Wall clock time and date at job start Wed Apr 1 2020 03:23:26 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 1.31616 * 1 3 3 Si 1.86802 * 120.00345 * 2 1 4 4 H 1.48501 * 109.47001 * 240.00064 * 3 2 1 5 5 H 1.48504 * 109.47014 * 359.97438 * 3 2 1 6 6 H 1.48498 * 109.47483 * 119.99895 * 3 2 1 7 7 C 1.38815 * 120.00071 * 179.97438 * 2 1 3 8 8 H 1.07996 * 120.00606 * 155.84721 * 7 2 1 9 9 N 1.36943 * 119.99625 * 335.85231 * 7 2 1 10 10 C 1.46497 * 119.99744 * 326.81371 * 9 7 2 11 11 C 1.50701 * 109.47548 * 276.12581 * 10 9 7 12 12 O 1.20816 * 120.00037 * 0.02562 * 11 10 9 13 13 O 1.34230 * 120.00008 * 180.02562 * 11 10 9 14 14 S 1.65590 * 120.00008 * 147.09992 * 9 7 2 15 15 O 1.42101 * 106.40547 * 23.25801 * 14 9 7 16 16 O 1.42101 * 106.40292 * 156.18116 * 14 9 7 17 17 C 1.76199 * 107.21871 * 269.71909 * 14 9 7 18 18 C 1.39871 * 126.04063 * 90.02319 * 17 14 9 19 19 N 1.30840 * 108.19961 * 179.97438 * 18 17 14 20 20 N 1.40078 * 108.21072 * 359.97438 * 19 18 17 21 21 C 1.46499 * 126.04071 * 179.97438 * 20 19 18 22 22 H 1.09004 * 110.43579 * 25.72842 * 21 20 19 23 23 C 1.54810 * 110.48987 * 263.18246 * 21 20 19 24 24 C 1.55219 * 101.99029 * 220.51514 * 23 21 20 25 25 O 1.44389 * 103.56436 * 36.88295 * 24 23 21 26 26 C 1.43745 * 106.97131 * 320.00965 * 25 24 23 27 27 C 1.34949 * 107.92292 * 359.76021 * 20 19 18 28 28 H 0.97004 * 119.99754 * 0.02562 * 1 2 3 29 29 H 1.09004 * 109.47376 * 36.12864 * 10 9 7 30 30 H 1.09007 * 109.47171 * 156.12497 * 10 9 7 31 31 H 0.96698 * 117.00206 * 180.02562 * 13 11 10 32 32 H 1.07995 * 125.89641 * 359.95896 * 18 17 14 33 33 H 1.09002 * 110.90565 * 338.64178 * 23 21 20 34 34 H 1.09003 * 110.90597 * 102.24450 * 23 21 20 35 35 H 1.08997 * 110.52348 * 278.38735 * 24 23 21 36 36 H 1.08995 * 110.77952 * 155.49983 * 24 23 21 37 37 H 1.09003 * 109.88052 * 267.08637 * 26 25 24 38 38 H 1.09001 * 109.87303 * 145.93801 * 26 25 24 39 39 H 1.08004 * 126.12622 * 180.23298 * 27 20 19 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 2.2503 1.6177 0.0000 4 1 3.1040 1.6963 -1.2125 5 1 1.2853 2.7465 -0.0006 6 1 3.1040 1.6964 1.2125 7 6 2.0102 -1.2022 0.0005 8 1 3.0193 -1.2434 -0.3821 9 7 1.4153 -2.3360 0.4862 10 6 0.4639 -2.2458 1.5965 11 6 1.2160 -2.2258 2.9023 12 8 2.4229 -2.2808 2.9052 13 8 0.5450 -2.1470 4.0622 14 16 1.7768 -3.8097 -0.1768 15 8 3.0527 -3.6730 -0.7873 16 8 1.4931 -4.7796 0.8222 17 6 0.6278 -4.0899 -1.4829 18 6 0.7971 -3.7205 -2.8213 19 7 -0.2650 -4.0964 -3.4865 20 7 -1.1448 -4.7184 -2.5913 21 6 -2.4539 -5.2859 -2.9234 22 1 -2.4867 -5.5786 -3.9729 23 6 -3.5800 -4.2713 -2.6085 24 6 -4.6754 -5.1851 -1.9966 25 8 -3.9222 -6.1537 -1.2355 26 6 -2.7643 -6.4928 -2.0169 27 6 -0.5713 -4.7067 -1.3698 28 1 -0.4850 0.8401 -0.0004 29 1 -0.1212 -1.3312 1.5003 30 1 -0.2030 -3.1077 1.5745 31 1 1.0707 -2.1369 4.8737 32 1 1.6560 -3.2124 -3.2342 33 1 -3.2437 -3.5293 -1.8844 34 1 -3.9362 -3.7903 -3.5195 35 1 -5.2471 -5.6763 -2.7840 36 1 -5.3356 -4.6137 -1.3441 37 1 -2.9736 -7.3710 -2.6277 38 1 -1.9179 -6.6895 -1.3589 39 1 -0.9949 -5.1139 -0.4635 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 ZINC001608184239.