Wall clock time and date at job start Tue Mar 31 2020 05:11:58 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 1.31516 * 1 3 3 Si 1.86794 * 120.00268 * 2 1 4 4 H 1.48507 * 109.47190 * 269.99505 * 3 2 1 5 5 H 1.48493 * 109.47442 * 29.99484 * 3 2 1 6 6 H 1.48497 * 109.47646 * 150.00128 * 3 2 1 7 7 C 1.37882 * 120.00001 * 179.97438 * 2 1 3 8 8 H 1.08005 * 119.99731 * 0.02562 * 7 2 1 9 9 C 1.50690 * 120.00275 * 180.02562 * 7 2 1 10 10 N 1.46905 * 109.47485 * 180.02562 * 9 7 2 11 11 C 1.47440 * 110.99868 * 75.12641 * 10 9 7 12 12 C 1.54320 * 107.23396 * 123.25859 * 11 10 9 13 13 C 1.55255 * 103.08292 * 22.20541 * 12 11 10 14 14 C 1.47842 * 111.00063 * 195.96877 * 10 9 7 15 15 H 1.08997 * 110.37493 * 332.58006 * 14 10 9 16 16 C 1.53007 * 110.37068 * 94.80868 * 14 10 9 17 17 C 1.53000 * 109.46920 * 294.41628 * 16 14 10 18 18 H 1.08997 * 109.47034 * 57.04450 * 17 16 14 19 19 O 1.42899 * 109.47057 * 297.04024 * 17 16 14 20 20 C 1.50700 * 109.46694 * 177.03996 * 17 16 14 21 21 C 1.33386 * 125.20403 * 264.99668 * 20 17 16 22 22 C 1.38422 * 114.92318 * 179.97438 * 21 20 17 23 23 C 1.33386 * 114.92049 * 0.02562 * 22 21 20 24 24 S 1.75879 * 125.20549 * 84.69889 * 20 17 16 25 25 H 0.96999 * 119.99847 * 0.02562 * 1 2 3 26 26 H 1.08998 * 109.47466 * 60.00025 * 9 7 2 27 27 H 1.09007 * 109.47294 * 300.00325 * 9 7 2 28 28 H 1.08999 * 109.89201 * 242.66627 * 11 10 9 29 29 H 1.09003 * 109.89334 * 3.85563 * 11 10 9 30 30 H 1.09002 * 110.70498 * 140.66757 * 12 11 10 31 31 H 1.09004 * 110.70691 * 263.72528 * 12 11 10 32 32 H 1.09004 * 111.09060 * 206.38421 * 13 12 11 33 33 H 1.08998 * 110.94579 * 82.53216 * 13 12 11 34 34 H 1.09004 * 109.46985 * 174.41610 * 16 14 10 35 35 H 1.09001 * 109.47098 * 54.41600 * 16 14 10 36 36 H 0.96698 * 113.99987 * 299.99934 * 19 17 16 37 37 H 1.08003 * 122.53788 * 0.02562 * 21 20 17 38 38 H 1.08000 * 122.53643 * 180.02562 * 22 21 20 39 39 H 1.07999 * 125.20488 * 179.97438 * 23 22 21 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 2.2492 1.6176 0.0000 4 1 2.4969 2.0463 -1.4001 5 1 1.4467 2.6526 0.6999 6 1 3.5468 1.4401 0.7000 7 6 2.0046 -1.1941 0.0005 8 1 1.4645 -2.1294 0.0005 9 6 3.5115 -1.1942 0.0011 10 7 4.0012 -2.5792 0.0010 11 6 3.8447 -3.1948 -1.3296 12 6 5.2409 -3.6753 -1.7781 13 6 6.0119 -3.8149 -0.4377 14 6 5.4287 -2.6365 0.3813 15 1 5.9297 -1.7055 0.1162 16 6 5.5701 -2.9081 1.8804 17 6 5.0127 -1.7211 2.6685 18 1 3.9747 -1.5506 2.3829 19 8 5.7841 -0.5534 2.3800 20 6 5.0852 -2.0193 4.1439 21 6 4.0918 -2.5259 4.8758 22 6 4.3911 -2.7157 6.2139 23 6 5.6275 -2.3626 6.5688 24 16 6.4951 -1.7596 5.1628 25 1 -0.4850 0.8400 -0.0004 26 1 3.8745 -0.6802 0.8911 27 1 3.8752 -0.6805 -0.8889 28 1 3.1628 -4.0429 -1.2679 29 1 3.4613 -2.4586 -2.0361 30 1 5.1726 -4.6372 -2.2862 31 1 5.7154 -2.9341 -2.4213 32 1 7.0846 -3.6930 -0.5877 33 1 5.7921 -4.7694 0.0406 34 1 6.6229 -3.0459 2.1269 35 1 5.0151 -3.8096 2.1402 36 1 6.7201 -0.6338 2.6092 37 1 3.1272 -2.7704 4.4560 38 1 3.6776 -3.1190 6.9172 39 1 6.0349 -2.4393 7.5661 RHF calculation, no. of doubly occupied orbitals= 50 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 ZINC000267436426.mol2 39 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 05:11:58 Heat of formation + Delta-G solvation = -34.605412 kcal