Wall clock time and date at job start Mon Mar 30 2020 05:05:18 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 1.31510 * 1 3 3 Si 1.86805 * 120.00057 * 2 1 4 4 H 1.48506 * 109.46602 * 264.53351 * 3 2 1 5 5 H 1.48496 * 109.46986 * 24.53032 * 3 2 1 6 6 H 1.48496 * 109.47421 * 144.53816 * 3 2 1 7 7 C 1.37874 * 120.00104 * 179.97438 * 2 1 3 8 8 H 1.08001 * 120.00025 * 5.22789 * 7 2 1 9 9 C 1.50702 * 119.99952 * 185.23089 * 7 2 1 10 10 H 1.08996 * 109.19463 * 34.46111 * 9 7 2 11 11 C 1.49643 * 109.28903 * 153.96410 * 9 7 2 12 12 C 1.52411 * 105.20479 * 219.22822 * 11 9 7 13 13 S 1.74756 * 114.40060 * 269.28780 * 12 11 9 14 14 C 1.85019 * 101.65844 * 61.40519 * 13 12 11 15 15 C 1.50342 * 108.77112 * 292.80005 * 14 13 12 16 16 N 1.47459 * 109.22577 * 275.07527 * 9 7 2 17 17 C 1.46903 * 111.00205 * 327.65824 * 16 9 7 18 18 C 1.53001 * 109.47064 * 149.20998 * 17 16 9 19 19 H 1.09008 * 109.82344 * 305.56974 * 18 17 16 20 20 C 1.54380 * 109.83224 * 184.59261 * 18 17 16 21 21 C 1.55298 * 102.25102 * 219.13062 * 20 18 17 22 22 C 1.54941 * 100.94561 * 34.13217 * 21 20 18 23 23 O 1.43232 * 109.82996 * 66.45464 * 18 17 16 24 24 H 0.97003 * 119.99996 * 0.02562 * 1 2 3 25 25 H 1.09005 * 110.41263 * 100.26658 * 11 9 7 26 26 H 1.08997 * 110.21974 * 338.09408 * 11 9 7 27 27 H 1.09000 * 108.46951 * 148.06900 * 12 11 9 28 28 H 1.08993 * 108.47367 * 30.51463 * 12 11 9 29 29 H 1.08991 * 109.58525 * 52.59120 * 14 13 12 30 30 H 1.09000 * 109.58158 * 172.87486 * 14 13 12 31 31 H 1.08989 * 107.96128 * 212.61195 * 15 14 13 32 32 H 1.09005 * 107.95812 * 328.89727 * 15 14 13 33 33 H 1.09000 * 109.47053 * 269.21005 * 17 16 9 34 34 H 1.09006 * 109.46706 * 29.21182 * 17 16 9 35 35 H 1.08998 * 110.84409 * 337.31773 * 20 18 17 36 36 H 1.09001 * 110.84733 * 100.93739 * 20 18 17 37 37 H 1.09005 * 111.12320 * 276.20572 * 21 20 18 38 38 H 1.09005 * 111.15954 * 152.06833 * 21 20 18 39 39 H 1.09004 * 110.30968 * 204.64180 * 22 21 20 40 40 H 1.08995 * 110.30979 * 82.47268 * 22 21 20 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 1.3151 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 2.6121 1.9797 -1.3938 5 1 1.3936 2.6833 0.5813 6 1 3.4842 1.4763 0.8122 7 6 2.0045 -1.1940 0.0005 8 1 1.4679 -2.1274 -0.0843 9 6 3.5068 -1.1966 0.1195 10 1 3.8165 -0.3757 0.7662 11 6 3.9530 -2.4933 0.7187 12 6 5.0898 -2.1261 1.6651 13 16 6.6768 -2.1585 0.9339 14 6 6.5072 -0.8717 -0.3847 15 6 5.5334 -1.3643 -1.4189 16 7 4.1001 -1.0118 -1.2177 17 6 3.2577 -1.6202 -2.2561 18 6 3.4051 -0.8317 -3.5590 19 1 3.1895 0.2217 -3.3800 20 6 2.4374 -1.3928 -4.6230 21 6 3.2941 -1.3244 -5.9165 22 6 4.7059 -1.6192 -5.3502 23 8 4.7368 -0.9758 -4.0662 24 1 -0.4850 0.8401 -0.0004 25 1 4.3117 -3.1678 -0.0588 26 1 3.1347 -2.9539 1.2721 27 1 5.0811 -2.8239 2.5024 28 1 4.9077 -1.1232 2.0509 29 1 6.1368 0.0546 0.0542 30 1 7.4774 -0.6940 -0.8486 31 1 5.8436 -0.9709 -2.3868 32 1 5.6090 -2.4509 -1.4611 33 1 3.5695 -2.6519 -2.4186 34 1 2.2160 -1.6015 -1.9359 35 1 2.1631 -2.4224 -4.3934 36 1 1.5510 -0.7644 -4.7111 37 1 3.2500 -0.3318 -6.3649 38 1 2.9898 -2.0893 -6.6310 39 1 5.4708 -1.1984 -6.0028 40 1 4.8520 -2.6936 -5.2386 RHF calculation, no. of doubly occupied orbitals= 49 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 ZINC000260238461.mol2 40 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 