Wall clock time and date at job start Tue Mar 31 2020 19:01:54 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 1.31612 * 1 3 3 Si 1.86802 * 119.99772 * 2 1 4 4 H 1.48501 * 109.46977 * 359.97438 * 3 2 1 5 5 H 1.48494 * 109.47193 * 120.00236 * 3 2 1 6 6 H 1.48504 * 109.47141 * 240.00197 * 3 2 1 7 7 C 1.38811 * 120.00330 * 180.02562 * 2 1 3 8 8 H 1.08001 * 120.00014 * 196.68601 * 7 2 1 9 9 N 1.36936 * 119.99752 * 16.68411 * 7 2 1 10 10 C 1.44466 * 118.50838 * 206.74194 * 9 7 2 11 11 C 1.54872 * 109.32327 * 268.93118 * 10 9 7 12 12 C 1.47689 * 109.68365 * 290.10344 * 11 10 9 13 13 O 1.42559 * 113.66130 * 60.80369 * 12 11 10 14 14 C 1.40525 * 113.54265 * 272.23851 * 13 12 11 15 15 H 1.09004 * 109.40713 * 335.17327 * 14 13 12 16 16 C 1.52996 * 109.40892 * 215.40978 * 14 13 12 17 17 N 1.46502 * 109.47102 * 65.00472 * 16 14 13 18 18 C 1.34773 * 120.00551 * 180.02562 * 17 16 14 19 19 O 1.21612 * 119.99558 * 0.02562 * 18 17 16 20 20 C 1.47400 * 120.00453 * 179.97438 * 18 17 16 21 21 C 1.47102 * 128.56190 * 0.02742 * 20 18 17 22 22 N 1.30012 * 105.32646 * 179.97438 * 21 20 18 23 23 O 1.20653 * 112.30564 * 359.97438 * 22 21 20 24 24 C 1.33493 * 113.15385 * 359.71640 * 23 22 21 25 25 C 1.50706 * 126.83139 * 180.31000 * 24 23 22 26 26 C 1.52997 * 117.49721 * 8.79387 * 25 24 23 27 27 C 1.52996 * 117.49917 * 300.17101 * 25 24 23 28 28 C 1.48174 * 118.51489 * 26.47228 * 9 7 2 29 29 H 0.97005 * 120.00586 * 0.02562 * 1 2 3 30 30 H 1.08994 * 109.50023 * 28.88684 * 10 9 7 31 31 H 1.09002 * 109.49178 * 148.95145 * 10 9 7 32 32 H 1.09001 * 109.43937 * 50.16979 * 11 10 9 33 33 H 1.09004 * 109.43533 * 170.04109 * 11 10 9 34 34 H 1.09003 * 108.64822 * 181.87923 * 12 11 10 35 35 H 1.08994 * 108.64533 * 299.85603 * 12 11 10 36 36 H 1.09001 * 109.47547 * 185.00290 * 16 14 13 37 37 H 1.09003 * 109.47473 * 305.00228 * 16 14 13 38 38 H 0.97006 * 119.99630 * 0.02562 * 17 16 14 39 39 H 1.08001 * 127.33528 * 0.02836 * 21 20 18 40 40 H 1.09000 * 115.54753 * 154.49897 * 25 24 23 41 41 H 1.09004 * 117.49627 * 359.97438 * 26 25 24 42 42 H 1.08999 * 117.50132 * 145.01577 * 26 25 24 43 43 H 1.08994 * 117.49988 * 214.97570 * 27 25 24 44 44 H 1.09005 * 117.49686 * 359.97438 * 27 25 24 45 45 H 1.09004 * 109.23394 * 259.08733 * 28 9 7 46 46 H 1.09003 * 109.23586 * 18.46063 * 28 9 7 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 1.3161 0.0000 0.0000 3 14 2.2501 1.6178 0.0000 4 1 1.2850 2.7465 -0.0006 5 1 3.1038 1.6965 1.2124 6 1 3.1038 1.6965 -1.2125 7 6 2.0102 -1.2021 -0.0005 8 1 3.0562 -1.2219 0.2680 9 7 1.3688 -2.3629 -0.3415 10 6 1.8650 -3.6085 0.1964 11 6 2.9032 -4.2117 -0.7817 12 6 2.2209 -4.6796 -2.0051 13 8 1.5462 -3.6441 -2.7155 14 6 0.2279 -3.4304 -2.2783 15 1 -0.1537 -4.3423 -1.8189 16 6 -0.6508 -3.0598 -3.4747 17 7 -0.7267 -4.1967 -4.3956 18 6 -1.4508 -4.0995 -5.5281 19 8 -2.0408 -3.0678 -5.7858 20 6 -1.5267 -5.2431 -6.4549 21 6 -0.8949 -6.5659 -6.3327 22 7 -1.2596 -7.2204 -7.3952 23 8 -1.9714 -6.5644 -8.1154 24 6 -2.2108 -5.3393 -7.6421 25 6 -3.0595 -4.2725 -8.2846 26 6 -3.8889 -4.6707 -9.5071 27 6 -2.6508 -3.7881 -9.6771 28 6 0.1937 -2.2839 -1.2406 29 1 -0.4851 0.8400 -0.0004 30 1 2.3377 -3.4255 1.1613 31 1 1.0366 -4.3054 0.3235 32 1 3.6384 -3.4511 -1.0448 33 1 3.4068 -5.0518 -0.3034 34 1 2.9610 -5.1305 -2.6662 35 1 1.4923 -5.4414 -1.7280 36 1 -1.6522 -2.8074 -3.1258 37 1 -0.2191 -2.2023 -3.9909 38 1 -0.2558 -5.0195 -4.1901 39 1 -0.2634 -6.9186 -5.5307 40 1 -3.4885 -3.5387 -7.6022 41 1 -3.8204 -5.7041 -9.8468 42 1 -4.8639 -4.1989 -9.6291 43 1 -2.8112 -2.7357 -9.9111 44 1 -1.7678 -4.2407 -10.1284 45 1 -0.7179 -2.3586 -0.6476 46 1 0.2043 -1.3268 -1.7623 RHF calculation, no. of doubly occupied orbitals= 63 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). 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 ZINC001073841117.mol2 46 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 19:01:54 Heat of formation + Delta-G solvation = 16.618759 kcal Electronic energy + Delta-G solvation = -29237.571467 eV Core-core repulsion = 25131.838376 eV Total energy + Delta-G solvation = -4105.733091 eV No. of doubly occupied orbitals = 63 Molecular weight (most abundant/longest-lived isotopes) = 335.168 amu Computer time = 0.88 seconds Orbital eigenvalues (eV) -46.00572 -40.92577 -40.06157 -38.33059 -36.88331 -36.03099 -34.87958 -34.06379 -32.92623 -32.60253 -30.39085 -27.63892 -27.05057 -25.67394 -25.08047 -24.01515 -23.31264 -22.40073 -22.13573 -21.63160 -21.14213 -19.09655 -18.81933 -18.76804 -17.75524 -17.72644 -17.29283 -16.81719 -16.48384 -16.28747 -16.08571 -15.85337 -15.52515 -15.23009 -14.79074 -14.58221 -14.48059 -14.20226 -13.92645 -13.81277 -13.39010 -13.28408 -13.02742 -12.72034 -12.70401 -12.46803 -12.46236 -12.30032 -12.18897 -12.00768 -11.80553 -11.52487 -11.50797 -11.43442 -11.35639 -11.20668 -10.55732 -10.40233 -10.26128 -10.08722 -8.66238 -7.85886 -5.30375 -0.09038 0.71750 1.44172 1.48170 1.53651 1.58148 2.07062 2.09596 2.51968 2.81510 2.92216 3.17961 3.20518 3.27822 3.39682 3.58395 3.77146 3.95473 3.99229 4.05269 4.13466 4.17953 4.23061 4.27275 4.45680 4.52380 4.58936 4.62617 4.72845 4.74839 4.79968 4.86887 4.89571 4.94446 5.08290 5.15209 5.19059 5.21629 5.25510 5.34870 5.52629 5.62137 5.70991 6.40163 6.41896 6.58342 7.04731 7.09287 7.17879 7.94208 8.31644 9.18635 Molecular weight = 335.17amu Principal moments of inertia in cm(-1) A = 0.016290 B = 0.002738 C = 0.002440 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1718.398146 B =10224.473137 C =11473.908840 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.932 5.932 2 C -0.046 4.046 3 Si 0.957 3.043 4 H -0.294 1.294 5 H -0.275 1.275 6 H -0.284 1.284 7 C -0.262 4.262 8 