Wall clock time and date at job start Tue Mar 31 2020 06:02:47 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 C 2 2 S 1.81397 * 1 3 3 C 1.81401 * 102.99785 * 2 1 4 4 C 1.52997 * 109.47149 * 179.97438 * 3 2 1 5 5 C 1.53001 * 109.47328 * 305.00032 * 4 3 2 6 6 O 1.42904 * 109.47396 * 64.99567 * 4 3 2 7 7 C 1.52997 * 109.47504 * 184.99941 * 4 3 2 8 8 N 1.46496 * 109.47451 * 180.02562 * 7 4 3 9 9 C 1.38826 * 120.00377 * 180.02562 * 8 7 4 10 10 C 1.39802 * 119.57914 * 359.72215 * 9 8 7 11 11 C 1.38591 * 119.48613 * 179.78984 * 10 9 8 12 12 C 1.38394 * 118.68423 * 0.48123 * 11 10 9 13 13 C 1.40553 * 119.14616 * 359.74120 * 12 11 10 14 14 C 1.41314 * 119.78532 * 179.97438 * 13 12 11 15 15 H 1.08002 * 119.99825 * 0.02957 * 14 13 12 16 16 C 1.40025 * 120.00194 * 180.02562 * 14 13 12 17 17 N 1.30741 * 119.99959 * 0.02562 * 16 14 13 18 18 Si 1.86807 * 119.99873 * 180.02562 * 16 14 13 19 19 H 1.48493 * 109.46924 * 60.00351 * 18 16 14 20 20 H 1.48496 * 109.46787 * 180.02562 * 18 16 14 21 21 H 1.48496 * 109.46974 * 300.00443 * 18 16 14 22 22 N 1.31952 * 119.58890 * 179.97438 * 9 8 7 23 23 H 1.09004 * 109.47166 * 180.02562 * 1 2 3 24 24 H 1.09004 * 109.47371 * 299.99984 * 1 2 3 25 25 H 1.09000 * 109.47527 * 60.00229 * 1 2 3 26 26 H 1.09002 * 109.47085 * 299.99903 * 3 2 1 27 27 H 1.09001 * 109.47417 * 60.00029 * 3 2 1 28 28 H 1.09003 * 109.47390 * 59.99367 * 5 4 3 29 29 H 1.09004 * 109.47759 * 179.97438 * 5 4 3 30 30 H 1.09002 * 109.46786 * 300.00010 * 5 4 3 31 31 H 0.96708 * 113.99258 * 60.00195 * 6 4 3 32 32 H 1.09004 * 109.46881 * 300.00361 * 7 4 3 33 33 H 1.09002 * 109.47016 * 59.99741 * 7 4 3 34 34 H 0.97008 * 120.00373 * 359.97438 * 8 7 4 35 35 H 1.07992 * 120.25566 * 0.02562 * 10 9 8 36 36 H 1.08009 * 120.66208 * 180.22490 * 11 10 9 37 37 H 1.08000 * 120.42668 * 179.77008 * 12 11 10 38 38 H 0.96994 * 119.99732 * 179.97438 * 17 16 14 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 16 1.8140 0.0000 0.0000 3 6 2.2220 1.7675 0.0000 4 6 3.7422 1.9400 0.0006 5 6 4.3418 1.1756 1.1826 6 8 4.2803 1.4278 -1.2201 7 6 4.0870 3.4253 0.1263 8 7 5.5426 3.5906 0.1263 9 6 6.0973 4.8588 0.2317 10 6 5.2585 5.9728 0.3314 11 6 5.8144 7.2376 0.4408 12 6 7.1929 7.3599 0.4378 13 6 7.9826 6.2022 0.3300 14 6 9.3915 6.3115 0.3250 15 1 9.8581 7.2822 0.4044 16 6 10.1826 5.1612 0.2172 17 7 9.6178 3.9860 0.1206 18 14 12.0451 5.3056 0.2114 19 1 12.4967 5.9341 1.4787 20 1 12.6460 3.9534 0.0872 21 1 12.4729 6.1443 -0.9370 22 7 7.4094 4.9981 0.2313 23 1 -0.3634 -1.0277 0.0005 24 1 -0.3634 0.5138 0.8900 25 1 -0.3634 0.5138 -0.8900 26 1 1.8030 2.2371 -0.8900 27 1 1.8030 2.2372 0.8900 28 1 4.0961 0.1173 1.0931 29 1 5.4249 1.2980 1.1829 30 1 3.9313 1.5663 2.1137 31 1 3.9436 1.8670 -2.0132 32 1 3.6598 3.9700 -0.7157 33 1 3.6765 3.8160 1.0575 34 1 6.1189 2.8137 0.0535 35 1 4.1858 5.8484 0.3270 36 1 5.1842 8.1110 0.5226 37 1 7.6559 8.3323 0.5179 38 1 10.1658 3.1893 0.0455 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 ZINC001253070708.mol2 38 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 06:02:47 Heat of formation + Delta-G solvation = -35.111834 kcal Electronic energy + Delta-G solvation = -19723.209524 eV Core-core repulsion = 16690.939528 eV Total energy + Delta-G solvation = -3032.269997 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 282.114 amu Computer time = 0.44 seconds Orbital eigenvalues (eV) -40.35536 -39.36722 -36.19000 -34.98525 -33.33956 -32.22835 -30.68168 -29.90850 -28.36403 -27.30550 -26.69009 -23.38373 -22.33654 -21.42139 -19.31490 -18.33309 -17.95686 -16.71311 -16.60905 -16.44461 -16.40813 -15.83930 -15.66803 -15.05916 -14.95186 -14.48499 -14.41547 -14.39000 -13.74322 -13.65596 -13.37224 -13.18221 -12.92616 -12.83879 -12.75984 -12.71696 -12.58900 -12.26687 -11.99549 -11.74386 -11.28528 -11.07183 -10.77584 -10.65663 -9.82365 -9.42165 -8.59786 -8.27117 -8.21045 -6.47031 0.69036 1.08266 1.36291 1.41553 1.53802 1.59968 1.70452 2.25601 2.61522 2.93963 3.31076 3.60810 3.75819 3.78029 4.06811 4.30483 4.36521 4.38045 4.38980 4.50250 4.57923 4.74136 4.80822 4.87913 4.91206 4.94435 5.00688 5.01959 5.13596 5.24707 5.37835 5.72710 5.97653 6.08318 6.23503 6.57012 6.76340 6.84846 6.96499 7.23030 8.36647 8.52742 Molecular weight = 282.11amu Principal moments of inertia in cm(-1) A = 0.026489 B = 0.003744 C = 0.003360 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1056.799953 B = 7476.534383 C = 8332.321372 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.121 4.121 2 S -0.282 6.282 3 C -0.101 4.101 4 C 0.150 3.850 5 C -0.138 4.138 6 O -0.559 6.559 7 C 0.121 3.879 8 N -0.725 5.725 9 C 0.395 3.605 10 C -0.367 4.367 11 C -0.030 4.030 12 C -0.346 4.346 13 C 0.259 3.741 14 C -0.473 4.473 15 H 0.086 0.914 16 C 0.025 3.975 17 N -0.751 5.751 18 Si 0.985 3.015 19 H -0.259 1.259 20 H -0.270 1.270 21 H -0.260 1.260 22 N -0.568 5.568 23 H 0.108 0.892 24 H 0.085 0.915 25 H 0.085 0.915 26 H 0.102 0.898 27 H 0.106 0.894 28 H 0.072 0.928 29 H 0.045 0.955 30 H 0.082 0.918 31 H 0.387 0.613 32 H 0.066 0.934 33 H 0.069 0.931 34 H 0.393 0.607 35 H 0.121 0.879 36 H 0.130 0.870 37 H 0.101 0.899 38 H 0.275 0.725 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -15.885 -6.520 -0.278 17.173 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 C -0.289 4.289 2 S -0.056 6.056 3 C -0.250 4.250 4 C 0.108 3.892 5 C -0.196 4.196 6 O -0.367 6.367 7 C -0.005 4.005 8 N -0.361 5.361 9 C 0.154 3.846 10 C -0.392 4.392 11 C -0.054 4.054 12 C -0.369 4.369 13 C 0.132 3.868 14 C -0.505 4.505 15 H 0.104 0.896 16 C -0.196 4.196 17 N -0.373 5.373 18 Si 0.806 3.194 19 H -0.184 1.184 20 H -0.194 1.194 21 H -0.184 1.184 22 N -0.290 5.290 23 H 0.127 0.873 24 H 0.104 0.896 25 H 0.104 0.896 26 H 0.121 0.879 27 H 0.125 0.875 28 H 0.091 0.909 29 H 0.064 0.936 30 H 0.101 0.899 31 H 0.236 0.764 32 H 0.084 0.916 33 H 0.087 0.913 34 H 0.228 0.772 35 H 0.139 0.861 36 H 0.148 0.852 37 H 0.119 0.881 38 H 0.086 0.914 Dipole moment (debyes) X Y Z Total from point charges -14.581 -8.692 0.047 16.975 hybrid contribution -0.582 1.972 -0.339 2.084 sum -15.163 -6.719 -0.292 16.588 Atomic orbital electron populations 1.23491 0.92381 1.07298 1.05766 1.87361 1.09132 1.11019 1.98102 1.24045 0.98318 0.95345 1.07273 1.20981 0.90332 0.91301 0.86599 1.21751 1.00687 1.01010 0.96122 1.86619 1.70810 1.63575 1.15677 1.21888 0.80828 0.95787 1.02043 1.44150 1.05485 1.04414 