Wall clock time and date at job start Tue Mar 31 2020 10:45:38 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 1.31518 * 1 3 3 Si 1.86795 * 119.99744 * 2 1 4 4 H 1.48496 * 109.47513 * 270.00033 * 3 2 1 5 5 H 1.48506 * 109.47263 * 30.00085 * 3 2 1 6 6 H 1.48498 * 109.47090 * 149.99649 * 3 2 1 7 7 C 1.37878 * 120.00134 * 179.97438 * 2 1 3 8 8 H 1.07996 * 120.00071 * 179.97438 * 7 2 1 9 9 C 1.50702 * 119.99692 * 0.02562 * 7 2 1 10 10 O 1.42895 * 110.64091 * 298.30506 * 9 7 2 11 11 C 1.55448 * 110.70612 * 174.99986 * 9 7 2 12 12 C 1.54905 * 101.45165 * 206.14440 * 11 9 7 13 13 N 1.47419 * 104.92834 * 37.00468 * 12 11 9 14 14 C 1.34780 * 125.65139 * 155.80015 * 13 12 11 15 15 O 1.21584 * 120.00061 * 180.02562 * 14 13 12 16 16 N 1.34779 * 119.99751 * 0.02562 * 14 13 12 17 17 C 1.46493 * 120.00093 * 180.02562 * 16 14 13 18 18 H 1.09004 * 110.01927 * 326.38876 * 17 16 14 19 19 C 1.54265 * 110.03707 * 87.83518 * 17 16 14 20 20 C 1.54883 * 104.19549 * 95.67222 * 19 17 16 21 21 C 1.54886 * 102.75060 * 37.94945 * 20 19 17 22 22 H 1.08999 * 110.48814 * 80.73112 * 21 20 19 23 23 C 1.50703 * 110.48869 * 203.37792 * 21 20 19 24 24 O 1.20828 * 119.99754 * 114.76875 * 23 21 20 25 25 O 1.34227 * 119.99676 * 294.77487 * 23 21 20 26 26 C 1.53878 * 110.03269 * 205.00394 * 17 16 14 27 27 C 1.47026 * 108.70576 * 335.81449 * 13 12 11 28 28 H 0.97000 * 120.00099 * 359.97438 * 1 2 3 29 29 H 0.96705 * 114.00065 * 61.69148 * 10 9 7 30 30 H 1.09002 * 111.11560 * 88.08755 * 11 9 7 31 31 H 1.09004 * 111.00873 * 324.15164 * 11 9 7 32 32 H 1.09002 * 110.36692 * 278.10842 * 12 11 9 33 33 H 1.08995 * 110.36664 * 155.89643 * 12 11 9 34 34 H 0.97003 * 119.99602 * 0.02562 * 16 14 13 35 35 H 1.09000 * 110.48865 * 214.35955 * 19 17 16 36 36 H 1.09005 * 110.48067 * 337.00027 * 19 17 16 37 37 H 1.09006 * 110.75737 * 279.62758 * 20 19 17 38 38 H 1.09000 * 110.75662 * 156.26362 * 20 19 17 39 39 H 0.96701 * 116.99414 * 179.97438 * 25 23 21 40 40 H 1.09003 * 110.02902 * 359.97438 * 26 17 16 41 41 H 1.08998 * 110.03326 * 121.43234 * 26 17 16 42 42 H 1.08998 * 109.88266 * 120.47537 * 27 13 12 43 43 H 1.08997 * 109.88244 * 241.48894 * 27 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 1.3152 0.0000 0.0000 3 14 2.2491 1.6177 0.0000 4 1 2.4966 2.0465 -1.4000 5 1 1.4465 2.6527 0.7001 6 1 3.5466 1.4402 0.7001 7 6 2.0046 -1.1940 0.0005 8 1 3.0846 -1.1940 0.0001 9 6 1.2510 -2.4991 0.0005 10 8 0.4496 -2.6181 1.1776 11 6 2.2307 -3.6995 -0.1256 12 6 1.3211 -4.7719 -0.7752 13 7 0.4655 -4.0253 -1.7152 14 6 -0.1392 -4.5390 -2.8048 15 8 -0.8248 -3.8265 -3.5122 16 7 0.0163 -5.8425 -3.1100 17 6 -0.6404 -6.4008 -4.2946 18 1 -1.5975 -5.9056 -4.4588 19 6 0.2646 -6.2274 -5.5317 20 6 1.0155 -7.5773 -5.6452 21 6 -0.0712 -8.6074 -5.2491 22 1 -0.7274 -8.8139 -6.0946 23 6 0.5645 -9.8794 -4.7501 24 8 0.4174 -10.2172 -3.5994 25 8 1.2941 -10.6369 -5.5841 26 6 -0.8541 -7.9140 -4.1148 27 6 0.3811 -2.6274 -1.2677 28 1 -0.4850 0.8400 0.0004 29 1 -0.2286 -1.9339 1.2625 30 1 2.5807 -4.0252 0.8540 31 1 3.0697 -3.4525 -0.7762 32 1 0.7122 -5.2632 -0.0162 33 1 1.9230 -5.5058 -1.3110 34 1 0.5630 -6.4110 -2.5453 35 1 -0.3373 -6.0495 -6.4229 36 1 0.9696 -5.4106 -5.3770 37 1 1.8536 -7.6129 -4.9491 38 1 1.3537 -7.7465 -6.6675 39 1 1.6823 -11.4435 -5.2182 40 1 -0.4687 -8.2331 -3.1464 41 1 -1.9146 -8.1533 -4.1928 42 1 0.7607 -1.9654 -2.0460 43 1 -0.6536 -2.3736 -1.0375 RHF calculation, no. of doubly occupied orbitals= 59 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 ZINC001574480321.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 10:45:38 Heat of formation + Delta-G solvation = -200.362293 kcal Electronic energy + Delta-G solvation = -26685.366883 eV Core-core repulsion = 22728.958407 eV Total energy + Delta-G solvation = -3956.408476 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 312.156 amu Computer time = 0.59 seconds Orbital eigenvalues (eV) -41.70018 -41.13674 -39.49413 -38.36283 -37.03932 -36.06201 -34.56023 -34.22665 -31.71753 -30.10889 -29.71480 -29.03270 -26.81011 -24.43623 -24.08610 -21.93149 -21.43603 -20.98601 -20.68804 -19.21758 -19.07143 -18.80185 -18.00519 -17.36570 -17.06589 -16.88657 -16.56628 -16.19086 -15.97000 -15.58494 -14.92700 -14.77930 -14.72174 -14.51360 -14.29134 -13.89492 -13.51448 -13.33660 -13.05226 -12.84731 -12.76198 -12.67196 -12.54831 -12.51588 -12.33455 -12.28461 -12.23397 -12.09669 -11.97991 -11.76666 -11.40412 -11.25903 -11.15662 -10.65325 -10.28904 -10.18408 -9.39389 -8.25647 -6.41603 1.21895 1.41432 1.43347 1.53195 1.67136 2.12620 2.17857 2.38385 3.00943 3.06992 3.39357 3.50697 3.78951 3.96368 4.05971 4.16740 4.27496 4.32606 4.36801 4.42874 4.46438 4.52994 4.57728 4.65647 4.72292 4.89423 5.00786 5.05491 5.10128 5.12385 5.21854 5.23784 5.26161 5.36280 5.50011 5.65418 5.66909 5.74791 6.03753 6.18179 6.65182 7.02225 7.06513 7.27847 7.35324 7.58583 8.80474 Molecular weight = 312.16amu Principal moments of inertia in cm(-1) A = 0.026724 B = 0.002936 C = 0.002850 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1047.495217 B = 9534.760169 C = 9821.620854 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 0.024 3.976 3 Si 0.964 3.036 4 H -0.279 1.279 5 H -0.282 1.282 6 H -0.265 1.265 7 C -0.557 4.557 8 H 0.067 0.933 9 C 0.233 3.767 10 O -0.587 6.587 11 C -0.110 4.110 12 C 0.108 3.892 