Wall clock time and date at job start Tue Mar 31 2020 22:47:33 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 1.31618 * 1 3 3 Si 1.86802 * 119.99531 * 2 1 4 4 H 1.48501 * 109.47236 * 179.97438 * 3 2 1 5 5 H 1.48501 * 109.47130 * 299.99535 * 3 2 1 6 6 H 1.48499 * 109.47197 * 59.99814 * 3 2 1 7 7 C 1.38811 * 120.00230 * 179.97438 * 2 1 3 8 8 H 1.07998 * 119.99843 * 160.73875 * 7 2 1 9 9 N 1.36929 * 119.99953 * 340.73284 * 7 2 1 10 10 C 1.43425 * 120.63313 * 155.64198 * 9 7 2 11 11 C 1.55327 * 116.24158 * 269.37673 * 10 9 7 12 12 C 1.55193 * 108.87405 * 319.46180 * 11 10 9 13 13 O 1.39640 * 110.56693 * 322.14556 * 12 11 10 14 14 C 1.42376 * 108.63299 * 101.17058 * 13 12 11 15 15 H 1.09005 * 108.62384 * 28.56071 * 14 13 12 16 16 C 1.53000 * 108.51302 * 146.41240 * 14 13 12 17 17 N 1.46502 * 109.47164 * 302.11950 * 16 14 13 18 18 C 1.34770 * 119.99832 * 179.97438 * 17 16 14 19 19 O 1.21276 * 120.00235 * 359.97438 * 18 17 16 20 20 C 1.50707 * 119.99766 * 179.97438 * 18 17 16 21 21 C 1.52994 * 109.47088 * 179.97438 * 20 18 17 22 22 C 1.50697 * 109.47135 * 179.97438 * 21 20 18 23 23 N 1.29028 * 124.91623 * 90.00263 * 22 21 20 24 24 C 1.31782 * 117.12903 * 179.97438 * 23 22 21 25 25 C 1.33646 * 114.49751 * 359.97438 * 24 23 22 26 26 S 1.70978 * 124.91988 * 269.69741 * 22 21 20 27 27 C 1.46923 * 113.79298 * 267.44755 * 14 13 12 28 28 H 0.97001 * 120.00441 * 0.02562 * 1 2 3 29 29 H 1.08998 * 108.12893 * 31.13480 * 10 9 7 30 30 H 1.09000 * 108.12746 * 147.62087 * 10 9 7 31 31 H 1.09002 * 109.57088 * 79.27749 * 11 10 9 32 32 H 1.09002 * 109.57207 * 199.65054 * 11 10 9 33 33 H 1.09007 * 109.25170 * 82.42524 * 12 11 10 34 34 H 1.09001 * 109.26189 * 201.86450 * 12 11 10 35 35 H 1.09003 * 109.47100 * 62.11566 * 16 14 13 36 36 H 1.09001 * 109.47438 * 182.11670 * 16 14 13 37 37 H 0.96999 * 119.99452 * 359.97438 * 17 16 14 38 38 H 1.09003 * 109.46992 * 300.00330 * 20 18 17 39 39 H 1.09001 * 109.47045 * 60.00127 * 20 18 17 40 40 H 1.09003 * 109.47517 * 300.00061 * 21 20 18 41 41 H 1.09001 * 109.47031 * 60.00172 * 21 20 18 42 42 H 1.07996 * 122.75511 * 180.02562 * 24 23 22 43 43 H 1.07997 * 126.03853 * 180.02562 * 25 24 23 44 44 H 1.08997 * 109.99368 * 176.11861 * 27 14 13 45 45 H 1.08997 * 109.99373 * 297.40154 * 27 14 13 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 2.2501 1.6178 0.0000 4 1 3.7101 1.3466 0.0006 5 1 1.8913 2.3965 -1.2126 6 1 1.8912 2.3965 1.2125 7 6 2.0103 -1.2021 0.0005 8 1 3.0449 -1.2284 -0.3080 9 7 1.3832 -2.3546 0.3924 10 6 1.8494 -3.6318 -0.0642 11 6 1.2154 -4.1648 -1.3782 12 6 -0.3040 -3.8488 -1.3667 13 8 -0.8283 -4.0074 -0.0822 14 6 -0.9696 -2.7220 0.5134 15 1 -1.1326 -1.9884 -0.2763 16 6 -2.2000 -2.7405 1.4226 17 7 -3.3817 -3.1063 0.6378 18 6 -4.5879 -3.1869 1.2337 