Wall clock time and date at job start Tue Mar 31 2020 22:52:38 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 1.30744 * 1 3 3 Si 1.86802 * 119.99437 * 2 1 4 4 H 1.48498 * 109.47221 * 179.97438 * 3 2 1 5 5 H 1.48496 * 109.47343 * 299.99915 * 3 2 1 6 6 H 1.48502 * 109.47197 * 59.99997 * 3 2 1 7 7 C 1.40023 * 120.00382 * 179.97438 * 2 1 3 8 8 H 1.08003 * 119.99817 * 170.15253 * 7 2 1 9 9 C 1.41546 * 120.00131 * 350.15821 * 7 2 1 10 10 C 1.41162 * 120.99966 * 151.70181 * 9 7 2 11 11 C 1.36582 * 119.12970 * 180.02562 * 10 9 7 12 12 N 1.32076 * 121.25754 * 359.74179 * 11 10 9 13 13 C 1.32485 * 122.22737 * 0.53335 * 12 11 10 14 14 N 1.39468 * 119.64850 * 179.74639 * 13 12 11 15 15 C 1.34779 * 119.99535 * 5.08275 * 14 13 12 16 16 O 1.21579 * 120.00100 * 354.98260 * 15 14 13 17 17 N 1.34779 * 119.99633 * 174.97815 * 15 14 13 18 18 C 1.46491 * 119.99985 * 180.02562 * 17 15 14 19 19 H 1.09003 * 109.47153 * 324.99720 * 18 17 15 20 20 C 1.50701 * 109.47711 * 84.99865 * 18 17 15 21 21 N 1.34766 * 120.00549 * 180.02562 * 20 18 17 22 22 O 1.21289 * 119.99534 * 0.02562 * 20 18 17 23 23 C 1.50705 * 109.47368 * 205.00163 * 18 17 15 24 24 C 1.38228 * 119.99601 * 319.72365 * 23 18 17 25 25 C 1.38235 * 120.00201 * 179.80605 * 24 23 18 26 26 C 1.38233 * 119.99469 * 0.40416 * 25 24 23 27 27 C 1.38231 * 120.00449 * 359.84990 * 26 25 24 28 28 C 1.38230 * 119.99935 * 139.99604 * 23 18 17 29 29 C 1.38638 * 120.70423 * 359.46885 * 13 12 11 30 30 H 0.96998 * 120.00685 * 359.97438 * 1 2 3 31 31 H 1.08004 * 120.43554 * 359.97438 * 10 9 7 32 32 H 1.08002 * 119.37429 * 179.97438 * 11 10 9 33 33 H 0.96995 * 120.00174 * 185.08313 * 14 13 12 34 34 H 0.96996 * 119.99762 * 359.97438 * 17 15 14 35 35 H 0.97003 * 119.99796 * 0.02562 * 21 20 18 36 36 H 0.96998 * 120.00332 * 179.97438 * 21 20 18 37 37 H 1.08007 * 120.00384 * 359.97438 * 24 23 18 38 38 H 1.08002 * 120.00435 * 180.22737 * 25 24 23 39 39 H 1.08001 * 120.00175 * 179.83173 * 26 25 24 40 40 H 1.08001 * 120.00330 * 179.97438 * 27 26 25 41 41 H 1.07997 * 120.00685 * 359.97438 * 28 23 18 42 42 H 1.08008 * 120.66465 * 180.27674 * 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 1.3074 0.0000 0.0000 3 14 2.2413 1.6178 0.0000 4 1 3.7013 1.3467 0.0006 5 1 1.8825 2.3965 -1.2125 6 1 1.8825 2.3965 1.2125 7 6 2.0076 -1.2126 0.0005 8 1 3.0757 -1.2194 -0.1594 9 6 1.3156 -2.4294 0.2106 10 6 1.7912 -3.6402 -0.3375 11 6 1.0929 -4.7920 -0.1111 12 7 -0.0118 -4.7927 0.6127 13 6 -0.5072 -3.6861 1.1469 14 7 -1.6808 -3.7480 1.8978 15 6 -2.2489 -4.9411 2.1631 16 8 -1.7909 -5.9549 1.6727 17 7 -3.3246 -5.0102 2.9722 18 6 -3.9417 -6.3070 3.2610 19 1 -3.8786 -6.9440 