Wall clock time and date at job start Sat Apr 11 2020 08:13:11 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 1.31622 * 1 3 3 Si 1.86795 * 120.00184 * 2 1 4 4 H 1.48500 * 109.46651 * 180.02562 * 3 2 1 5 5 H 1.48507 * 109.46828 * 299.99869 * 3 2 1 6 6 H 1.48497 * 109.47433 * 60.00037 * 3 2 1 7 7 C 1.38815 * 119.99483 * 179.97438 * 2 1 3 8 8 H 1.07996 * 119.99757 * 179.97438 * 7 2 1 9 9 N 1.36937 * 119.99959 * 0.02562 * 7 2 1 10 10 C 1.46506 * 119.99708 * 179.97438 * 9 7 2 11 11 H 1.08996 * 112.84606 * 336.18871 * 10 9 7 12 12 C 1.53775 * 113.61531 * 107.50072 * 10 9 7 13 13 C 1.53779 * 87.08045 * 139.98093 * 12 10 9 14 14 H 1.08995 * 113.69231 * 89.12767 * 13 12 10 15 15 C 1.53004 * 113.61498 * 220.01756 * 13 12 10 16 16 N 1.46502 * 109.47200 * 272.50222 * 15 13 12 17 17 C 1.34769 * 120.00019 * 180.02562 * 16 15 13 18 18 O 1.21723 * 120.00176 * 359.97438 * 17 16 15 19 19 C 1.46439 * 120.00100 * 179.97438 * 17 16 15 20 20 C 1.36857 * 126.11473 * 179.97438 * 19 17 16 21 21 N 1.30660 * 114.05149 * 179.97438 * 20 19 17 22 22 C 1.30438 * 117.26904 * 0.02562 * 21 20 19 23 23 C 1.47628 * 124.75418 * 179.97438 * 22 21 20 24 24 C 1.46921 * 127.16616 * 359.67904 * 23 22 21 25 25 C 1.34256 * 106.00054 * 179.82968 * 24 23 22 26 26 O 1.34183 * 109.08963 * 0.44158 * 25 24 23 27 27 C 1.33915 * 110.83746 * 359.70517 * 26 25 24 28 28 S 1.70923 * 110.48739 * 359.72169 * 22 21 20 29 29 C 1.53779 * 87.08153 * 334.56518 * 13 12 10 30 30 H 0.97000 * 119.99481 * 359.97438 * 1 2 3 31 31 H 0.97000 * 120.00175 * 359.97438 * 9 7 2 32 32 H 1.09007 * 113.61519 * 254.52700 * 12 10 9 33 33 H 1.08996 * 113.61809 * 25.43059 * 12 10 9 34 34 H 1.09006 * 109.46988 * 32.49484 * 15 13 12 35 35 H 1.08990 * 109.47387 * 152.49751 * 15 13 12 36 36 H 0.97007 * 120.00089 * 359.97438 * 16 15 13 37 37 H 1.07998 * 122.97078 * 0.03577 * 20 19 17 38 38 H 1.08007 * 127.00117 * 359.97438 * 24 23 22 39 39 H 1.08003 * 125.45461 * 180.14264 * 25 24 23 40 40 H 1.08003 * 125.79627 * 180.02562 * 27 26 25 41 41 H 1.09003 * 113.61486 * 270.88670 * 29 13 12 42 42 H 1.08993 * 113.69047 * 139.99324 * 29 13 12 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 1.3162 0.0000 0.0000 3 14 2.2502 1.6177 0.0000 4 1 3.7102 1.3461 -0.0006 5 1 1.8915 2.3963 -1.2126 6 1 1.8916 2.3964 1.2125 7 6 2.0102 -1.2022 0.0005 8 1 3.0901 -1.2023 0.0001 9 7 1.3254 -2.3881 0.0005 10 6 2.0579 -3.6569 0.0005 11 1 3.0653 -3.5639 -0.4050 12 6 1.9989 -4.4022 1.3443 13 6 1.8477 -5.6976 0.5295 14 1 2.7975 -6.1647 0.2692 15 6 0.8446 -6.6852 1.1290 16 7 1.5257 -7.5432 2.1018 17 6 0.8357 -8.4956 2.7599 18 8 -0.3536 -8.6426 2.5464 19 6 1.5167 -9.3535 3.7317 