Wall clock time and date at job start Tue Mar 31 2020 22:21:50 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 1.31546 * 1 3 3 Si 1.86800 * 120.00027 * 2 1 4 4 H 1.48504 * 109.47154 * 239.99811 * 3 2 1 5 5 H 1.48492 * 109.47323 * 359.97438 * 3 2 1 6 6 H 1.48506 * 109.47064 * 119.99898 * 3 2 1 7 7 C 1.38657 * 120.00126 * 179.97438 * 2 1 3 8 8 H 1.07998 * 120.00199 * 180.02562 * 7 2 1 9 9 O 1.34827 * 119.99905 * 0.02562 * 7 2 1 10 10 C 1.35752 * 117.00272 * 185.05513 * 9 7 2 11 11 C 1.38888 * 120.06488 * 354.46494 * 10 9 7 12 12 C 1.38096 * 119.92811 * 180.02562 * 11 10 9 13 13 C 1.38307 * 120.07139 * 0.02562 * 12 11 10 14 14 C 1.50701 * 119.93231 * 179.97438 * 13 12 11 15 15 N 1.46497 * 109.46990 * 89.99812 * 14 13 12 16 16 C 1.34776 * 120.00026 * 180.02562 * 15 14 13 17 17 O 1.21595 * 119.99729 * 359.97438 * 16 15 14 18 18 C 1.47524 * 120.00221 * 179.97438 * 16 15 14 19 19 C 1.39533 * 120.05492 * 359.97438 * 18 16 15 20 20 C 1.37785 * 120.18333 * 179.97438 * 19 18 16 21 21 C 1.38646 * 119.98091 * 0.21474 * 20 19 18 22 22 C 1.37657 * 120.31726 * 359.97438 * 21 20 19 23 23 C 1.38879 * 120.87315 * 359.59206 * 22 21 20 24 24 O 1.35855 * 111.30286 * 181.06816 * 23 22 21 25 25 C 1.43782 * 109.23118 * 340.64683 * 24 23 22 26 26 C 1.51676 * 132.13321 * 179.10099 * 22 21 20 27 27 C 1.38307 * 120.13492 * 0.25077 * 13 12 11 28 28 C 1.38100 * 120.06819 * 359.45788 * 27 13 12 29 29 H 0.96998 * 119.99970 * 0.02562 * 1 2 3 30 30 H 1.07995 * 120.03311 * 359.97438 * 11 10 9 31 31 H 1.08004 * 119.96492 * 179.97438 * 12 11 10 32 32 H 1.09000 * 109.47032 * 329.99810 * 14 13 12 33 33 H 1.08994 * 109.46958 * 210.00217 * 14 13 12 34 34 H 0.97007 * 120.00143 * 359.97438 * 15 14 13 35 35 H 1.08002 * 119.90756 * 0.02562 * 19 18 16 36 36 H 1.07999 * 120.00790 * 180.23078 * 20 19 18 37 37 H 1.07995 * 119.83792 * 180.02562 * 21 20 19 38 38 H 1.09001 * 110.75484 * 269.56539 * 25 24 23 39 39 H 1.08994 * 110.91296 * 146.27108 * 25 24 23 40 40 H 1.08999 * 110.93774 * 313.71334 * 26 22 21 41 41 H 1.09001 * 110.94035 * 77.37078 * 26 22 21 42 42 H 1.07997 * 119.96217 * 179.70397 * 27 13 12 43 43 H 1.07998 * 120.03117 * 180.27238 * 28 27 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 1.3155 0.0000 0.0000 3 14 2.2495 1.6177 0.0000 4 1 3.1033 1.6964 -1.2125 5 1 1.2846 2.7464 -0.0006 6 1 3.1032 1.6964 1.2126 7 6 2.0088 -1.2008 0.0005 8 1 3.0888 -1.2008 0.0010 9 8 1.3347 -2.3684 0.0005 10 6 2.0698 -3.5046 0.1077 11 6 3.4571 -3.4394 0.0952 12 6 4.2023 -4.5970 0.2038 13 6 3.5685 -5.8204 0.3244 14 6 4.3847 -7.0818 0.4421 15 7 4.6553 -7.3581 1.8551 16 6 5.3745 -8.4433 2.2038 17 8 5.7983 -9.1932 1.3455 18 6 5.6476 -8.7213 3.6266 19 6 5.1622 -7.8613 4.6124 20 6 