Wall clock time and date at job start Tue Mar 31 2020 11:30:14 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 N 1.46498 * 1 3 3 C 1.46509 * 119.99888 * 2 1 4 4 C 1.50700 * 109.46856 * 275.00416 * 3 2 1 5 5 C 1.33637 * 122.75045 * 94.73785 * 4 3 2 6 6 S 1.76199 * 107.92064 * 179.97438 * 5 4 3 7 7 C 1.70977 * 90.28744 * 0.27088 * 6 5 4 8 8 N 1.29033 * 110.16303 * 359.84297 * 7 6 5 9 9 S 1.65598 * 120.00172 * 180.02562 * 2 1 3 10 10 O 1.42102 * 104.27557 * 26.07115 * 9 2 1 11 11 O 1.42103 * 104.27475 * 153.92754 * 9 2 1 12 12 C 1.81394 * 104.44713 * 269.99727 * 9 2 1 13 13 C 1.53006 * 109.47145 * 179.97438 * 12 9 2 14 14 C 1.53001 * 109.46907 * 300.00279 * 13 12 9 15 15 C 1.52997 * 109.47048 * 59.99941 * 13 12 9 16 16 C 1.50695 * 109.47040 * 180.02562 * 13 12 9 17 17 H 1.07994 * 120.00428 * 357.69507 * 16 13 12 18 18 C 1.37880 * 119.99758 * 177.69482 * 16 13 12 19 19 N 1.31521 * 120.00096 * 6.58150 * 18 16 13 20 20 Si 1.86802 * 119.99964 * 186.58102 * 18 16 13 21 21 H 1.48501 * 109.47321 * 84.99631 * 20 18 16 22 22 H 1.48506 * 109.47100 * 204.99482 * 20 18 16 23 23 H 1.48495 * 109.47111 * 324.99514 * 20 18 16 24 24 H 1.09001 * 109.47335 * 89.99906 * 1 2 3 25 25 H 1.08999 * 109.47165 * 209.99611 * 1 2 3 26 26 H 1.08996 * 109.47420 * 330.00062 * 1 2 3 27 27 H 1.08989 * 109.47003 * 155.00161 * 3 2 1 28 28 H 1.08995 * 109.46808 * 34.99881 * 3 2 1 29 29 H 1.07988 * 126.04201 * 0.02579 * 5 4 3 30 30 H 1.07993 * 124.92063 * 179.83981 * 7 6 5 31 31 H 1.09000 * 109.47807 * 299.99900 * 12 9 2 32 32 H 1.09002 * 109.47361 * 60.00421 * 12 9 2 33 33 H 1.08996 * 109.47276 * 66.66738 * 14 13 12 34 34 H 1.08999 * 109.47289 * 186.67054 * 14 13 12 35 35 H 1.08998 * 109.47420 * 306.66850 * 14 13 12 36 36 H 1.08999 * 109.47172 * 60.00315 * 15 13 12 37 37 H 1.09005 * 109.47146 * 180.02562 * 15 13 12 38 38 H 1.08994 * 109.47300 * 300.00610 * 15 13 12 39 39 H 0.96997 * 119.99781 * 180.02562 * 19 18 16 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 7 1.4650 0.0000 0.0000 3 6 2.1975 1.2688 0.0000 4 6 2.3413 1.7658 -1.4154 5 6 1.4900 2.6365 -1.9659 6 16 2.0222 2.9450 -3.6170 7 6 3.3319 1.8664 -3.4056 8 7 3.3132 1.3724 -2.2137 9 16 2.2930 -1.4341 -0.0006 10 8 1.3970 -2.3558 -0.6063 11 8 3.5395 -1.1187 -0.6058 12 6 2.5194 -1.8268 1.7558 13 6 3.2810 -3.1471 1.8892 14 6 2.4841 -4.2658 1.2150 15 6 4.6484 -3.0174 1.2152 16 6 3.4684 -3.4736 3.3483 17 1 3.1160 -2.7881 4.1047 18 6 4.0900 -4.6476 3.7177 19 7 4.6339 -5.4199 2.8025 20 14 4.1596 -5.1413 5.5180 21 1 2.9096 -5.8543 5.8844 22 1 5.3236 -6.0362 5.7412 23 1 4.3011 -3.9259 6.3594 24 1 -0.3634 0.0000 -1.0277 25 1 -0.3633 -0.8900 0.5138 26 1 -0.3634 0.8899 0.5138 27 1 3.1857 1.1178 0.4342 28 1 1.6501 2.0043 0.5894 29 1 0.6287 3.0744 -1.4838 30 1 4.0680 1.6324 -4.1603 31 1 3.0867 -1.0296 2.2362 32 1 1.5452 -1.9196 2.2358 33 1 2.4494 -4.0901 0.1398 34 1 2.9654 -5.2239 1.4112 35 1 1.4698 -4.2805 1.6136 36 1 5.2160 -2.2205 1.6955 37 1 5.1908 -3.9582 1.3099 38 1 4.5124 -2.7814 0.1599 39 1 5.0709 -6.2460 3.0624 RHF calculation, no. of doubly occupied orbitals= 54 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 ZINC001413282153.