19 8 -4.6949 -2.9572 2.4197 20 6 -5.8036 -3.5627 0.4262 21 6 -7.0337 -3.5825 1.3357 22 6 -8.2495 -3.9576 0.5282 23 7 -8.6715 -5.1631 0.3453 24 6 -9.7545 -5.3156 -0.3898 25 6 -10.2754 -4.1751 -0.8525 26 16 -9.2737 -2.8469 -0.2722 27 6 0.1942 -2.3055 1.3075 28 1 -0.4851 0.8400 -0.0004 29 1 2.9277 -3.5669 -0.2100 30 1 1.6627 -4.3622 0.7230 31 1 1.6833 -3.6771 -2.2334 32 1 1.3635 -5.2427 -1.4441 33 1 -0.4597 -2.8208 -1.6942 34 1 -0.8171 -4.5250 -2.0505 35 1 -2.0525 -3.4702 2.2188 36 1 -2.3448 -1.7518 1.8582 37 1 -3.2960 -3.2904 -0.3107 38 1 -5.9512 -2.8324 -0.3694 39 1 -5.6588 -4.5510 -0.0100 40 1 -6.8858 -4.3130 2.1311 41 1 -7.1787 -2.5943 1.7724 42 1 -10.1863 -6.2829 -0.6005 43 1 -11.1569 -4.0836 -1.4697 44 1 0.0497 -1.2901 1.6763 45 1 0.3381 -2.9887 2.1445 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 ZINC001150751089.mol2 45 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 22:47:33 Heat of formation + Delta-G solvation = -29.199345 kcal Electronic energy + Delta-G solvation = -27181.113268 eV Core-core repulsion = 23325.690175 eV Total energy + Delta-G solvation = -3855.423093 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 339.140 amu Computer time = 0.78 seconds Orbital eigenvalues (eV) -41.11647 -40.62235 -40.13724 -36.79552 -35.98727 -34.89776 -33.83119 -32.93968 -30.85379 -30.15309 -27.84812 -27.06057 -26.39457 -24.52075 -23.70595 -22.37947 -21.36010 -21.18264 -20.81165 -19.00662 -18.93784 -18.05591 -17.68947 -17.03054 -16.70688 -16.62645 -16.33968 -16.15796 -15.80466 -15.53840 -15.23961 -15.12267 -14.78227 -14.60637 -14.27600 -14.10976 -13.71269 -13.65714 -13.45399 -13.27478 -13.12400 -12.92875 -12.63253 -12.48949 -12.39780 -12.25852 -12.15098 -11.92047 -11.76314 -11.36813 -11.17954 -10.98311 -10.60353 -10.55627 -10.35839 -10.26178 -10.03262 -9.81935 -8.70806 -7.88847 -5.29283 -0.25442 0.43032 0.83027 1.47104 1.52490 1.59751 1.66808 1.85855 2.26024 2.52960 3.12757 3.20167 3.28517 3.52074 3.72969 3.99528 4.09755 4.17013 4.26527 4.32272 4.38692 4.42775 4.44243 4.55487 4.57894 4.60035 4.75429 4.79823 4.80447 4.84740 4.98570 5.01456 5.09252 5.19434 5.19579 5.25461 5.35150 5.41548 5.46341 5.53344 5.69582 6.37352 6.53341 6.59970 6.79897 7.11803 7.26936 7.83883 8.36891 9.17220 Molecular weight = 339.14amu Principal moments of inertia in cm(-1) A = 0.017008 B = 0.002310 C = 0.002176 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1645.935474 B =12119.681196 C =12864.789318 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.916 5.916 2 C -0.036 4.036 3 Si 0.958 3.042 4 H -0.276 1.276 5 H -0.293 1.293 6 H -0.293 1.293 7 C -0.262 4.262 8 H 0.062 0.938 9 N -0.601 5.601 10 C 0.154 3.846 11 C -0.165 4.165 12 C 0.068 3.932 13 O -0.367 6.367 14 C 0.080 3.920 15 