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 03:23:26 Heat of formation + Delta-G solvation = -136.663871 kcal Electronic energy + Delta-G solvation = -29429.377397 eV Core-core repulsion = 25079.860573 eV Total energy + Delta-G solvation = -4349.516824 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 345.092 amu Computer time = 1.33 seconds Orbital eigenvalues (eV) -42.44666 -41.00483 -40.18521 -37.83087 -37.61329 -36.63909 -36.44708 -34.80897 -33.47117 -31.76425 -31.17365 -29.47581 -29.42525 -26.11639 -24.64374 -23.43211 -22.73204 -22.65066 -21.25600 -20.38139 -19.44511 -18.95666 -18.81451 -18.20021 -17.52050 -17.28272 -17.00901 -16.66487 -16.45957 -16.39881 -16.17203 -16.01725 -15.75554 -15.25485 -15.12282 -14.27515 -14.17767 -13.80398 -13.70255 -13.44508 -13.39142 -13.03491 -12.98237 -12.84168 -12.79920 -12.70069 -12.60596 -12.46666 -12.40539 -12.25712 -12.11332 -12.04066 -11.58129 -11.52418 -11.09394 -10.93178 -10.50432 -10.11689 -9.79005 -8.39743 -6.03282 -0.13093 0.57102 1.29089 1.34906 1.43239 1.48861 1.52156 1.61854 2.21491 2.38573 2.70413 2.75575 2.92593 3.23992 3.31418 3.43171 3.50546 3.71213 3.82704 3.92537 3.98273 4.14638 4.22527 4.46837 4.48260 4.50320 4.59704 4.66894 4.74581 4.77980 4.90730 4.91653 5.27610 5.37424 5.59773 5.68702 5.75995 5.84397 6.39055 6.40245 6.82207 7.19587 7.29431 8.60022 Molecular weight = 345.09amu Principal moments of inertia in cm(-1) A = 0.011788 B = 0.004400 C = 0.004199 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2374.634298 B = 6361.450824 C = 6666.373835 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.852 5.852 2 C 0.013 3.987 3 Si 0.970 3.030 4 H -0.265 1.265 5 H -0.268 1.268 6 H -0.278 1.278 7 C -0.283 4.283 8 H 0.092 0.908 9 N -0.812 5.812 10 C 0.126 3.874 11 C 0.465 3.535 12 O -0.544 6.544 13 O -0.511 6.511 14 S 2.625 3.375 15 O -1.007 7.007 16 O -1.017 7.017 17 C -0.807 4.807 18 C 0.124 3.876 19 N -0.311 5.311 20 N -0.353 5.353 21 C 0.112 3.888 22 H 0.139 0.861 23 C -0.165 4.165 24 C 0.051 3.949 25 O -0.389 6.389 26 C 0.037 3.963 27 C 0.164 3.836 28 H 0.281 0.719 29 H 0.147 0.853 30 H 0.116 0.884 31 H 0.420 0.580 32 H 0.195 0.805 33 H 0.066 0.934 34 H 0.110 0.890 35 H 0.095 0.905 36 H 0.112 0.888 37 H 0.110 0.890 38 H 0.087 0.913 39 H 0.202 0.798 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -12.817 -5.792 -2.806 14.342 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 -0.491 5.491 2 C -0.196 4.196 3 Si 0.794 3.206 4 H -0.189 1.189 5 H -0.193 1.193 6 H -0.204 1.204 7 C -0.425 4.425 8 H 0.109 0.891 9 N -0.637 5.637 10 C -0.003 4.003 11 C 0.306 3.694 12 O -0.433 6.433 13 O -0.324 6.324 14 S 2.726 3.274 15 O -0.997 6.997 16 O -1.007 7.007 17 C -0.903 4.903 18 C -0.065 4.065 19 N -0.130 5.130 20 N -0.132 5.132 21 C 0.011 3.989 22 H 0.156 0.844 23 C -0.203 4.203 24 C -0.025 4.025 25 O -0.307 6.307 26 C -0.041 4.041 27 C 0.012 3.988 28 H 0.091 0.909 29 H 0.164 0.836 30 H 0.134 0.866 31 H 0.281 0.719 32 H 0.212 0.788 33 H 0.085 0.915 34 H 0.129 0.871 35 H 0.113 0.887 36 H 0.130 0.870 37 H 0.128 0.872 38 H 0.105 0.895 39 H 0.219 0.781 Dipole moment (debyes) X Y Z Total from point charges -13.049 -6.686 -3.982 15.194 hybrid contribution 1.064 1.104 0.671 1.673 sum -11.985 -5.582 -3.312 13.630 Atomic orbital electron populations 1.69896 1.06688 1.29411 1.43093 1.26130 0.95978 1.02295 0.95238 0.85326 0.78608 0.77404 0.79288 1.18919 1.19273 1.20362 1.19525 0.96919 0.85434 1.40616 0.89055 1.52821 1.54480 1.21780 1.34585 1.20900 0.91257 1.08496 0.79667 1.24740 0.87112 0.70517 0.87048 1.90629 