2.3787 20 6 -3.2175 -6.9639 4.4077 21 7 -3.6131 -8.1738 4.8502 22 8 -2.2784 -6.4036 4.9324 23 6 -5.3884 -6.1036 3.6311 24 6 -5.7534 -5.0387 4.4334 25 6 -7.0808 -4.8498 4.7696 26 6 -8.0422 -5.7306 4.3104 27 6 -7.6766 -6.7985 3.5125 28 6 -6.3495 -6.9851 3.1730 29 6 0.1318 -2.4682 0.9722 30 1 -0.4851 0.8400 0.0004 31 1 2.6949 -3.6555 -0.9287 32 1 1.4530 -5.7206 -0.5289 33 1 -2.0882 -2.9325 2.2291 34 1 -3.6896 -4.2014 3.3637 35 1 -4.3639 -8.6220 4.4303 36 1 -3.1467 -8.5967 5.5881 37 1 -5.0018 -4.3527 4.7953 38 1 -7.3665 -4.0157 5.3934 39 1 -9.0790 -5.5846 4.5753 40 1 -8.4276 -7.4869 3.1541 41 1 -6.0639 -7.8194 2.5495 42 1 -0.2702 -1.5672 1.4117 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 ZINC001434736005.mol2 42 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 22:52:38 Heat of formation + Delta-G solvation = -19.997346 kcal Electronic energy + Delta-G solvation = -28258.375524 eV Core-core repulsion = 24202.481597 eV Total energy + Delta-G solvation = -4055.893927 eV No. of doubly occupied orbitals = 62 Molecular weight (most abundant/longest-lived isotopes) = 340.132 amu Computer time = 1.11 seconds Orbital eigenvalues (eV) -41.91067 -40.86825 -39.69341 -39.56947 -36.29254 -35.80221 -35.50788 -34.78696 -32.52971 -32.24379 -31.80185 -30.32230 -28.02490 -27.80549 -24.06281 -23.79098 -23.40205 -23.15436 -21.86189 -21.22445 -19.85838 -19.45151 -18.74758 -18.35370 -17.72150 -17.33857 -17.04103 -16.48756 -16.31716 -16.15579 -16.05593 -15.88407 -15.46604 -15.41245 -15.14853 -14.77760 -14.59502 -14.34333 -14.26446 -14.17331 -13.68953 -13.39670 -13.17221 -12.87697 -12.69368 -12.17339 -12.10629 -11.94442 -11.86134 -11.65598 -11.47738 -11.36881 -11.18484 -10.73592 -10.29112 -9.89328 -9.85747 -9.73952 -9.62120 -8.86948 -8.58365 -6.56725 0.26231 0.46495 0.82417 1.00526 1.41658 1.42572 1.53797 1.56649 1.57180 2.17081 2.21839 2.56003 2.83644 2.87471 3.18062 3.41597 3.75204 3.84578 3.97348 4.10319 4.12999 4.24953 4.31615 4.59227 4.66145 4.71590 4.82881 4.91775 4.95791 5.08919 5.10804 5.20190 5.24130 5.49071 5.51789 5.54913 5.60967 5.64095 5.75560 5.83258 5.96605 6.04574 6.25032 6.34866 6.55806 6.78780 6.83072 6.89389 7.25526 7.53719 7.86972 8.31602 Molecular weight = 340.13amu Principal moments of inertia in cm(-1) A = 0.015997 B = 0.002589 C = 0.002368 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1749.884231 B =10813.442112 C =11821.366010 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.819 5.819 2 C 0.036 3.964 3 Si 0.990 3.010 4 H -0.259 1.259 5 H -0.265 1.265 6 H -0.263 1.263 7 C -0.484 4.484 8 H 0.084 0.916 9 C 0.115 3.885 10 C -0.293 4.293 11 C 0.112 3.888 