H 0.060 0.940 9 N -0.603 5.603 10 C 0.147 3.853 11 C -0.170 4.170 12 C 0.067 3.933 13 O -0.377 6.377 14 C 0.076 3.924 15 H 0.077 0.923 16 C 0.138 3.862 17 N -0.698 5.698 18 C 0.596 3.404 19 O -0.569 6.569 20 C -0.278 4.278 21 C 0.042 3.958 22 N -0.371 5.371 23 O 0.087 5.913 24 C 0.088 3.912 25 C -0.118 4.118 26 C -0.145 4.145 27 C -0.151 4.151 28 C 0.173 3.827 29 H 0.249 0.751 30 H 0.039 0.961 31 H 0.046 0.954 32 H 0.041 0.959 33 H 0.096 0.904 34 H 0.096 0.904 35 H 0.065 0.935 36 H 0.079 0.921 37 H 0.053 0.947 38 H 0.414 0.586 39 H 0.235 0.765 40 H 0.138 0.862 41 H 0.111 0.889 42 H 0.126 0.874 43 H 0.120 0.880 44 H 0.102 0.898 45 H 0.014 0.986 46 H 0.041 0.959 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -4.231 -15.999 -15.547 22.706 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 -0.578 5.578 2 C -0.242 4.242 3 Si 0.786 3.214 4 H -0.220 1.220 5 H -0.201 1.201 6 H -0.211 1.211 7 C -0.393 4.393 8 H 0.078 0.922 9 N -0.325 5.325 10 C 0.021 3.979 11 C -0.211 4.211 12 C -0.009 4.009 13 O -0.296 6.296 14 C 0.016 3.984 15 H 0.094 0.906 16 C 0.014 3.986 17 N -0.349 5.349 18 C 0.383 3.617 19 O -0.450 6.450 20 C -0.285 4.285 21 C -0.141 4.141 22 N -0.079 5.079 23 O 0.030 5.970 24 C 0.023 3.977 25 C -0.137 4.137 26 C -0.182 4.182 27 C -0.188 4.188 28 C 0.047 3.953 29 H 0.058 0.942 30 H 0.058 0.942 31 H 0.065 0.935 32 H 0.060 0.940 33 H 0.114 0.886 34 H 0.114 0.886 35 H 0.083 0.917 36 H 0.097 0.903 37 H 0.072 0.928 38 H 0.250 0.750 39 H 0.252 0.748 40 H 0.155 0.845 41 H 0.130 0.870 42 H 0.144 0.856 43 H 0.138 0.862 44 H 0.120 0.880 45 H 0.032 0.968 46 H 0.059 0.941 Dipole moment (debyes) X Y Z Total from point charges -4.448 -16.284 -16.331 23.488 hybrid contribution 0.645 1.604 1.336 2.185 sum -3.803 -14.680 -14.995 21.326 Atomic orbital electron populations 1.70158 1.06297 1.25733 1.55571 1.25662 0.96016 1.01113 1.01387 0.85493 0.77760 0.80022 0.78098 1.21977 1.20066 1.21094 1.19376 0.92704 0.86604 1.40590 0.92248 1.43811 1.33647 1.02656 1.52354 1.20913 0.95200 0.86975 0.94846 1.22147 0.99744 1.01011 0.98158 1.21592 0.96895 0.88377 0.93993 1.87446 1.25696 1.58217 1.58247 1.22815 0.83317 0.99115 0.93128 0.90560 1.21272 0.99375 0.88718 0.89278 1.45504 1.50608 1.17745 1.20992 1.16994 0.78541 0.85582 0.80537 1.90781 1.47288 1.31212 1.75727 1.21891 1.09471 0.97372 0.99808 1.26869 1.00202 0.88942 0.98064 1.73650 1.09621 1.19086 1.05571 1.84539 1.50455 1.20340 1.41636 1.24067 0.94687 0.86641 0.92270 1.20777 1.03203 0.96964 0.92807 1.23253 0.96821 1.01942 0.96171 1.23209 0.99968 1.02079 0.93511 1.21439 0.88294 0.96093 0.89459 0.94201 0.94220 0.93546 0.93997 0.88578 0.88566 0.91665 0.90316 0.92814 0.74955 0.74838 0.84475 0.87049 0.85584 0.86217 0.87962 0.96799 0.94062 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 N -0.93 -54.85 11.08 21.65 0.24 -54.61 16 2 C -0.05 -2.60 4.85 84.86 0.41 -2.19 16 3 Si 0.96 45.79 29.59 68.60 2.03 47.82 16 4 H -0.29 -14.08 7.11 99.48 0.71 -13.38 16 5 H -0.27 -12.64 7.11 99.48 0.71 -11.93 16 6 H -0.28 -13.50 7.11 99.48 0.71 -12.80 16 7 C -0.26 -14.41 9.42 84.03 0.79 -13.62 16 8 H 0.06 3.24 7.88 -2.91 -0.02 3.21 16 9 N -0.60 -29.29 2.58 -695.71 -1.79 -31.09 16 10 C 0.15 5.66 5.68 87.40 0.50 6.16 16 11 C -0.17 -5.23 6.03 29.57 0.18 -5.05 16 12 C 0.07 1.78 6.04 70.32 0.43 2.21 16 13 O -0.38 -12.94 9.78 -144.91 -1.42 -14.35 16 14 C 0.08 2.61 2.35 31.16 0.07 2.68 16 15 H 0.08 2.19 7.20 -2.38 -0.02 2.17 16 16 C 0.14 4.50 5.24 86.38 0.45 4.95 16 17 N -0.70 -17.92 5.49 -466.39 -2.56 -20.48 16 18 C 0.60 16.89 7.81 86.66 0.68 17.57 16 19 O -0.57 -20.13 15.33 -4.07 -0.06 -20.19 16 20 C -0.28 -6.42 6.47 -18.75 -0.12 -6.54 16 21 C 0.04 0.76 11.95 87.29 1.04 1.80 16 22 N -0.37 -7.83 12.01 -54.20 -0.65 -8.49 16 23 O 0.09 1.81 10.86 76.99 0.84 2.64 16 24 C 0.09 1.89 7.00 25.48 0.18 2.07 16 25 C -0.12 -2.21 5.74 -11.54 -0.07 -2.28 16 26 C -0.15 -1.72 10.18 30.59 0.31 -1.40 16 27 C -0.15 -2.10 10.23 30.59 0.31 -1.78 16 28 C 0.17 8.06 4.54 86.63 0.39 8.46 16 29 H 0.25 14.36 8.31 -92.70 -0.77 13.58 16 30 H 0.04 1.58 7.97 -2.39 -0.02 1.56 16 31 H 0.05 1.61 8.10 -2.39 -0.02 1.59 16 32 H 0.04 1.53 8.14 -2.39 -0.02 1.51 16 33 H 0.10 2.24 8.14 -2.38 -0.02 2.22 16 34 H 0.10 2.06 8.14 -2.39 -0.02 2.04 16 35 H 0.07 1.37 7.27 -2.39 -0.02 1.35 16 36 H 0.08 2.64 8.14 -2.39 -0.02 2.62 16 37 H 0.05 2.05 8.14 -2.39 -0.02 2.03 16 38 H 0.41 7.93 7.83 -92.70 -0.73 7.21 16 39 H 0.24 2.28 7.88 -2.91 -0.02 2.26 16 40 H 0.14 3.06 6.97 -2.39 -0.02 3.04 16 41 H 0.11 1.17 8.02 -2.39 -0.02 1.15 16 42 H 0.13 1.05 8.14 -2.39 -0.02 1.03 16 43 H 0.12 1.43 8.14 -2.39 -0.02 1.41 16 44 H 0.10 1.37 8.14 -2.38 -0.02 1.35 16 45 H 0.01 0.70 8.02 -2.39 -0.02 0.69 16 46 H 0.04 2.23 6.31 -2.39 -0.02 2.22 16 Total: -1.00 -72.01 378.46 2.46 -69.56 By element: Atomic # 1 Polarization: 15.87 SS G_CDS: 0.28 Total: 16.15 kcal Atomic # 6 Polarization: 7.49 SS G_CDS: 5.56 Total: 13.04 kcal Atomic # 7 Polarization: -109.90 SS G_CDS: -4.77 Total: -114.66 kcal Atomic # 8 Polarization: -31.26 SS G_CDS: -0.64 Total: -31.91 kcal Atomic # 14 Polarization: 45.79 SS G_CDS: 2.03 Total: 47.82 kcal Total: -72.01 2.46 -69.56 kcal The number of atoms in the molecule is 46 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. ZINC001073841117.mol2 46 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 86.175 kcal (2) G-P(sol) polarization free energy of solvation -72.015 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 14.160 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.458 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -69.556 kcal (6) G-S(sol) free energy of system = (1) + (5) 16.619 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.88 seconds