5.853 15 C 0.105 3.895 16 H 0.126 0.874 17 C -0.142 4.142 18 C 0.322 3.678 19 O -0.426 6.426 20 O -0.328 6.328 21 C -0.046 4.046 22 C -0.184 4.184 23 C -0.109 4.109 24 C -0.185 4.185 25 C -0.075 4.075 26 N -0.193 5.193 27 H 0.076 0.924 28 H 0.021 0.979 29 H 0.025 0.975 30 H 0.153 0.847 31 H 0.155 0.845 32 H 0.261 0.739 33 H 0.163 0.837 34 H 0.153 0.847 35 H 0.288 0.712 36 H 0.157 0.843 37 H 0.175 0.825 38 H 0.183 0.817 39 H 0.199 0.801 Dipole moment (debyes) X Y Z Total from point charges 13.130 -21.204 5.522 25.544 hybrid contribution 0.319 1.854 0.012 1.882 sum 13.449 -19.350 5.534 24.205 Atomic orbital electron populations 1.70098 1.08026 1.28355 1.50941 1.26110 0.95869 1.03790 0.94366 0.85366 0.78165 0.77300 0.79427 1.18999 1.20704 1.18669 1.21437 0.93783 0.90790 1.51462 0.91069 1.18822 0.93479 0.93236 0.96082 1.30192 1.11876 1.15752 1.12205 1.04668 0.74555 0.76656 0.73009 1.93487 1.70074 1.86465 1.49405 1.93506 1.75464 1.84639 1.44044 1.55331 1.48457 1.51380 1.30105 1.19531 0.87259 0.96848 0.85842 0.87393 1.21571 0.95210 0.97137 1.00236 1.23564 0.77624 0.88339 0.78260 1.90826 1.58674 1.28857 1.64251 1.84459 1.42023 1.49586 1.56703 1.21320 0.98117 0.92392 0.92746 1.22222 0.99778 1.01823 0.94536 1.21956 0.94928 0.93000 1.01051 1.22543 1.00122 0.97939 0.97884 1.23281 0.94350 0.99249 0.90611 1.67345 1.13358 1.00604 1.38024 0.92377 0.97931 0.97466 0.84661 0.84518 0.73920 0.83654 0.84685 0.71197 0.84320 0.82518 0.81708 0.80055 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 -0.93 -58.30 13.29 21.45 0.28 -58.02 16 2 C 0.00 -0.18 5.46 84.66 0.46 0.28 16 3 Si 0.97 44.56 29.54 68.60 2.03 46.59 16 4 H -0.27 -11.60 7.11 99.48 0.71 -10.90 16 5 H -0.28 -12.58 7.11 99.48 0.71 -11.88 16 6 H -0.26 -11.33 7.11 99.48 0.71 -10.63 16 7 C -0.54 -31.14 9.11 25.60 0.23 -30.91 16 8 H 0.07 3.89 7.74 -2.91 -0.02 3.87 16 9 C 0.02 1.26 4.98 29.85 0.15 1.41 16 10 C -0.57 -24.04 4.67 71.98 0.34 -23.70 16 11 S 2.61 102.34 5.39 -56.49 -0.30 102.03 16 12 O -1.00 -46.27 18.08 -127.65 -2.31 -48.58 16 13 O -0.99 -42.37 17.70 -127.65 -2.26 -44.63 16 14 N -1.09 -30.42 4.62 -172.52 -0.80 -31.22 16 15 C 0.21 4.82 1.96 44.25 0.09 4.91 16 16 H 0.11 2.44 6.63 -2.39 -0.02 2.42 16 17 C -0.10 -1.58 5.22 29.85 0.16 -1.42 16 18 C 0.48 9.08 8.14 71.24 0.58 9.66 16 19 O -0.54 -14.52 13.65 21.99 0.30 -14.22 16 20 O -0.51 -7.22 13.42 -51.44 -0.69 -7.91 16 21 C 0.09 2.15 5.62 42.55 0.24 2.39 16 22 C -0.16 -3.64 9.71 22.36 0.22 -3.43 16 23 C -0.08 -1.47 10.18 22.47 0.23 -1.25 16 24 C -0.17 -2.43 10.11 22.36 0.23 -2.21 16 25 C 0.08 1.38 11.18 84.67 0.95 2.33 16 26 N -0.48 -10.42 9.97 -183.89 -1.83 -12.25 16 27 H 0.27 15.57 8.31 -92.71 -0.77 14.80 16 28 H 0.00 0.14 8.14 -2.39 -0.02 0.12 16 29 H 0.01 0.41 8.14 -2.39 -0.02 0.39 16 30 H 0.14 5.13 7.50 -2.39 -0.02 5.12 16 31 H 0.14 5.61 6.83 -2.39 -0.02 5.60 16 32 H 0.42 10.20 8.78 -96.75 -0.85 9.35 16 33 H 0.15 1.46 8.14 -2.39 -0.02 1.44 16 34 H 0.14 1.77 8.07 -2.38 -0.02 1.75 16 35 H 0.43 3.34 9.10 -74.05 -0.67 2.67 16 36 H 0.14 2.95 7.95 -2.91 -0.02 2.93 16 37 H 0.16 1.96 8.06 -2.91 -0.02 1.94 16 38 H 0.17 1.29 8.06 -2.91 -0.02 1.27 16 39 H 0.18 1.87 8.06 -2.91 -0.02 1.85 16 Total: -1.00 -85.89 352.82 -2.14 -88.03 By element: Atomic # 1 Polarization: 22.52 SS G_CDS: -0.42 Total: 22.11 kcal Atomic # 6 Polarization: -45.79 SS G_CDS: 3.86 Total: -41.93 kcal Atomic # 7 Polarization: -99.14 SS G_CDS: -2.34 Total: -101.48 kcal Atomic # 8 Polarization: -110.39 SS G_CDS: -4.96 Total: -115.34 kcal Atomic # 14 Polarization: 44.56 SS G_CDS: 2.03 Total: 46.59 kcal Atomic # 16 Polarization: 102.34 SS G_CDS: -0.30 Total: 102.03 kcal Total: -85.89 -2.14 -88.03 kcal The number of atoms in the molecule is 39 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. ZINC001116663105.mol2 39 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 -78.817 kcal (2) G-P(sol) polarization free energy of solvation -85.890 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -164.706 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.138 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -88.027 kcal (6) G-S(sol) free energy of system = (1) + (5) -166.844 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.79 seconds