20 6 0.9412 -10.3540 4.4672 21 7 1.7703 -10.9726 5.2654 22 6 3.0116 -10.5721 5.2647 23 6 4.0833 -11.1513 6.0986 24 6 3.9598 -12.2516 7.0643 25 6 5.1873 -12.4340 7.5765 26 8 6.0300 -11.5488 7.0226 27 6 5.3915 -10.7730 6.1372 28 16 3.2250 -9.2872 4.1578 29 6 1.2598 -4.8288 -0.5949 30 1 -0.4849 0.8401 0.0004 31 1 0.3554 -2.3880 0.0005 32 1 2.9271 -4.3503 1.9135 33 1 1.1207 -4.1570 1.9415 34 1 0.0459 -6.1349 1.6266 35 1 0.4217 -7.3006 0.3351 36 1 2.4736 -7.4263 2.2716 37 1 -0.1054 -10.6101 4.3935 38 1 3.0643 -12.8031 7.3103 39 1 5.4530 -13.1717 8.3193 40 1 5.8379 -9.9821 5.5528 41 1 0.1795 -4.7002 -0.5279 42 1 1.5903 -5.1203 -1.5918 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC001086218095.mol2 42 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 08:13:11 Heat of formation + Delta-G solvation = 32.691841 kcal Electronic energy + Delta-G solvation = -25623.643151 eV Core-core repulsion = 21697.300677 eV Total energy + Delta-G solvation = -3926.342473 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 347.109 amu Computer time = 0.66 seconds Orbital eigenvalues (eV) -43.42803 -41.28544 -40.42361 -39.63976 -36.12989 -35.08297 -34.53031 -32.32315 -31.67420 -30.68118 -28.76968 -27.00682 -26.45004 -25.78034 -23.59448 -22.69770 -22.39933 -22.20862 -20.88226 -20.38815 -19.72399 -18.99858 -18.35689 -17.83431 -17.09604 -17.06982 -16.75726 -16.66037 -16.21243 -15.97049 -15.70870 -15.48394 -15.34435 -15.06074 -14.80470 -14.39160 -14.34240 -13.84804 -13.43862 -13.34232 -13.22565 -13.05304 -12.93976 -12.76363 -12.67756 -12.17146 -12.05367 -11.69374 -11.56122 -11.53076 -11.37033 -11.08058 -10.89260 -10.80357 -10.62897 -10.24010 -10.07892 -9.34663 -8.96659 -7.93935 -5.22041 -1.13372 -0.05121 0.34854 0.65993 1.15500 1.48028 1.48553 1.58610 1.75338 1.94722 2.05791 2.09299 2.57332 2.85470 3.38168 3.61609 3.70365 3.72511 3.76638 3.85991 3.92749 4.01360 4.14929 4.25957 4.35980 4.41862 4.54116 4.55294 4.74142 4.75607 4.94030 4.96870 4.99749 5.01762 5.04528 5.18403 5.27830 5.33967 5.40790 5.53428 5.73380 6.01278 6.27934 6.28801 6.48100 6.96685 7.34070 8.12856 8.34080 9.29768 Molecular weight = 347.11amu Principal moments of inertia in cm(-1) A = 0.016530 B = 0.001768 C = 0.001648 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1693.456807 B =15834.630264 C =16983.709976 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.972 5.972 2 C -0.081 4.081 3 Si 0.972 3.028 4 H -0.262 1.262 5 H -0.295 1.295 6 H -0.297 1.297 7 C -0.240 4.240 8 H 0.081 0.919 9 N -0.730 5.730 10 C 0.143 3.857 11 H 0.083 0.917 12 C -0.155 4.155 13 C -0.097 4.097 14 H 0.124 0.876 15 C 0.137 3.863 16 N -0.707 5.707 17 C 0.595 3.405 18 O -0.569 6.569 19 C -0.329 4.329 20 C 0.128 3.872 21 N -0.501 5.501 22 C 0.120 3.880 23 C -0.174 4.174 24 C -0.197 4.197 25 C -0.021 4.021 26 O -0.175 6.175 27 C 0.031 3.969 28 S 0.260 5.740 29 C -0.136 4.136 30 H 0.249 0.751 31 H 0.371 0.629 32 H 0.069 0.931 33 H 0.055 0.945 34 H 0.053 0.947 35 H 0.073 0.927 36 H 0.411 0.589 37 H 0.191 0.809 38 H 0.157 0.843 39 H 0.246 0.754 40 H 0.242 0.758 41 H 0.067 0.933 42 H 0.080 0.920 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 15.280 -28.682 13.126 35.050 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 -0.623 5.623 2 C -0.273 4.273 3 Si 0.802 3.198 4 H -0.186 1.186 5 H -0.223 1.223 6 H -0.224 1.224 7 C -0.372 4.372 8 H 0.099 0.901 9 N -0.367 5.367 10 C 0.033 3.967 11 H 0.101 0.899 12 C -0.195 4.195 13 C -0.116 4.116 14 H 0.142 0.858 15 C 0.014 3.986 16 N -0.358 5.358 17 C 0.381 3.619 18 O -0.450 6.450 19 C -0.454 4.454 20 C -0.033 4.033 21 N -0.216 5.216 22 C -0.149 4.149 23 C -0.180 4.180 24 C -0.219 4.219 25 C -0.086 4.086 26 O -0.069 6.069 27 C -0.042 4.042 28 S 0.521 5.479 29 C -0.175 4.175 30 H 0.058 0.942 31 H 0.203 0.797 32 H 0.088 0.912 33 H 0.074 0.926 34 H 0.071 0.929 35 H 0.091 0.909 36 H 0.247 0.753 37 H 0.208 0.792 38 H 0.174 0.826 39 H 0.262 0.738 40 H 0.258 0.742 41 H 0.086 0.914 42 H 0.099 0.901 Dipole moment (debyes) X Y Z Total from point charges 15.656 -28.389 13.019 34.937 hybrid contribution -1.645 0.929 0.000 1.890 sum 14.011 -27.460 13.019 33.464 Atomic orbital electron populations 1.69836 1.06730 1.25870 1.59895 1.25599 0.96362 1.01254 1.04074 0.85079 0.78422 0.79871 0.76440 1.18647 1.22280 1.22407 1.19785 0.91660 0.85348 1.40397 0.90143 1.42651 1.05364 1.01266 1.87466 1.21969 0.95720 0.83821 0.95157 0.89914 1.23748 1.01190 0.95984 0.98621 1.22495 0.99449 0.92924 0.96709 0.85808 1.21367 0.94998 0.91474 0.90795 1.45797 1.13467 1.34313 1.42245 1.16857 0.85772 0.79631 0.79622 1.90841 1.16061 1.71397 1.66725 1.25918 0.99220 1.08946 1.11310 1.22533 1.01262 0.89926 0.89557 1.66473 1.01639 1.30079 1.23424 1.24713 0.93654 0.97524 0.99030 1.19443 0.91831 1.03163 1.03556 1.22988 0.99928 0.99627 0.99322 1.24651 0.87380 0.95575 1.01016 1.83935 1.39472 1.38700 1.44812 1.24781 0.89784 0.96464 0.93205 1.83205 1.03279 1.29274 1.32124 1.23325 1.00002 0.95752 0.98441 0.94188 0.79682 0.91183 0.92606 0.92895 0.90882 0.75277 0.79228 0.82552 0.73781 0.74211 0.91439 0.90120 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 -0.97 -59.94 13.06 21.65 0.28 -59.65 16 2 C -0.08 -4.64 5.50 84.86 0.47 -4.17 16 3 Si 0.97 45.84 29.55 68.60 2.03 47.87 16 4 H -0.26 -11.42 7.11 99.48 0.71 -10.72 16 5 H -0.30 -13.99 7.11 99.48 0.71 -13.28 16 6 H -0.30 -14.09 7.11 99.48 0.71 -13.39 16 7 C -0.24 -13.10 9.97 84.03 0.84 -12.26 16 8 H 0.08 4.15 7.83 -2.91 -0.02 4.13 16 9 N -0.73 -36.15 5.40 -320.45 -1.73 -37.88 16 10 C 0.14 5.19 4.48 45.51 0.20 5.39 16 11 H 0.08 2.89 8.10 -2.39 -0.02 2.87 16 12 C -0.15 -4.69 7.43 31.12 0.23 -4.46 16 13 C -0.10 -2.22 3.75 -10.27 -0.04 -2.26 16 14 H 0.12 2.09 8.14 -2.39 -0.02 2.07 16 15 C 0.14 3.31 5.51 86.38 0.48 3.78 16 16 N -0.71 -14.97 5.55 -467.31 -2.59 -17.56 16 17 C 0.60 15.28 7.78 86.38 0.67 15.95 16 18 O -0.57 -19.16 16.87 -4.42 -0.07 -19.23 16 19 C -0.33 -6.98 6.51 24.08 0.16 -6.83 16 20 C 0.13 2.85 11.15 84.54 0.94 3.79 16 21 N -0.50 -11.03 10.53 -192.01 -2.02 -13.05 16 22 C 0.12 2.11 7.25 87.38 0.63 2.75 16 23 C -0.17 -2.48 6.32 -18.99 -0.12 -2.60 16 24 C -0.20 -2.47 11.14 23.64 0.26 -2.21 16 25 C -0.02 -0.15 12.03 66.91 0.81 0.66 16 26 O -0.17 -1.59 10.54 2.36 0.02 -1.57 16 27 C 0.03 0.27 11.83 67.35 0.80 1.06 16 28 S 0.26 3.51 22.03 -56.49 -1.24 2.26 16 29 C -0.14 -3.96 7.39 31.12 0.23 -3.73 16 30 H 0.25 14.93 8.31 -92.71 -0.77 14.16 16 31 H 0.37 20.11 7.92 -92.71 -0.73 19.38 16 32 H 0.07 1.90 8.14 -2.38 -0.02 1.88 16 33 H 0.06 1.98 7.90 -2.39 -0.02 1.96 16 34 H 0.05 1.54 7.84 -2.38 -0.02 1.52 16 35 H 0.07 1.77 8.14 -2.39 -0.02 1.75 16 36 H 0.41 6.30 7.65 -92.70 -0.71 5.59 16 37 H 0.19 4.02 8.06 -2.91 -0.02 4.00 16 38 H 0.16 1.97 8.06 -2.91 -0.02 1.94 16 39 H 0.25 -0.32 8.06 -2.91 -0.02 -0.34 16 40 H 0.24 0.25 8.06 -2.91 -0.02 0.22 16 41 H 0.07 2.18 8.08 -2.39 -0.02 2.16 16 42 H 0.08 2.08 8.14 -2.39 -0.02 2.06 16 Total: -1.00 -76.86 381.32 0.86 -75.99 By element: Atomic # 1 Polarization: 28.33 SS G_CDS: -0.36 Total: 27.96 kcal Atomic # 6 Polarization: -11.70 SS G_CDS: 6.56 Total: -5.14 kcal Atomic # 7 Polarization: -122.08 SS G_CDS: -6.06 Total: -128.15 kcal Atomic # 8 Polarization: -20.75 SS G_CDS: -0.05 Total: -20.80 kcal Atomic # 14 Polarization: 45.84 SS G_CDS: 2.03 Total: 47.87 kcal Atomic # 16 Polarization: 3.51 SS G_CDS: -1.24 Total: 2.26 kcal Total: -76.86 0.86 -75.99 kcal The number of atoms in the molecule is 42 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. ZINC001086218095.mol2 42 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 108.686 kcal (2) G-P(sol) polarization free energy of solvation -76.858 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 31.829 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.863 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.995 kcal (6) G-S(sol) free energy of system = (1) + (5) 32.692 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.67 seconds