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 11:30:14 Heat of formation + Delta-G solvation = -38.842838 kcal Electronic energy + Delta-G solvation = -23476.771705 eV Core-core repulsion = 20059.272355 eV Total energy + Delta-G solvation = -3417.499350 eV No. of doubly occupied orbitals = 54 Molecular weight (most abundant/longest-lived isotopes) = 318.086 amu Computer time = 0.62 seconds Orbital eigenvalues (eV) -40.77913 -38.13058 -38.04851 -37.12900 -36.68186 -33.63574 -31.88544 -28.78475 -28.36881 -27.70828 -27.25453 -26.15798 -25.15965 -21.30794 -20.73141 -19.69879 -18.97681 -18.72270 -17.85536 -17.25081 -16.98526 -16.65293 -16.51404 -15.84931 -15.29259 -15.08248 -14.82012 -14.61882 -14.42627 -14.17140 -14.01780 -13.91075 -13.72097 -13.19075 -13.09642 -12.85100 -12.79325 -12.75355 -12.60278 -12.43224 -12.21175 -12.15504 -12.06981 -11.92451 -11.57951 -11.36369 -10.67877 -10.45695 -10.39332 -10.34795 -10.05403 -9.76818 -8.03485 -6.22118 -0.61199 -0.15241 0.56669 0.82845 1.44787 1.45878 1.54451 1.66360 2.13162 2.44488 2.99650 3.18119 3.30398 3.41871 3.77837 4.06484 4.15012 4.16511 4.33500 4.46661 4.58232 4.60626 4.66096 4.71900 4.84102 4.84470 4.96449 4.99130 5.04242 5.07309 5.18567 5.37475 5.47215 5.63655 5.65629 5.95037 6.10672 6.33943 6.82536 6.94419 7.45921 8.96333 Molecular weight = 318.09amu Principal moments of inertia in cm(-1) A = 0.031417 B = 0.003524 C = 0.003452 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 891.018924 B = 7943.630337 C = 8108.512972 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C 0.084 3.916 2 N -0.998 5.998 3 C 0.191 3.809 4 C 0.015 3.985 5 C -0.232 4.232 6 S 0.153 5.847 7 C -0.001 4.001 8 N -0.491 5.491 9 S 2.601 3.399 10 O -0.996 6.996 11 O -0.966 6.966 12 C -0.587 4.587 13 C 0.069 3.931 14 C -0.155 4.155 15 C -0.157 4.157 16 C -0.518 4.518 17 H 0.064 0.936 18 C 0.017 3.983 19 N -0.908 5.908 20 Si 0.956 3.044 21 H -0.275 1.275 22 H -0.288 1.288 23 H -0.266 1.266 24 H 0.049 0.951 25 H 0.069 0.931 26 H 0.115 0.885 27 H 0.085 0.915 28 H 0.143 0.857 29 H 0.212 0.788 30 H 0.213 0.787 31 H 0.134 0.866 32 H 0.134 0.866 33 H 0.024 0.976 34 H 0.070 0.930 35 H 0.042 0.958 36 H 0.037 0.963 37 H 0.071 0.929 38 H 0.029 0.971 39 H 0.261 0.739 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -9.456 19.691 -7.927 23.238 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 -0.060 4.060 2 N -0.836 5.836 3 C 0.063 3.937 4 C -0.119 4.119 5 C -0.373 4.373 6 S 0.406 5.594 7 C -0.299 4.299 8 N -0.204 5.204 9 S 2.698 3.302 10 O -0.986 6.986 11 O -0.956 6.956 12 C -0.719 4.719 13 C 0.067 3.933 14 C -0.213 4.213 15 C -0.214 4.214 16 C -0.557 4.557 17 H 0.082 0.918 18 C -0.183 4.183 19 N -0.547 5.547 20 Si 0.781 3.219 21 H -0.201 1.201 22 H -0.214 1.214 23 H -0.191 1.191 24 H 0.068 0.932 25 H 0.088 0.912 26 H 0.133 0.867 27 H 0.103 0.897 28 H 0.161 0.839 29 H 0.229 0.771 30 H 0.230 0.770 31 H 0.152 0.848 32 H 0.153 0.847 33 H 0.043 0.957 34 H 0.088 0.912 35 H 0.061 0.939 36 H 0.057 0.943 37 H 0.090 0.910 38 H 0.048 0.952 39 H 0.071 0.929 Dipole moment (debyes) X Y Z Total from point charges -9.029 19.305 -9.434 23.307 hybrid contribution 0.327 -1.055 2.062 2.339 sum -8.702 18.251 -7.372 21.521 Atomic orbital electron populations 1.21734 0.76852 1.04930 1.02493 1.57484 1.16044 1.20280 1.89823 1.20033 0.98097 0.85653 0.89927 1.21020 0.92628 0.98564 0.99646 1.27327 1.06512 1.05390 0.98021 1.83707 1.22412 1.41964 1.11366 1.28904 