Wall clock time and date at job start Tue Mar 31 2020 13:13:09 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 C 1.53001 * 1 3 3 C 1.50699 * 109.47289 * 2 1 4 4 C 1.37468 * 122.45063 * 265.02565 * 3 2 1 5 5 C 1.36647 * 113.29945 * 179.97438 * 4 3 2 6 6 C 1.46574 * 125.46041 * 180.02562 * 5 4 3 7 7 O 1.21706 * 120.00116 * 359.97438 * 6 5 4 8 8 N 1.34777 * 120.00145 * 180.02562 * 6 5 4 9 9 C 1.46503 * 120.00011 * 180.02562 * 8 6 5 10 10 C 1.52996 * 109.46708 * 185.08684 * 9 8 6 11 11 H 1.09004 * 109.87593 * 303.54812 * 10 9 8 12 12 C 1.54324 * 109.88817 * 64.57111 * 10 9 8 13 13 C 1.55152 * 102.94697 * 141.60745 * 12 10 9 14 14 C 1.54920 * 101.58099 * 324.50026 * 13 12 10 15 15 N 1.47031 * 109.87946 * 182.37892 * 10 9 8 16 16 C 1.36934 * 125.64805 * 61.60594 * 15 10 9 17 17 H 1.08000 * 120.00270 * 13.60042 * 16 15 10 18 18 C 1.38808 * 119.99628 * 193.60384 * 16 15 10 19 19 N 1.31611 * 120.00376 * 359.97438 * 18 16 15 20 20 Si 1.86800 * 119.99751 * 179.97438 * 18 16 15 21 21 H 1.48506 * 109.47335 * 89.99747 * 20 18 16 22 22 H 1.48502 * 109.47347 * 209.99818 * 20 18 16 23 23 H 1.48508 * 109.47279 * 329.99842 * 20 18 16 24 24 S 1.75830 * 109.07935 * 0.26311 * 5 4 3 25 25 C 1.33816 * 122.44429 * 85.00119 * 3 2 1 26 26 C 1.50700 * 124.52728 * 0.05930 * 25 3 2 27 27 H 1.09003 * 109.47660 * 179.97438 * 1 2 3 28 28 H 1.09002 * 109.47413 * 300.00131 * 1 2 3 29 29 H 1.08998 * 109.47045 * 59.99951 * 1 2 3 30 30 H 1.09003 * 109.46891 * 239.99928 * 2 1 3 31 31 H 1.09007 * 109.46874 * 120.00616 * 2 1 3 32 32 H 1.08003 * 123.34737 * 359.97438 * 4 3 2 33 33 H 0.96998 * 119.99798 * 359.97438 * 8 6 5 34 34 H 1.08996 * 109.47231 * 65.08215 * 9 8 6 35 35 H 1.08997 * 109.46653 * 305.08193 * 9 8 6 36 36 H 1.08995 * 110.72073 * 259.97321 * 12 10 9 37 37 H 1.09002 * 110.71713 * 23.24396 * 12 10 9 38 38 H 1.09006 * 111.00231 * 82.56924 * 13 12 10 39 39 H 1.08992 * 111.00699 * 206.42714 * 13 12 10 40 40 H 1.08999 * 110.36427 * 278.17120 * 14 13 12 41 41 H 1.09004 * 110.36520 * 155.84509 * 14 13 12 42 42 H 0.97002 * 120.00528 * 179.97438 * 19 18 16 43 43 H 1.08997 * 109.47145 * 89.99985 * 26 25 3 44 44 H 1.08995 * 109.46746 * 209.99867 * 26 25 3 45 45 H 1.09000 * 109.46581 * 329.99777 * 26 25 3 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 6 1.5300 0.0000 0.0000 3 6 2.0324 1.4208 0.0000 4 6 2.3731 2.0827 -1.1557 5 6 2.8045 3.3611 -0.9392 6 6 3.2324 4.3016 -1.9788 7 8 3.2210 3.9631 -3.1478 8 7 3.6393 5.5410 -1.6401 9 6 4.0664 6.4813 -2.6792 10 6 4.5944 7.7594 -2.0246 11 1 3.8305 8.1855 -1.3742 12 6 5.8643 7.4442 -1.2063 13 6 6.7620 8.6824 -1.4669 14 6 6.4148 9.0139 -2.9399 15 7 4.9728 8.7321 -3.0603 16 6 4.1261 9.2841 -3.9841 17 1 3.0573 9.1896 -3.8615 18 6 4.6417 9.9653 -5.0782 19 7 5.9442 10.0810 -5.2273 20 14 