H 0.086 0.914 16 C 0.133 3.867 17 N -0.708 5.708 18 C 0.511 3.489 19 O -0.586 6.586 20 C -0.121 4.121 21 C -0.025 4.025 22 C 0.035 3.965 23 N -0.502 5.502 24 C 0.018 3.982 25 C -0.252 4.252 26 S 0.143 5.857 27 C 0.144 3.856 28 H 0.251 0.749 29 H 0.030 0.970 30 H 0.034 0.966 31 H 0.054 0.946 32 H 0.077 0.923 33 H 0.037 0.963 34 H 0.087 0.913 35 H 0.056 0.944 36 H 0.062 0.938 37 H 0.411 0.589 38 H 0.118 0.882 39 H 0.111 0.889 40 H 0.086 0.914 41 H 0.094 0.906 42 H 0.195 0.805 43 H 0.207 0.793 44 H 0.079 0.921 45 H 0.023 0.977 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -18.397 -7.851 -5.040 20.627 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 -0.562 5.562 2 C -0.233 4.233 3 Si 0.788 3.212 4 H -0.201 1.201 5 H -0.220 1.220 6 H -0.220 1.220 7 C -0.392 4.392 8 H 0.080 0.920 9 N -0.323 5.323 10 C 0.026 3.974 11 C -0.206 4.206 12 C -0.010 4.010 13 O -0.285 6.285 14 C 0.021 3.979 15 H 0.103 0.897 16 C 0.008 3.992 17 N -0.359 5.359 18 C 0.299 3.701 19 O -0.467 6.467 20 C -0.162 4.162 21 C -0.066 4.066 22 C -0.242 4.242 23 N -0.217 5.217 24 C -0.132 4.132 25 C -0.391 4.391 26 S 0.397 5.603 27 C 0.019 3.981 28 H 0.060 0.940 29 H 0.048 0.952 30 H 0.052 0.948 31 H 0.072 0.928 32 H 0.096 0.904 33 H 0.056 0.944 34 H 0.105 0.895 35 H 0.074 0.926 36 H 0.080 0.920 37 H 0.247 0.753 38 H 0.136 0.864 39 H 0.129 0.871 40 H 0.105 0.895 41 H 0.113 0.887 42 H 0.212 0.788 43 H 0.224 0.776 44 H 0.097 0.903 45 H 0.041 0.959 Dipole moment (debyes) X Y Z Total from point charges -18.301 -7.085 -3.954 20.018 hybrid contribution 0.439 0.276 -0.637 0.822 sum -17.861 -6.809 -4.591 19.658 Atomic orbital electron populations 1.69990 1.05770 1.25629 1.54802 1.25462 0.96082 1.00454 1.01270 0.85356 0.78495 0.80732 0.76622 1.20113 1.22024 1.21983 1.19419 0.93631 0.86344 1.39794 0.92000 1.44228 1.34574 1.01894 1.51589 1.20484 0.95981 0.86753 0.94193 1.23499 0.96749 1.00586 0.99787 1.22401 0.93750 1.00185 0.84631 1.87517 1.83283 1.28272 1.29463 1.21753 0.93559 0.84728 0.97889 0.89651 1.21357 0.84080 0.99701 0.94111 1.45833 1.06886 1.69523 1.13636 1.21051 0.85083 0.76129 0.87853 1.90678 1.86527 1.51902 1.17611 1.21575 0.90161 1.05649 0.98834 1.19877 0.87112 1.03718 0.95871 1.27031 1.02414 0.91574 1.03170 1.66297 1.14680 1.23020 1.17752 1.22211 0.92612 1.01191 0.97155 1.27513 1.07624 0.94283 1.09681 1.84075 1.19789 1.12176 1.44282 1.20679 0.86300 1.00099 0.91031 0.93950 0.95179 0.94790 0.92753 0.90399 0.94450 0.89537 0.92566 0.91953 0.75337 0.86405 0.87057 0.89503 0.88709 0.78790 0.77642 0.90329 0.95886 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 -0.92 -47.73 9.56 21.65 0.21 -47.53 16 2 C -0.04 -1.87 4.92 84.86 0.42 -1.46 16 3 Si 0.96 42.81 29.60 68.60 2.03 44.84 16 4 H -0.28 -12.11 7.11 99.48 0.71 -11.40 16 5 H -0.29 -13.11 7.11 99.48 0.71 -12.40 16 6 H -0.29 -13.21 7.11 99.48 0.71 -12.51 16 7 C -0.26 -13.61 9.62 84.03 0.81 -12.80 16 8 H 0.06 3.24 7.88 -2.91 -0.02 3.22 16 9 N -0.60 -28.65 2.61 -706.01 -1.84 -30.49 16 10 C 0.15 6.32 5.32 87.75 0.47 6.78 16 11 C -0.17 -5.76 6.75 32.15 0.22 -5.54 16 12 C 0.07 2.36 6.38 72.73 0.46 2.82 16 13 O -0.37 -13.53 9.43 -137.19 -1.29 -14.82 16 14 C 0.08 3.17 1.98 28.71 0.06 3.23 16 15 H 0.09 3.85 5.24 -2.38 -0.01 3.83 16 16 C 0.13 4.83 5.25 86.38 0.45 5.28 16 17 N -0.71 -21.17 5.41 -463.06 -2.51 -23.67 16 18 C 0.51 14.85 7.83 87.66 0.69 15.54 16 19 O -0.59 -21.59 15.98 -3.02 -0.05 -21.64 16 20 C -0.12 -2.44 5.68 29.85 0.17 -2.27 16 21 C -0.02 -0.52 5.09 29.85 0.15 -0.37 16 22 C 0.04 0.70 6.64 88.52 0.59 1.28 16 23 N -0.50 -10.91 10.54 -191.45 -2.02 -12.92 16 24 C 0.02 0.29 11.35 83.66 0.95 1.24 16 25 C -0.25 -3.12 11.37 66.78 0.76 -2.36 16 26 S 0.14 2.14 23.18 -56.49 -1.31 0.83 16 27 C 0.14 6.52 4.71 83.79 0.39 6.92 16 28 H 0.25 12.88 8.31 -92.71 -0.77 12.11 16 29 H 0.03 1.23 7.96 -2.39 -0.02 1.21 16 30 H 0.03 1.36 7.99 -2.39 -0.02 1.34 16 31 H 0.05 1.92 8.14 -2.39 -0.02 1.90 16 32 H 0.08 2.29 8.14 -2.39 -0.02 2.27 16 33 H 0.04 1.50 6.66 -2.38 -0.02 1.49 16 34 H 0.09 2.42 8.14 -2.39 -0.02 2.40 16 35 H 0.06 2.10 8.14 -2.39 -0.02 2.08 16 36 H 0.06 2.46 8.14 -2.39 -0.02 2.44 16 37 H 0.41 10.63 8.26 -92.71 -0.77 9.87 16 38 H 0.12 1.86 8.14 -2.39 -0.02 1.84 16 39 H 0.11 2.03 8.14 -2.39 -0.02 2.01 16 40 H 0.09 2.10 8.10 -2.39 -0.02 2.08 16 41 H 0.09 1.96 8.10 -2.39 -0.02 1.94 16 42 H 0.20 2.05 8.06 -2.91 -0.02 2.03 16 43 H 0.21 1.17 8.06 -2.91 -0.02 1.14 16 44 H 0.08 3.97 6.03 -2.39 -0.01 3.96 16 45 H 0.02 1.01 8.14 -2.39 -0.02 0.99 16 Total: -1.00 -63.33 376.29 0.04 -63.29 By element: Atomic # 1 Polarization: 23.59 SS G_CDS: 0.24 Total: 23.83 kcal Atomic # 6 Polarization: 11.71 SS G_CDS: 6.58 Total: 18.29 kcal Atomic # 7 Polarization: -108.45 SS G_CDS: -6.16 Total: -114.62 kcal Atomic # 8 Polarization: -35.12 SS G_CDS: -1.34 Total: -36.46 kcal Atomic # 14 Polarization: 42.81 SS G_CDS: 2.03 Total: 44.84 kcal Atomic # 16 Polarization: 2.14 SS G_CDS: -1.31 Total: 0.83 kcal Total: -63.33 0.04 -63.29 kcal The number of atoms in the molecule is 45 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. ZINC001150751089.mol2 45 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 34.091 kcal (2) G-P(sol) polarization free energy of solvation -63.330 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -29.238 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.039 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -63.291 kcal (6) G-S(sol) free energy of system = (1) + (5) -29.199 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.78 seconds