Electronic energy + Delta-G solvation = -20454.915144 eV Core-core repulsion = 17488.093018 eV Total energy + Delta-G solvation = -2966.822125 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 281.119 amu Computer time = 0.47 seconds Orbital eigenvalues (eV) -40.48643 -38.98787 -37.63354 -35.10995 -33.08260 -32.86079 -30.80766 -28.69727 -27.62399 -25.19684 -24.10287 -22.80136 -21.82780 -20.87894 -20.29079 -18.83755 -18.71113 -17.48062 -16.82113 -16.60633 -16.25697 -16.03009 -15.69114 -14.88182 -14.64166 -14.45740 -14.14600 -14.03902 -13.68785 -13.59696 -13.54576 -13.16504 -12.94171 -12.78122 -12.40485 -12.22007 -12.12419 -11.90231 -11.80188 -11.77082 -11.65758 -11.54202 -11.17894 -11.06730 -10.77002 -9.57125 -9.35663 -8.97965 -8.29919 -6.30801 0.04920 0.66773 1.04797 1.28368 1.32482 1.45770 1.82101 2.32109 3.03655 3.24745 3.48948 3.51298 3.81760 3.94724 4.18681 4.22084 4.26846 4.31395 4.45283 4.56472 4.64007 4.70493 4.78448 4.85281 4.88625 4.98688 5.02164 5.08930 5.13188 5.16663 5.28534 5.32399 5.40701 5.44714 5.56299 5.61266 6.04537 6.39153 6.67482 6.71508 6.75695 7.32891 8.86865 Molecular weight = 281.12amu Principal moments of inertia in cm(-1) A = 0.013731 B = 0.006619 C = 0.005174 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2038.720067 B = 4229.415280 C = 5410.144236 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.947 5.947 2 C 0.012 3.988 3 Si 0.933 3.067 4 H -0.269 1.269 5 H -0.281 1.281 6 H -0.251 1.251 7 C -0.508 4.508 8 H 0.036 0.964 9 C 0.166 3.834 10 N -0.529 5.529 11 C 0.047 3.953 12 C -0.133 4.133 13 C -0.111 4.111 14 C 0.064 3.936 15 H 0.046 0.954 16 C -0.110 4.110 17 C 0.172 3.828 18 H 0.094 0.906 19 O -0.563 6.563 20 C -0.218 4.218 21 C -0.150 4.150 22 C -0.142 4.142 23 C -0.210 4.210 24 S 0.118 5.882 25 H 0.265 0.735 26 H 0.044 0.956 27 H -0.027 1.027 28 H 0.059 0.941 29 H 0.030 0.970 30 H 0.091 0.909 31 H 0.066 0.934 32 H 0.096 0.904 33 H 0.081 0.919 34 H 0.093 0.907 35 H 0.075 0.925 36 H 0.379 0.621 37 H 0.128 0.872 38 H 0.159 0.841 39 H 0.194 0.806 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 18.481 -7.007 9.026 21.728 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 -0.588 5.588 2 C -0.185 4.185 3 Si 0.757 3.243 4 H -0.194 1.194 5 H -0.207 1.207 6 H -0.175 1.175 7 C -0.546 4.546 8 H 0.055 0.945 9 C 0.038 3.962 10 N -0.254 5.254 11 C -0.081 4.081 12 C -0.171 4.171 13 C -0.149 4.149 14 C -0.044 4.044 15 H 0.064 0.936 16 C -0.149 4.149 17 C 0.111 3.889 18 H 0.112 0.888 19 O -0.369 6.369 20 C -0.335 4.335 21 C -0.181 4.181 22 C -0.172 4.172 23 C -0.345 4.345 24 S 0.381 5.619 25 H 0.074 0.926 26 H 0.062 0.938 27 H -0.009 1.009 28 H 0.078 0.922 29 H 0.048 0.952 30 H 0.110 0.890 31 H 0.085 0.915 32 H 0.114 0.886 33 H 0.100 0.900 34 H 0.111 0.889 35 H 0.094 0.906 36 H 0.227 0.773 37 H 0.146 0.854 38 H 0.176 0.824 39 H 0.211 0.789 Dipole moment (debyes) X Y Z Total from point charges 18.918 -6.393 8.960 21.887 hybrid contribution -1.304 0.653 -0.316 1.492 sum 17.613 -5.740 8.644 20.443 Atomic orbital electron populations 1.70039 1.07859 1.27836 1.53052 1.25720 0.95479 1.02590 0.94691 0.85908 0.79813 0.79546 0.79024 1.19400 1.20661 1.17498 1.21279 0.91304 0.92929 1.49097 0.94541 1.20253 0.93965 0.86810 0.95138 1.63311 