12 N -0.577 5.577 13 C 0.351 3.649 14 N -0.660 5.660 15 C 0.698 3.302 16 O -0.573 6.573 17 N -0.713 5.713 18 C 0.194 3.806 19 H 0.119 0.881 20 C 0.506 3.494 21 N -0.828 5.828 22 O -0.581 6.581 23 C -0.104 4.104 24 C -0.121 4.121 25 C -0.120 4.120 26 C -0.114 4.114 27 C -0.114 4.114 28 C -0.106 4.106 29 C -0.255 4.255 30 H 0.291 0.709 31 H 0.118 0.882 32 H 0.149 0.851 33 H 0.419 0.581 34 H 0.409 0.591 35 H 0.417 0.583 36 H 0.409 0.591 37 H 0.117 0.883 38 H 0.141 0.859 39 H 0.148 0.852 40 H 0.153 0.847 41 H 0.147 0.853 42 H 0.125 0.875 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -19.911 -8.796 9.696 23.829 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 -0.445 5.445 2 C -0.180 4.180 3 Si 0.811 3.189 4 H -0.182 1.182 5 H -0.190 1.190 6 H -0.188 1.188 7 C -0.515 4.515 8 H 0.102 0.898 9 C 0.107 3.893 10 C -0.317 4.317 11 C -0.041 4.041 12 N -0.296 5.296 13 C 0.124 3.876 14 N -0.308 5.308 15 C 0.398 3.602 16 O -0.447 6.447 17 N -0.370 5.370 18 C 0.084 3.916 19 H 0.137 0.863 20 C 0.289 3.711 21 N -0.393 5.393 22 O -0.460 6.460 23 C -0.105 4.105 24 C -0.140 4.140 25 C -0.138 4.138 26 C -0.131 4.131 27 C -0.132 4.132 28 C -0.124 4.124 29 C -0.281 4.281 30 H 0.102 0.898 31 H 0.136 0.864 32 H 0.166 0.834 33 H 0.256 0.744 34 H 0.246 0.754 35 H 0.248 0.752 36 H 0.241 0.759 37 H 0.135 0.865 38 H 0.159 0.841 39 H 0.166 0.834 40 H 0.171 0.829 41 H 0.165 0.835 42 H 0.143 0.857 Dipole moment (debyes) X Y Z Total from point charges -19.626 -9.924 9.629 24.008 hybrid contribution 0.646 1.873 0.217 1.993 sum -18.981 -8.051 9.846 22.848 Atomic orbital electron populations 1.69798 1.08901 1.30705 1.35083 1.26820 0.95714 1.04526 0.90941 0.85029 0.79235 0.75694 0.78959 1.18225 1.19013 1.18766 1.19868 0.96164 0.90846 1.44654 0.89817 1.18023 0.90918 0.93415 0.86941 1.21893 1.05349 0.94481 1.09988 1.21945 0.90385 0.97617 0.94147 1.67317 1.16298 1.28851 1.17170 1.18163 0.86802 0.90481 0.92132 1.42369 1.25015 1.08610 1.54811 1.16116 0.80463 0.83819 0.79805 1.90952 1.63936 1.34374 1.55436 1.44660 1.31445 1.09618 1.51307 1.19458 0.89543 0.85755 0.96804 0.86306 1.21278 0.83153 0.82355 0.84300 1.43530 1.37494 1.19362 1.38887 1.90757 1.30323 1.65393 1.59522 1.19417 0.91361 0.98651 1.01105 1.21088 0.97550 0.97453 0.97882 1.21393 0.92140 1.00254 1.00047 1.21613 1.00617 0.94259 0.96651 1.21495 0.95851 0.98349 0.97492 1.21266 0.92782 0.99134 0.99235 1.21515 1.02115 0.95434 1.09051 0.89843 0.86407 0.83358 0.74413 0.75401 0.75184 0.75931 0.86505 0.84146 0.83445 0.82902 0.83516 0.85723 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 -0.82 -41.11 10.83 21.84 0.24 -40.87 16 2 C 0.04 1.76 5.30 