1.03722 0.99656 0.97571 1.66244 1.25137 1.24872 1.04188 1.05289 0.73432 0.72921 0.78543 1.93482 1.65980 1.63555 1.75623 1.93578 1.44402 1.82771 1.74849 1.30518 1.10281 1.08179 1.22880 1.17918 0.90887 0.87622 0.96869 1.22122 0.99150 1.03389 0.96607 1.22200 0.99975 1.02453 0.96816 1.21292 1.38267 1.05115 0.91066 0.91759 1.25715 0.94617 0.96629 1.01320 1.69968 1.36779 1.13599 1.34314 0.85609 0.77443 0.78268 0.80548 1.20119 1.21352 1.19084 0.93182 0.91241 0.86673 0.89680 0.83945 0.77146 0.77043 0.84752 0.84739 0.95674 0.91168 0.93935 0.94338 0.91018 0.95199 0.92909 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 15. 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 0.08 1.68 10.24 127.77 1.31 2.98 16 2 N -1.00 -26.88 3.10 -543.23 -1.68 -28.56 16 3 C 0.19 4.31 5.71 85.63 0.49 4.80 16 4 C 0.01 0.37 6.32 41.52 0.26 0.63 16 5 C -0.23 -3.91 11.12 66.78 0.74 -3.17 16 6 S 0.15 2.39 23.22 -56.49 -1.31 1.08 16 7 C 0.00 -0.01 12.23 130.65 1.60 1.58 16 8 N -0.49 -14.95 10.07 -191.55 -1.93 -16.88 16 9 S 2.60 100.19 4.36 -56.49 -0.25 99.95 16 10 O -1.00 -43.88 14.85 -127.65 -1.90 -45.78 16 11 O -0.97 -42.82 14.14 -127.65 -1.81 -44.62 16 12 C -0.59 -22.89 5.11 71.98 0.37 -22.52 16 13 C 0.07 3.43 0.52 -52.93 -0.03 3.40 16 14 C -0.15 -7.93 7.58 71.98 0.55 -7.39 16 15 C -0.16 -8.11 7.80 71.98 0.56 -7.54 16 16 C -0.52 -27.41 8.01 25.60 0.20 -27.21 16 17 H 0.06 3.24 7.75 -2.91 -0.02 3.22 16 18 C 0.02 0.89 5.09 84.65 0.43 1.32 16 19 N -0.91 -51.23 9.39 21.45 0.20 -51.03 16 20 Si 0.96 42.41 29.54 68.60 2.03 44.44 16 21 H -0.28 -11.96 7.11 99.48 0.71 -11.26 16 22 H -0.29 -12.73 7.11 99.48 0.71 -12.02 16 23 H -0.27 -11.35 7.11 99.48 0.71 -10.65 16 24 H 0.05 1.02 8.14 -2.39 -0.02 1.00 16 25 H 0.07 1.45 7.79 -2.39 -0.02 1.43 16 26 H 0.11 1.21 7.94 -2.39 -0.02 1.19 16 27 H 0.08 2.17 7.61 -2.39 -0.02 2.16 16 28 H 0.14 1.73 7.92 -2.39 -0.02 1.71 16 29 H 0.21 1.85 8.06 -2.92 -0.02 1.83 16 30 H 0.21 3.64 8.06 -2.91 -0.02 3.61 16 31 H 0.13 4.68 8.14 -2.39 -0.02 4.66 16 32 H 0.13 4.63 8.14 -2.39 -0.02 4.61 16 33 H 0.02 1.24 5.96 -2.39 -0.01 1.23 16 34 H 0.07 3.90 5.99 -2.39 -0.01 3.89 16 35 H 0.04 2.02 8.14 -2.39 -0.02 2.00 16 36 H 0.04 1.89 8.14 -2.39 -0.02 1.87 16 37 H 0.07 4.04 6.02 -2.38 -0.01 4.03 16 38 H 0.03 1.49 5.46 -2.39 -0.01 1.48 16 39 H 0.26 14.11 8.31 -92.71 -0.77 13.34 16 Total: -1.00 -76.06 337.28 0.89 -75.17 By element: Atomic # 1 Polarization: 18.28 SS G_CDS: 1.05 Total: 19.33 kcal Atomic # 6 Polarization: -59.59 SS G_CDS: 6.48 Total: -53.10 kcal Atomic # 7 Polarization: -93.06 SS G_CDS: -3.41 Total: -96.47 kcal Atomic # 8 Polarization: -86.70 SS G_CDS: -3.70 Total: -90.40 kcal Atomic # 14 Polarization: 42.41 SS G_CDS: 2.03 Total: 44.44 kcal Atomic # 16 Polarization: 102.59 SS G_CDS: -1.56 Total: 101.03 kcal Total: -76.06 0.89 -75.17 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. ZINC001413282153.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 36.329 kcal (2) G-P(sol) polarization free energy of solvation -76.065 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -39.735 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.893 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.172 kcal (6) G-S(sol) free energy of system = (1) + (5) -38.843 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.62 seconds