5.4152 -8.1187 5.9421 21 6 6.1577 -9.2326 6.3031 22 6 6.6446 -10.0855 5.3386 23 6 6.3966 -9.8543 3.9918 24 8 6.9454 -10.8246 3.2152 25 6 7.9643 -11.5100 3.9631 26 6 7.4844 -11.3457 5.4247 27 6 2.1871 -5.8891 0.3314 28 6 1.4364 -4.7345 0.2291 29 1 -0.4850 0.8400 -0.0004 30 1 3.9526 -2.4846 -0.0002 31 1 5.2811 -4.5471 0.1937 32 1 5.3273 -6.9556 -0.0905 33 1 3.8310 -7.9145 0.0085 34 1 4.3175 -6.7597 2.5398 35 1 4.5860 -6.9918 4.3323 36 1 5.0351 -7.4532 6.7030 37 1 6.3543 -9.4323 7.3461 38 1 8.9346 -11.0346 3.8194 39 1 8.0073 -12.5635 3.6869 40 1 8.3294 -11.2053 6.0988 41 1 6.8786 -12.1972 5.7345 42 1 1.6951 -6.8463 0.4208 43 1 0.3578 -4.7884 0.2391 RHF calculation, no. of doubly occupied orbitals= 62 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 ZINC001433661004.mol2 43 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 22:21:50 Heat of formation + Delta-G solvation = -60.197032 kcal Electronic energy + Delta-G solvation = -27262.577364 eV Core-core repulsion = 23238.073408 eV Total energy + Delta-G solvation = -4024.503956 eV No. of doubly occupied orbitals = 62 Molecular weight (most abundant/longest-lived isotopes) = 339.130 amu Computer time = 0.80 seconds Orbital eigenvalues (eV) -42.24188 -40.97296 -40.38497 -38.53353 -38.22494 -35.70151 -34.29746 -33.75981 -31.89592 -31.75415 -30.97461 -30.07811 -27.70775 -26.50472 -24.86777 -23.68539 -23.64926 -22.96880 -22.15134 -21.33907 -19.87937 -19.07452 -18.65337 -18.25778 -17.65066 -17.15075 -16.67754 -16.61089 -16.33526 -16.08783 -15.91793 -15.64889 -15.53861 -15.23512 -14.87086 -14.52617 -14.41431 -14.28857 -14.04938 -13.90641 -13.72167 -13.50102 -13.22265 -13.02474 -12.81850 -12.69638 -12.53974 -12.39252 -12.27561 -12.18026 -12.14281 -11.81574 -11.20914 -11.03103 -10.77896 -10.22329 -9.88639 -9.81814 -9.18757 -9.02448 -8.47797 -6.16105 -0.18788 0.28642 0.52635 0.56743 1.36361 1.45988 1.52160 1.83478 2.17363 2.22187 2.29590 2.77479 2.84671 3.16660 3.43309 3.47577 3.58239 3.74995 3.86892 3.96746 4.01388 4.13777 4.16432 4.20404 4.31194 4.42848 4.44709 4.55744 4.56508 4.73198 4.79174 4.81633 4.86606 4.96913 5.02734 5.13911 5.15006 5.25469 5.30466 5.37116 5.39985 5.51528 5.62586 5.68166 5.73976 6.01325 6.12690 6.14295 6.53567 6.96755 7.19618 7.75560 8.74615 Molecular weight = 339.13amu Principal moments of inertia in cm(-1) A = 0.020648 B = 0.001993 C = 0.001912 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1355.725355 B =14045.592894 C =14640.044107 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.918 5.918 2 C -0.022 4.022 3 Si 1.017 2.983 4 H -0.258 1.258 5 H -0.273 1.273 6 H -0.256 1.256 7 C -0.414 4.414 8 H 0.104 0.896 9 O -0.227 6.227 10 C 0.124 3.876 11 C -0.242 4.242 12 C -0.045 4.045 13 C -0.183 4.183 14 C 0.185 3.815 15 N -0.710 5.710 16 C 0.552 3.448 17 O -0.576 6.576 18 C -0.186 4.186 19 C -0.056 4.056 20 C -0.152 4.152 21 C -0.039 4.039 22 C -0.194 4.194 23 C 0.137 3.863 24 O -0.316 6.316 25 C 0.034 3.966 26 C -0.100 4.100 27 C -0.043 4.043 28 C -0.203 4.203 29 H 0.273 0.727 30 H 0.122 0.878 31 H 0.138 0.862 32 H 0.069 0.931 33 H 0.071 0.929 34 H 0.410 0.590 35 H 0.150 0.850 36 H 0.165 0.835 37 H 0.164 0.836 38 H 0.084 0.916 39 H 0.127 0.873 40 H 0.120 0.880 41 H 0.105 0.895 42 H 0.146 0.854 43 H 0.116 0.884 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 15.911 -19.614 15.614 29.692 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 -0.556 5.556 2 C -0.220 4.220 3 Si 0.837 3.163 4 H -0.183 1.183 5 H -0.198 1.198 6 H -0.180 1.180 7 C -0.490 4.490 8 H 0.121 0.879 9 O -0.134 6.134 10 C 0.073 3.927 11 C -0.261 4.261 12 C -0.064 4.064 13 C -0.184 4.184 14 C 0.062 3.938 15 N -0.363 5.363 16 C 0.341 3.659 17 O -0.458 6.458 18 C -0.190 4.190 19 C -0.074 4.074 20 C -0.169 4.169 21 C -0.057 4.057 22 C -0.194 4.194 23 C 0.089 3.911 24 O -0.229 6.229 25 C -0.040 4.040 26 C -0.137 4.137 27 C -0.062 4.062 28 C -0.222 4.222 29 H 0.082 0.918 30 H 0.140 0.860 31 H 0.156 0.844 32 H 0.088 0.912 33 H 0.090 0.910 34 H 0.247 0.753 35 H 0.168 0.832 36 H 0.183 0.817 37 H 0.181 0.819 38 H 0.102 0.898 39 H 0.145 0.855 40 H 0.138 0.862 41 H 0.123 0.877 42 H 0.164 0.836 43 H 0.135 0.865 Dipole moment (debyes) X Y Z Total from point charges 15.751 -20.033 14.711 29.425 hybrid contribution -0.214 1.215 -0.186 1.248 sum 15.537 -18.818 14.526 28.399 Atomic orbital electron populations 1.70168 1.08010 1.28937 1.48442 1.26582 0.96834 1.02754 0.95780 0.84661 0.77404 0.74311 0.79957 1.18284 1.19762 1.18006 1.21792 0.92578 0.81315 1.53337 0.87890 1.83949 1.36025 1.12643 1.80734 1.19982 0.91600 0.87953 0.93188 1.21238 0.92998 1.00007 1.11883 1.20927 0.99791 0.90702 0.94938 1.19450 0.93482 0.93949 1.11532 1.19892 0.98374 0.93807 0.81690 1.46053 1.54431 1.26554 1.09234 1.18504 0.77831 0.80702 0.88833 1.90780 1.53296 1.49087 1.52589 1.19369 1.09113 0.97314 0.93226 1.21371 0.96121 0.97229 0.92701 1.21407 1.00600 0.99100 0.95838 1.20944 0.92974 0.91591 1.00182 1.21226 1.05800 1.00357 0.92064 1.19856 0.92818 0.87934 0.90473 1.86960 1.50857 1.44230 1.40877 1.24259 0.90427 0.99353 0.90002 1.21880 1.00001 0.94515 0.97262 1.20865 0.92984 0.97042 0.95293 1.20434 1.00103 0.90314 1.11363 0.91789 0.86020 0.84411 0.91227 0.91030 0.75278 0.83243 0.81745 0.81855 0.89765 0.85481 0.86199 0.87702 0.83642 0.86549 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 -55.24 13.67 21.61 0.30 -54.94 16 2 C -0.02 -1.19 5.49 84.84 