1.17580 1.46949 1.88174 1.84497 1.45348 1.85369 1.17176 1.06306 0.74917 0.73658 0.72510 1.93332 1.41080 1.86775 1.78524 1.93336 1.86475 1.61915 1.58970 1.32215 1.17658 1.23708 1.16740 1.23580 0.96827 0.95536 0.90514 1.77219 1.01895 1.17423 1.16467 1.49367 1.15280 1.43273 1.05309 1.23238 0.77768 0.94395 1.03492 0.84359 1.23676 0.94855 0.98216 1.03563 1.23816 0.93414 0.88756 0.96501 1.88945 1.36092 1.62140 1.43565 1.23668 0.90056 0.95806 0.94551 1.22496 0.91091 0.93782 0.91464 0.90879 0.83618 0.86615 0.71904 0.78790 0.91539 0.87120 0.88677 0.87019 0.87165 0.89482 0.78092 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 33. 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 -0.85 -39.62 11.27 21.65 0.24 -39.38 16 2 C 0.01 0.61 4.98 84.86 0.42 1.03 16 3 Si 0.97 38.81 29.62 68.60 2.03 40.84 16 4 H -0.26 -10.45 7.11 99.48 0.71 -9.74 16 5 H -0.27 -10.04 7.11 99.48 0.71 -9.33 16 6 H -0.28 -11.48 7.11 99.48 0.71 -10.77 16 7 C -0.28 -14.42 8.97 84.03 0.75 -13.67 16 8 H 0.09 4.90 7.40 -2.91 -0.02 4.88 16 9 N -0.81 -39.22 2.39 -347.16 -0.83 -40.04 16 10 C 0.13 5.40 5.56 85.63 0.48 5.88 16 11 C 0.46 19.61 8.36 71.24 0.60 20.20 16 12 O -0.54 -26.82 17.06 21.99 0.38 -26.45 16 13 O -0.51 -16.20 13.42 -51.42 -0.69 -16.89 16 14 S 2.62 125.05 5.75 -56.49 -0.32 124.72 16 15 O -1.01 -53.88 16.75 -128.00 -2.14 -56.03 16 16 O -1.02 -49.39 16.80 -128.00 -2.15 -51.54 16 17 C -0.81 -33.13 6.17 21.99 0.14 -32.99 16 18 C 0.12 4.92 11.82 85.24 1.01 5.93 16 19 N -0.31 -11.23 12.57 -57.02 -0.72 -11.95 16 20 N -0.35 -10.85 3.57 -322.79 -1.15 -12.00 16 21 C 0.11 2.30 4.16 45.98 0.19 2.50 16 22 H 0.14 2.28 8.14 -2.39 -0.02 2.26 16 23 C -0.16 -2.99 6.90 31.97 0.22 -2.77 16 24 C 0.05 0.71 7.72 72.74 0.56 1.28 16 25 O -0.39 -7.74 11.52 -148.98 -1.72 -9.46 16 26 C 0.04 0.66 7.19 72.35 0.52 1.18 16 27 C 0.16 5.63 9.92 83.54 0.83 6.46 16 28 H 0.28 12.18 8.31 -92.71 -0.77 11.41 16 29 H 0.15 6.35 5.31 -2.38 -0.01 6.34 16 30 H 0.12 4.34 7.58 -2.38 -0.02 4.32 16 31 H 0.42 9.12 9.10 -74.06 -0.67 8.45 16 32 H 0.20 7.33 8.06 -2.91 -0.02 7.31 16 33 H 0.07 1.60 8.06 -2.39 -0.02 1.58 16 34 H 0.11 1.63 8.14 -2.39 -0.02 1.61 16 35 H 0.10 0.82 8.14 -2.39 -0.02 0.80 16 36 H 0.11 1.35 8.14 -2.39 -0.02 1.33 16 37 H 0.11 1.35 8.14 -2.39 -0.02 1.33 16 38 H 0.09 1.77 6.28 -2.39 -0.01 1.76 16 39 H 0.20 5.89 7.36 -2.91 -0.02 5.87 16 Total: -1.00 -72.85 351.96 -0.91 -73.76 By element: Atomic # 1 Polarization: 28.94 SS G_CDS: 0.45 Total: 29.38 kcal Atomic # 6 Polarization: -10.68 SS G_CDS: 5.71 Total: -4.97 kcal Atomic # 7 Polarization: -100.92 SS G_CDS: -2.45 Total: -103.37 kcal Atomic # 8 Polarization: -154.04 SS G_CDS: -6.33 Total: -160.37 kcal Atomic # 14 Polarization: 38.81 SS G_CDS: 2.03 Total: 40.84 kcal Atomic # 16 Polarization: 125.05 SS G_CDS: -0.32 Total: 124.72 kcal Total: -72.85 -0.91 -73.76 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. ZINC001608184239.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 -62.905 kcal (2) G-P(sol) polarization free energy of solvation -72.847 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -135.752 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.912 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -73.759 kcal (6) G-S(sol) free energy of system = (1) + (5) -136.664 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.33 seconds