05:05:18 Heat of formation + Delta-G solvation = -51.352649 kcal Electronic energy + Delta-G solvation = -20547.859466 eV Core-core repulsion = 17681.225788 eV Total energy + Delta-G solvation = -2866.633678 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 271.135 amu Computer time = 0.45 seconds Orbital eigenvalues (eV) -40.57720 -39.05117 -34.77223 -34.18292 -33.14064 -32.45098 -30.48945 -28.47442 -25.94215 -24.72699 -23.73876 -22.50116 -21.95746 -20.35115 -18.93512 -18.02281 -17.70591 -16.90828 -16.68948 -16.27899 -15.86039 -15.36428 -14.93282 -14.92808 -14.47280 -14.39439 -14.21775 -13.88106 -13.67731 -13.43494 -13.29300 -12.81511 -12.72694 -12.45545 -12.25294 -11.97484 -11.88387 -11.86594 -11.64337 -11.55829 -11.41756 -11.04433 -10.75066 -10.62779 -10.32319 -8.70123 -8.58113 -8.30119 -6.32612 0.88267 1.38085 1.43029 1.51983 1.55216 2.38498 2.81753 3.06196 3.34563 3.70558 3.87746 3.94624 4.01286 4.04664 4.18775 4.32936 4.36953 4.45901 4.47367 4.48319 4.59459 4.81853 4.85920 4.86690 4.88846 4.95835 4.96424 5.01764 5.09085 5.15141 5.25282 5.33478 5.41135 5.51088 5.61296 6.14529 6.25861 6.59266 6.68341 6.91466 7.33356 8.82983 Molecular weight = 271.13amu Principal moments of inertia in cm(-1) A = 0.013160 B = 0.010232 C = 0.006735 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2127.125045 B = 2735.790969 C = 4156.668298 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.934 5.934 2 C 0.040 3.960 3 Si 0.945 3.055 4 H -0.269 1.269 5 H -0.302 1.302 6 H -0.260 1.260 7 C -0.500 4.500 8 H 0.041 0.959 9 C 0.185 3.815 10 H 0.038 0.962 11 C -0.119 4.119 12 C -0.108 4.108 13 S -0.257 6.257 14 C -0.061 4.061 15 C 0.071 3.929 16 N -0.582 5.582 17 C 0.069 3.931 18 C 0.090 3.910 19 H 0.055 0.945 20 C -0.149 4.149 21 C -0.144 4.144 22 C 0.041 3.959 23 O -0.391 6.391 24 H 0.266 0.734 25 H 0.061 0.939 26 H 0.066 0.934 27 H 0.106 0.894 28 H 0.071 0.929 29 H 0.077 0.923 30 H 0.133 0.867 31 H 0.096 0.904 32 H 0.024 0.976 33 H 0.015 0.985 34 H 0.093 0.907 35 H 0.076 0.924 36 H 0.077 0.923 37 H 0.081 0.919 38 H 0.102 0.898 39 H 0.098 0.902 40 H 0.059 0.941 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 10.671 -2.320 -8.361 13.754 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 -0.573 5.573 2 C -0.160 4.160 3 Si 0.773 3.227 4 H -0.194 1.194 5 H -0.229 1.229 6 H -0.185 1.185 7 C -0.538 4.538 8 H 0.059 0.941 9 C 0.080 3.920 10 H 0.055 0.945 11 C -0.161 4.161 12 C -0.257 4.257 13 S -0.031 6.031 14 C -0.209 4.209 15 C -0.056 4.056 16 N -0.310 5.310 17 C -0.059 4.059 18 C 0.032 3.968 19 H 0.073 0.927 20 C -0.187 4.187 21 C -0.181 4.181 22 C -0.035 4.035 23 O -0.311 6.311 24 H 0.075 0.925 25 H 0.080 0.920 26 H 0.085 0.915 27 H 0.124 0.876 28 H 0.089 0.911 29 H 0.095 0.905 30 H 0.151 0.849 31 H 0.114 0.886 32 H 0.043 0.957 33 H 0.033 0.967 34 H 0.111 0.889 35 H 0.094 0.906 36 H 0.096 0.904 37 H 0.099 0.901 38 H 0.120 0.880 39 H 0.116 0.884 40 H 0.077 0.923 Dipole moment (debyes) X Y Z Total from point charges 11.605 -2.351 -7.970 14.273 hybrid contribution -1.552 0.632 0.109 1.679 sum 10.053 -1.719 -7.861 12.877 Atomic orbital electron populations 1.70030 1.07889 1.28019 1.51379 1.25615 0.94965 1.02085 0.93357 0.85759 0.78462 0.79213 0.79274 1.19444 1.22941 1.18467 1.20996 0.90294 0.92937 1.49573 0.94071 1.19429 