0.47 -0.73 16 3 Si 1.02 41.75 29.55 68.60 2.03 43.77 16 4 H -0.26 -10.00 7.11 99.48 0.71 -9.30 16 5 H -0.27 -10.83 7.11 99.48 0.71 -10.12 16 6 H -0.26 -9.79 7.11 99.48 0.71 -9.09 16 7 C -0.41 -23.42 9.49 67.92 0.64 -22.77 16 8 H 0.10 5.30 5.20 -2.91 -0.02 5.28 16 9 O -0.23 -13.27 9.76 -22.73 -0.22 -13.50 16 10 C 0.12 5.90 6.65 22.58 0.15 6.05 16 11 C -0.24 -9.98 9.17 22.39 0.21 -9.78 16 12 C -0.05 -1.47 9.69 22.25 0.22 -1.26 16 13 C -0.18 -5.47 5.25 -19.83 -0.10 -5.57 16 14 C 0.18 4.96 5.80 85.63 0.50 5.46 16 15 N -0.71 -17.86 5.50 -470.02 -2.58 -20.44 16 16 C 0.55 16.38 7.76 86.69 0.67 17.06 16 17 O -0.58 -21.76 15.87 10.88 0.17 -21.59 16 18 C -0.19 -4.60 5.89 -19.93 -0.12 -4.72 16 19 C -0.06 -0.97 9.51 22.47 0.21 -0.75 16 20 C -0.15 -1.91 10.05 22.26 0.22 -1.68 16 21 C -0.04 -0.46 10.02 22.23 0.22 -0.24 16 22 C -0.19 -3.13 6.27 -19.54 -0.12 -3.26 16 23 C 0.14 3.33 6.72 23.01 0.15 3.48 16 24 O -0.32 -8.34 10.13 -77.03 -0.78 -9.12 16 25 C 0.03 0.47 8.01 72.57 0.58 1.05 16 26 C -0.10 -0.99 7.12 30.74 0.22 -0.77 16 27 C -0.04 -1.38 9.69 22.25 0.22 -1.16 16 28 C -0.20 -8.19 9.99 22.39 0.22 -7.96 16 29 H 0.27 15.10 8.31 -92.71 -0.77 14.32 16 30 H 0.12 5.11 5.64 -2.91 -0.02 5.09 16 31 H 0.14 3.73 8.06 -2.91 -0.02 3.70 16 32 H 0.07 1.90 8.08 -2.39 -0.02 1.88 16 33 H 0.07 1.94 8.08 -2.39 -0.02 1.92 16 34 H 0.41 8.61 6.47 -92.70 -0.60 8.01 16 35 H 0.15 2.05 6.37 -2.91 -0.02 2.03 16 36 H 0.17 1.09 8.06 -2.91 -0.02 1.07 16 37 H 0.16 0.77 8.06 -2.91 -0.02 0.75 16 38 H 0.08 1.02 8.14 -2.39 -0.02 1.00 16 39 H 0.13 1.17 8.14 -2.39 -0.02 1.15 16 40 H 0.12 0.53 8.14 -2.39 -0.02 0.51 16 41 H 0.10 0.77 8.14 -2.39 -0.02 0.75 16 42 H 0.15 3.72 8.06 -2.91 -0.02 3.70 16 43 H 0.12 4.66 8.06 -2.91 -0.02 4.64 16 Total: -1.00 -79.99 369.40 3.94 -76.05 By element: Atomic # 1 Polarization: 26.85 SS G_CDS: 0.47 Total: 27.32 kcal Atomic # 6 Polarization: -32.11 SS G_CDS: 4.56 Total: -27.55 kcal Atomic # 7 Polarization: -73.10 SS G_CDS: -2.29 Total: -75.38 kcal Atomic # 8 Polarization: -43.38 SS G_CDS: -0.83 Total: -44.21 kcal Atomic # 14 Polarization: 41.75 SS G_CDS: 2.03 Total: 43.77 kcal Total: -79.99 3.94 -76.05 kcal The number of atoms in the molecule is 43 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. ZINC001433661004.mol2 43 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 15.855 kcal (2) G-P(sol) polarization free energy of solvation -79.989 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -64.134 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.937 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.052 kcal (6) G-S(sol) free energy of system = (1) + (5) -60.197 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.80 seconds