13 N -0.636 5.636 14 C 0.711 3.289 15 O -0.641 6.641 16 N -0.724 5.724 17 C 0.154 3.846 18 H 0.076 0.924 19 C -0.131 4.131 20 C -0.099 4.099 21 C -0.081 4.081 22 H 0.145 0.855 23 C 0.492 3.508 24 O -0.550 6.550 25 O -0.509 6.509 26 C -0.115 4.115 27 C 0.143 3.857 28 H 0.270 0.730 29 H 0.375 0.625 30 H 0.090 0.910 31 H 0.084 0.916 32 H 0.068 0.932 33 H 0.098 0.902 34 H 0.404 0.596 35 H 0.093 0.907 36 H 0.054 0.946 37 H 0.066 0.934 38 H 0.103 0.897 39 H 0.427 0.573 40 H 0.081 0.919 41 H 0.098 0.902 42 H 0.029 0.971 43 H 0.027 0.973 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 2.798 -20.268 -11.530 23.486 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 -0.555 5.555 2 C -0.176 4.176 3 Si 0.789 3.211 4 H -0.205 1.205 5 H -0.207 1.207 6 H -0.189 1.189 7 C -0.595 4.595 8 H 0.085 0.915 9 C 0.192 3.808 10 O -0.395 6.395 11 C -0.148 4.148 12 C -0.014 4.014 13 N -0.373 5.373 14 C 0.413 3.587 15 O -0.523 6.523 16 N -0.381 5.381 17 C 0.049 3.951 18 H 0.094 0.906 19 C -0.170 4.170 20 C -0.137 4.137 21 C -0.100 4.100 22 H 0.163 0.837 23 C 0.336 3.664 24 O -0.441 6.441 25 O -0.323 6.323 26 C -0.153 4.153 27 C 0.019 3.981 28 H 0.079 0.921 29 H 0.224 0.776 30 H 0.108 0.892 31 H 0.102 0.898 32 H 0.087 0.913 33 H 0.116 0.884 34 H 0.241 0.759 35 H 0.112 0.888 36 H 0.072 0.928 37 H 0.085 0.915 38 H 0.121 0.879 39 H 0.288 0.712 40 H 0.100 0.900 41 H 0.117 0.883 42 H 0.048 0.952 43 H 0.045 0.955 Dipole moment (debyes) X Y Z Total from point charges 2.287 -19.955 -11.853 23.322 hybrid contribution 0.129 1.105 0.629 1.278 sum 2.417 -18.850 -11.224 22.071 Atomic orbital electron populations 1.69814 1.07120 1.28437 1.50091 1.25833 0.95813 1.02860 0.93136 0.85464 0.78819 0.78721 0.78084 1.20454 1.20742 1.18905 1.21828 0.93915 0.91347 1.52410 0.91466 1.19773 0.87055 0.93483 0.80454 1.86090 1.51690 1.56272 1.45449 1.22761 0.96886 0.93755 1.01360 1.22360 0.92353 0.94814 0.91892 1.47913 1.51614 1.11973 1.25825 1.15746 0.79826 0.82941 0.80187 1.90841 1.46610 1.60925 1.53920 1.45225 1.55164 1.07248 1.30474 1.21544 0.96192 0.93366 0.84025 0.90592 1.22789 0.98714 0.97521 0.98000 1.22434 0.96036 0.91666 1.03538 1.21916 0.98501 0.88876 1.00720 0.83738 1.23503 0.74766 0.85117 0.83027 1.90732 1.59746 1.72457 1.21156 1.84503 1.62696 1.39229 1.45825 1.22406 1.02159 0.91474 0.99277 1.22312 0.99006 0.79143 0.97598 0.92120 0.77594 0.89196 0.89792 0.91337 0.88404 0.75915 0.88812 0.92759 0.91528 0.87886 0.71160 0.90006 0.88325 0.95239 0.95490 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 14. 