0.92813 0.92874 0.86853 0.94455 1.21652 0.96597 0.99526 0.98275 1.22652 0.95940 1.05289 1.01790 1.85838 1.17702 1.55204 1.44337 1.23496 1.03497 0.97768 0.96095 1.21967 0.86808 0.97812 0.99036 1.60506 1.00829 1.64549 1.05066 1.22278 1.00080 0.93503 0.90057 1.22767 0.82087 0.98659 0.93240 0.92720 1.23097 0.98825 1.02176 0.94622 1.23219 0.94270 1.03672 0.96956 1.23548 0.97995 0.97531 0.84441 1.88389 1.27186 1.80712 1.34793 0.92512 0.92050 0.91543 0.87581 0.91063 0.90462 0.84931 0.88582 0.95738 0.96708 0.88896 0.90560 0.90386 0.90072 0.87980 0.88417 0.92271 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 N -0.93 -55.13 13.96 21.45 0.30 -54.83 16 2 C 0.04 2.22 5.47 84.65 0.46 2.68 16 3 Si 0.95 45.34 27.25 68.60 1.87 47.21 16 4 H -0.27 -12.80 7.11 99.48 0.71 -12.09 16 5 H -0.30 -14.46 7.11 99.48 0.71 -13.75 16 6 H -0.26 -12.00 6.14 99.48 0.61 -11.39 16 7 C -0.50 -26.44 5.83 25.60 0.15 -26.29 16 8 H 0.04 2.41 7.97 -2.91 -0.02 2.39 16 9 C 0.19 8.29 1.45 42.99 0.06 8.35 16 10 H 0.04 1.78 4.31 -2.39 -0.01 1.77 16 11 C -0.12 -4.74 5.25 29.32 0.15 -4.58 16 12 C -0.11 -3.72 5.49 71.79 0.39 -3.33 16 13 S -0.26 -8.10 21.73 -56.49 -1.23 -9.33 16 14 C -0.06 -1.87 6.30 71.12 0.45 -1.42 16 15 C 0.07 2.48 4.38 85.04 0.37 2.85 16 16 N -0.58 -23.99 3.84 -879.78 -3.38 -27.37 16 17 C 0.07 2.79 4.49 86.30 0.39 3.18 16 18 C 0.09 3.20 3.75 31.06 0.12 3.32 16 19 H 0.05 2.21 8.14 -2.38 -0.02 2.19 16 20 C -0.15 -4.25 6.54 31.85 0.21 -4.04 16 21 C -0.14 -3.05 7.15 32.05 0.23 -2.82 16 22 C 0.04 0.95 7.78 72.65 0.56 1.51 16 23 O -0.39 -12.50 8.22 -148.98 -1.22 -13.72 16 24 H 0.27 14.91 8.31 -92.71 -0.77 14.14 16 25 H 0.06 2.44 6.60 -2.38 -0.02 2.42 16 26 H 0.07 2.76 7.68 -2.39 -0.02 2.74 16 27 H 0.11 3.28 8.14 -4.40 -0.04 3.25 16 28 H 0.07 2.59 6.87 -4.40 -0.03 2.56 16 29 H 0.08 2.57 8.14 -2.39 -0.02 2.55 16 30 H 0.13 3.26 8.14 -2.39 -0.02 3.24 16 31 H 0.10 3.29 5.52 -2.39 -0.01 3.27 16 32 H 0.02 0.88 6.53 -2.38 -0.02 0.86 16 33 H 0.01 0.59 7.86 -2.39 -0.02 0.57 16 34 H 0.09 4.45 5.28 -2.38 -0.01 4.44 16 35 H 0.08 2.15 7.85 -2.39 -0.02 2.13 16 36 H 0.08 2.24 8.14 -2.39 -0.02 2.22 16 37 H 0.08 1.62 8.14 -2.38 -0.02 1.60 16 38 H 0.10 1.66 8.14 -2.38 -0.02 1.64 16 39 H 0.10 1.84 8.14 -2.38 -0.02 1.82 16 40 H 0.06 1.30 8.14 -2.39 -0.02 1.28 16 Total: -1.00 -59.56 307.28 0.77 -58.79 By element: Atomic # 1 Polarization: 18.96 SS G_CDS: 0.89 Total: 19.84 kcal Atomic # 6 Polarization: -24.14 SS G_CDS: 3.55 Total: -20.59 kcal Atomic # 7 Polarization: -79.12 SS G_CDS: -3.08 Total: -82.20 kcal Atomic # 8 Polarization: -12.50 SS G_CDS: -1.22 Total: -13.72 kcal Atomic # 14 Polarization: 45.34 SS G_CDS: 1.87 Total: 47.21 kcal Atomic # 16 Polarization: -8.10 SS G_CDS: -1.23 Total: -9.33 kcal Total: -59.56 0.77 -58.79 kcal The number of atoms in the molecule is 40 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. ZINC000260238461.mol2 40 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 7.438 kcal (2) G-P(sol) polarization free energy of solvation -59.563 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -52.125 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.773 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -58.790 kcal (6) G-S(sol) free energy of system = (1) + (5) -51.353 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.45 seconds