1.82059 1.18982 0.90063 0.86149 0.89452 1.20946 0.98684 0.92501 1.27104 1.21014 0.94084 0.96792 0.93477 1.21694 0.94798 0.98199 1.22230 1.18665 0.94246 0.86618 0.87261 1.19915 0.90562 0.94963 1.45025 0.89570 1.26963 1.05821 0.94258 0.92599 1.70249 1.38564 0.99111 1.29407 0.85228 0.75679 0.78557 0.79968 1.18363 1.19412 1.18391 1.68172 1.08208 1.26133 1.26529 0.87332 0.89570 0.89640 0.87942 0.87549 0.90937 0.93564 0.89874 0.76375 0.91617 0.91301 0.77204 0.86119 0.85235 0.88052 0.91437 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 C -0.12 -1.43 10.76 113.37 1.22 -0.21 16 2 S -0.28 -5.51 20.42 -56.49 -1.15 -6.66 16 3 C -0.10 -1.75 5.17 71.98 0.37 -1.38 16 4 C 0.15 3.55 0.73 -10.80 -0.01 3.54 16 5 C -0.14 -3.63 8.35 71.98 0.60 -3.03 16 6 O -0.56 -14.87 12.48 -148.98 -1.86 -16.73 16 7 C 0.12 3.37 3.99 86.38 0.34 3.72 16 8 N -0.73 -28.87 5.31 -344.99 -1.83 -30.70 16 9 C 0.39 19.36 7.65 133.42 1.02 20.38 16 10 C -0.37 -16.25 9.34 22.73 0.21 -16.03 16 11 C -0.03 -1.33 10.15 22.39 0.23 -1.10 16 12 C -0.35 -17.88 9.83 22.87 0.22 -17.66 16 13 C 0.26 15.05 6.55 40.18 0.26 15.32 16 14 C -0.47 -26.77 9.14 23.46 0.21 -26.56 16 15 H 0.09 4.57 7.85 -2.91 -0.02 4.55 16 16 C 0.03 1.34 5.50 85.29 0.47 1.81 16 17 N -0.75 -41.88 11.46 21.84 0.25 -41.63 16 18 Si 0.99 39.59 29.56 68.60 2.03 41.62 16 19 H -0.26 -10.05 7.11 99.48 0.71 -9.34 16 20 H -0.27 -10.32 7.11 99.48 0.71 -9.61 16 21 H -0.26 -10.07 7.11 99.48 0.71 -9.36 16 22 N -0.57 -32.62 7.89 -186.59 -1.47 -34.10 16 23 H 0.11 1.10 8.14 -2.39 -0.02 1.08 16 24 H 0.09 0.84 8.14 -2.39 -0.02 0.82 16 25 H 0.08 0.84 8.14 -2.39 -0.02 0.82 16 26 H 0.10 1.43 8.14 -2.39 -0.02 1.41 16 27 H 0.11 1.55 8.14 -2.39 -0.02 1.53 16 28 H 0.07 1.90 6.72 -2.39 -0.02 1.89 16 29 H 0.05 1.45 6.86 -2.39 -0.02 1.44 16 30 H 0.08 1.93 8.14 -2.39 -0.02 1.92 16 31 H 0.39 7.84 9.05 -74.05 -0.67 7.17 16 32 H 0.07 1.69 7.91 -2.39 -0.02 1.67 16 33 H 0.07 1.82 7.93 -2.39 -0.02 1.80 16 34 H 0.39 16.87 7.31 -92.70 -0.68 16.19 16 35 H 0.12 4.45 6.68 -2.91 -0.02 4.43 16 36 H 0.13 4.74 8.06 -2.91 -0.02 4.72 16 37 H 0.10 4.89 8.06 -2.91 -0.02 4.87 16 38 H 0.28 14.00 8.29 -92.71 -0.77 13.23 16 Total: -1.00 -69.04 329.15 0.85 -68.19 By element: Atomic # 1 Polarization: 41.49 SS G_CDS: -0.27 Total: 41.22 kcal Atomic # 6 Polarization: -26.35 SS G_CDS: 5.16 Total: -21.19 kcal Atomic # 7 Polarization: -103.38 SS G_CDS: -3.05 Total: -106.43 kcal Atomic # 8 Polarization: -14.87 SS G_CDS: -1.86 Total: -16.73 kcal Atomic # 14 Polarization: 39.59 SS G_CDS: 2.03 Total: 41.62 kcal Atomic # 16 Polarization: -5.51 SS G_CDS: -1.15 Total: -6.66 kcal Total: -69.04 0.85 -68.19 kcal The number of atoms in the molecule is 38 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. ZINC001253070708.mol2 38 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 33.075 kcal (2) G-P(sol) polarization free energy of solvation -69.036 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -35.961 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.849 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.187 kcal (6) G-S(sol) free energy of system = (1) + (5) -35.112 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.44 seconds