85.29 0.45 2.21 16 3 Si 0.99 36.98 29.57 68.60 2.03 39.00 16 4 H -0.26 -9.52 7.11 99.48 0.71 -8.81 16 5 H -0.27 -9.50 7.11 99.48 0.71 -8.79 16 6 H -0.26 -9.38 7.11 99.48 0.71 -8.68 16 7 C -0.48 -25.78 9.13 23.52 0.21 -25.57 16 8 H 0.08 4.27 7.87 -2.91 -0.02 4.24 16 9 C 0.12 6.40 5.58 -21.11 -0.12 6.28 16 10 C -0.29 -15.14 9.85 22.60 0.22 -14.92 16 11 C 0.11 5.71 11.10 84.27 0.94 6.65 16 12 N -0.58 -31.65 7.86 -194.27 -1.53 -33.18 16 13 C 0.35 18.44 7.42 132.76 0.98 19.43 16 14 N -0.66 -28.59 5.40 -322.36 -1.74 -30.33 16 15 C 0.70 29.52 8.35 179.05 1.50 31.02 16 16 O -0.57 -28.90 14.26 -3.97 -0.06 -28.95 16 17 N -0.71 -21.96 4.56 -465.05 -2.12 -24.08 16 18 C 0.19 4.94 2.58 43.50 0.11 5.05 16 19 H 0.12 3.13 7.44 -2.39 -0.02 3.11 16 20 C 0.51 14.29 7.44 87.66 0.65 14.94 16 21 N -0.83 -14.38 8.77 -173.54 -1.52 -15.90 16 22 O -0.58 -22.89 17.16 -3.06 -0.05 -22.94 16 23 C -0.10 -1.87 4.74 -19.87 -0.09 -1.96 16 24 C -0.12 -2.09 9.05 22.27 0.20 -1.88 16 25 C -0.12 -1.57 10.05 22.27 0.22 -1.34 16 26 C -0.11 -1.15 10.05 22.27 0.22 -0.93 16 27 C -0.11 -1.10 10.05 22.27 0.22 -0.88 16 28 C -0.11 -1.33 9.51 22.27 0.21 -1.11 16 29 C -0.26 -13.79 8.60 23.00 0.20 -13.60 16 30 H 0.29 13.01 8.29 -92.71 -0.77 12.24 16 31 H 0.12 5.51 8.06 -2.91 -0.02 5.49 16 32 H 0.15 6.50 8.06 -2.91 -0.02 6.48 16 33 H 0.42 15.00 8.71 -92.71 -0.81 14.19 16 34 H 0.41 10.32 6.91 -92.71 -0.64 9.68 16 35 H 0.42 4.22 8.56 -92.71 -0.79 3.43 16 36 H 0.41 6.28 8.93 -92.71 -0.83 5.45 16 37 H 0.12 2.09 6.93 -2.91 -0.02 2.07 16 38 H 0.14 1.32 8.06 -2.91 -0.02 1.30 16 39 H 0.15 0.77 8.06 -2.91 -0.02 0.75 16 40 H 0.15 0.66 8.06 -2.91 -0.02 0.64 16 41 H 0.15 1.23 8.04 -2.91 -0.02 1.21 16 42 H 0.13 6.68 6.27 -2.91 -0.02 6.66 16 Total: -1.00 -82.65 366.76 -0.55 -83.20 By element: Atomic # 1 Polarization: 52.61 SS G_CDS: -1.94 Total: 50.67 kcal Atomic # 6 Polarization: 17.24 SS G_CDS: 6.14 Total: 23.38 kcal Atomic # 7 Polarization: -137.69 SS G_CDS: -6.67 Total: -144.37 kcal Atomic # 8 Polarization: -51.78 SS G_CDS: -0.11 Total: -51.89 kcal Atomic # 14 Polarization: 36.98 SS G_CDS: 2.03 Total: 39.00 kcal Total: -82.65 -0.55 -83.20 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. ZINC001434736005.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 63.199 kcal (2) G-P(sol) polarization free energy of solvation -82.646 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -19.447 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.550 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -83.196 kcal (6) G-S(sol) free energy of system = (1) + (5) -19.997 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.11 seconds