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 -50.56 10.97 21.45 0.24 -50.32 16 2 C 0.02 1.30 5.28 84.65 0.45 1.75 16 3 Si 0.96 42.45 29.54 68.60 2.03 44.48 16 4 H -0.28 -12.20 7.11 99.48 0.71 -11.50 16 5 H -0.28 -12.21 7.11 99.48 0.71 -11.51 16 6 H -0.26 -11.24 7.11 99.48 0.71 -10.53 16 7 C -0.56 -29.46 8.12 25.60 0.21 -29.26 16 8 H 0.07 3.45 7.78 -2.91 -0.02 3.43 16 9 C 0.23 11.39 0.85 -10.25 -0.01 11.38 16 10 O -0.59 -30.03 13.09 -148.98 -1.95 -31.98 16 11 C -0.11 -4.20 6.25 32.09 0.20 -4.00 16 12 C 0.11 3.59 6.56 86.85 0.57 4.16 16 13 N -0.64 -26.49 3.33 -829.78 -2.76 -29.25 16 14 C 0.71 28.64 8.49 179.05 1.52 30.16 16 15 O -0.64 -31.39 16.32 -3.98 -0.06 -31.45 16 16 N -0.72 -20.56 4.99 -454.35 -2.27 -22.83 16 17 C 0.15 3.51 3.25 45.72 0.15 3.66 16 18 H 0.08 2.06 7.56 -2.38 -0.02 2.05 16 19 C -0.13 -2.51 6.54 31.67 0.21 -2.31 16 20 C -0.10 -1.30 6.32 31.88 0.20 -1.10 16 21 C -0.08 -0.99 3.36 -10.46 -0.04 -1.03 16 22 H 0.14 1.02 8.14 -2.39 -0.02 1.00 16 23 C 0.49 7.28 7.62 71.24 0.54 7.82 16 24 O -0.55 -12.13 16.18 21.96 0.36 -11.78 16 25 O -0.51 -4.90 13.42 -51.39 -0.69 -5.59 16 26 C -0.12 -1.92 5.95 31.32 0.19 -1.73 16 27 C 0.14 7.29 5.24 86.73 0.45 7.74 16 28 H 0.27 14.27 8.31 -92.71 -0.77 13.50 16 29 H 0.37 20.05 7.45 -74.05 -0.55 19.50 16 30 H 0.09 3.18 8.14 -2.39 -0.02 3.16 16 31 H 0.08 3.07 8.04 -2.38 -0.02 3.05 16 32 H 0.07 2.22 8.14 -2.39 -0.02 2.20 16 33 H 0.10 2.43 7.29 -2.39 -0.02 2.42 16 34 H 0.40 9.61 6.80 -92.71 -0.63 8.98 16 35 H 0.09 1.52 8.14 -2.39 -0.02 1.50 16 36 H 0.05 1.34 8.04 -2.38 -0.02 1.32 16 37 H 0.07 0.97 8.05 -2.38 -0.02 0.95 16 38 H 0.10 0.96 8.14 -2.39 -0.02 0.94 16 39 H 0.43 0.91 9.10 -74.06 -0.67 0.24 16 40 H 0.08 1.61 6.33 -2.39 -0.02 1.60 16 41 H 0.10 1.40 8.14 -2.39 -0.02 1.38 16 42 H 0.03 1.66 7.81 -2.39 -0.02 1.64 16 43 H 0.03 1.53 7.93 -2.39 -0.02 1.51 16 Total: -1.00 -73.39 352.33 -1.26 -74.65 By element: Atomic # 1 Polarization: 37.61 SS G_CDS: -0.79 Total: 36.82 kcal Atomic # 6 Polarization: 22.61 SS G_CDS: 4.64 Total: 27.25 kcal Atomic # 7 Polarization: -97.62 SS G_CDS: -4.79 Total: -102.41 kcal Atomic # 8 Polarization: -78.45 SS G_CDS: -2.35 Total: -80.80 kcal Atomic # 14 Polarization: 42.45 SS G_CDS: 2.03 Total: 44.48 kcal Total: -73.39 -1.26 -74.65 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. ZINC001574480321.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 -125.708 kcal (2) G-P(sol) polarization free energy of solvation -73.390 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -199.098 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.264 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -74.655 kcal (6) G-S(sol) free energy of system = (1) + (5) -200.362 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.59 seconds