1.16912 1.18392 1.26749 1.22686 0.97878 0.98213 0.89348 1.22787 0.94208 1.02181 0.97933 1.22723 1.00102 0.97806 0.94253 1.22642 0.88202 0.98241 0.95333 0.93626 1.22088 1.01714 0.97576 0.93501 1.20438 0.96755 0.85596 0.86143 0.88789 1.86713 1.24521 1.38635 1.87052 1.25538 0.98958 1.08357 1.00686 1.20357 1.00154 1.02863 0.94697 1.20354 0.97753 1.03561 0.95531 1.25968 0.98108 1.07381 1.03084 1.83738 1.14128 1.64087 0.99931 0.92564 0.93812 1.00911 0.92233 0.95185 0.89005 0.91548 0.88598 0.90006 0.88902 0.90629 0.77281 0.85372 0.82353 0.78888 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 -0.95 -61.02 13.96 21.45 0.30 -60.72 16 2 C 0.01 0.75 5.47 84.66 0.46 1.22 16 3 Si 0.93 46.84 27.47 68.60 1.88 48.72 16 4 H -0.27 -12.96 7.11 99.48 0.71 -12.25 16 5 H -0.28 -13.75 7.11 99.48 0.71 -13.05 16 6 H -0.25 -12.26 6.54 99.48 0.65 -11.61 16 7 C -0.51 -30.46 9.49 25.60 0.24 -30.22 16 8 H 0.04 2.43 8.06 -2.91 -0.02 2.41 16 9 C 0.17 8.30 2.79 85.55 0.24 8.54 16 10 N -0.53 -22.08 4.58 -865.18 -3.97 -26.05 16 11 C 0.05 1.79 6.51 86.65 0.56 2.35 16 12 C -0.13 -3.58 6.94 31.82 0.22 -3.36 16 13 C -0.11 -2.68 6.51 32.02 0.21 -2.48 16 14 C 0.06 2.05 2.45 45.39 0.11 2.16 16 15 H 0.05 1.55 7.39 -2.39 -0.02 1.53 16 16 C -0.11 -3.12 4.61 30.60 0.14 -2.98 16 17 C 0.17 5.70 2.62 29.85 0.08 5.78 16 18 H 0.09 4.08 5.83 -2.39 -0.01 4.07 16 19 O -0.56 -18.42 12.05 -148.98 -1.80 -20.22 16 20 C -0.22 -6.33 5.52 24.59 0.14 -6.19 16 21 C -0.15 -4.38 10.05 21.22 0.21 -4.17 16 22 C -0.14 -3.24 10.18 21.22 0.22 -3.02 16 23 C -0.21 -4.09 11.23 66.72 0.75 -3.34 16 24 S 0.12 2.53 22.54 -56.49 -1.27 1.26 16 25 H 0.27 15.99 8.31 -92.71 -0.77 15.22 16 26 H 0.04 2.22 3.91 -2.39 -0.01 2.21 16 27 H -0.03 -1.37 7.22 -2.38 -0.02 -1.39 16 28 H 0.06 2.30 8.14 -2.39 -0.02 2.28 16 29 H 0.03 1.29 7.36 -2.39 -0.02 1.27 16 30 H 0.09 2.04 8.14 -2.39 -0.02 2.02 16 31 H 0.07 1.73 8.14 -2.39 -0.02 1.71 16 32 H 0.10 1.78 8.14 -2.39 -0.02 1.76 16 33 H 0.08 1.85 8.06 -2.39 -0.02 1.83 16 34 H 0.09 2.01 8.14 -2.38 -0.02 1.99 16 35 H 0.08 2.23 8.14 -2.39 -0.02 2.21 16 36 H 0.38 8.85 8.40 -74.06 -0.62 8.23 16 37 H 0.13 4.05 8.06 -2.91 -0.02 4.03 16 38 H 0.16 2.87 8.06 -2.91 -0.02 2.84 16 39 H 0.19 2.42 8.06 -2.91 -0.02 2.40 16 Total: -1.00 -72.09 323.28 -0.90 -72.99 By element: Atomic # 1 Polarization: 19.35 SS G_CDS: 0.37 Total: 19.71 kcal Atomic # 6 Polarization: -39.29 SS G_CDS: 3.58 Total: -35.70 kcal Atomic # 7 Polarization: -83.10 SS G_CDS: -3.67 Total: -86.76 kcal Atomic # 8 Polarization: -18.42 SS G_CDS: -1.80 Total: -20.22 kcal Atomic # 14 Polarization: 46.84 SS G_CDS: 1.88 Total: 48.72 kcal Atomic # 16 Polarization: 2.53 SS G_CDS: -1.27 Total: 1.26 kcal Total: -72.09 -0.90 -72.99 kcal The number of atoms in the molecule is 39 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. ZINC000267436426.mol2 39 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 38.380 kcal (2) G-P(sol) polarization free energy of solvation -72.086 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -33.705 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.900 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.986 kcal (6) G-S(sol) free energy of system = (1) + (5) -34.605 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.48 seconds