3.4867 10.7178 -6.3388 21 1 3.1585 12.1103 -5.9405 22 1 4.1445 10.7258 -7.6702 23 1 2.2389 9.9156 -6.4080 24 16 2.7707 3.6946 0.7868 25 6 2.1789 2.1304 1.1250 26 6 1.8697 1.6145 2.5067 27 1 -0.3634 -1.0277 -0.0005 28 1 -0.3634 0.5139 0.8900 29 1 -0.3633 0.5138 -0.8900 30 1 1.8933 -0.5139 -0.8900 31 1 1.8933 -0.5140 0.8900 32 1 2.3064 1.6366 -2.1370 33 1 3.6488 5.8107 -0.7084 34 1 3.2188 6.7245 -3.3198 35 1 4.8558 6.0270 -3.2780 36 1 5.6277 7.3557 -0.1460 37 1 6.3436 6.5363 -1.5727 38 1 6.4918 9.5068 -0.8069 39 1 7.8169 8.4293 -1.3617 40 1 6.9837 8.3761 -3.6164 41 1 6.6148 10.0647 -3.1496 42 1 6.3045 10.5567 -5.9921 43 1 2.7606 1.1496 2.9289 44 1 1.5563 2.4428 3.1421 45 1 1.0684 0.8779 2.4485 RHF calculation, no. of doubly occupied orbitals= 58 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 ZINC001028305734.mol2 45 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 13:13:09 Heat of formation + Delta-G solvation = -18.170102 kcal Electronic energy + Delta-G solvation = -24540.145838 eV Core-core repulsion = 21069.309112 eV Total energy + Delta-G solvation = -3470.836726 eV No. of doubly occupied orbitals = 58 Molecular weight (most abundant/longest-lived isotopes) = 322.146 amu Computer time = 0.66 seconds Orbital eigenvalues (eV) -40.99607 -39.72415 -39.12519 -35.85871 -34.44556 -33.89224 -32.41462 -31.49854 -30.59548 -28.16064 -26.71475 -25.70040 -24.83578 -23.74280 -22.09023 -21.57958 -21.14962 -19.70633 -19.10889 -18.54575 -17.57592 -17.13060 -16.58686 -16.52573 -16.13248 -15.75224 -15.46580 -15.12107 -15.05626 -14.67536 -14.49559 -14.05327 -13.99558 -13.68105 -13.59364 -13.45486 -13.27684 -13.03365 -12.89924 -12.88691 -12.67762 -12.58063 -12.41097 -12.04984 -11.89556 -11.84340 -11.77267 -11.58068 -11.50618 -11.43168 -11.25396 -10.69941 -10.27375 -9.61158 -9.34915 -8.89617 -7.89888 -5.27793 -0.53312 0.44972 0.88362 1.31166 1.42792 1.45230 1.53467 2.01655 2.10861 2.47990 3.29115 3.62546 3.77903 3.83762 3.93788 3.94319 4.08622 4.16631 4.23345 4.39705 4.40339 4.50717 4.53652 4.64101 4.68845 4.72542 4.76418 4.88958 4.95760 4.98105 4.99535 5.10540 5.11855 5.15322 5.16952 5.27037 5.31803 5.44726 5.46277 5.51321 5.54909 5.65289 5.76751 6.20871 6.40106 7.05701 7.07780 7.73797 8.39360 9.20635 Molecular weight = 322.15amu Principal moments of inertia in cm(-1) A = 0.020531 B = 0.002759 C = 0.002544 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1363.440029 B =10144.769297 C =11005.301762 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.146 4.146 2 C -0.061 4.061 3 C -0.134 4.134 4 C -0.051 4.051 5 C -0.301 4.301 6 C 0.581 3.419 7 O -0.584 6.584 8 N -0.704 5.704 9 C 0.129 3.871 10 C 0.148 3.852 11 H 0.053 0.947 12 C -0.115 4.115 13 C -0.132 4.132 14 C 0.172 3.828 15 N -0.610 5.610 16 C -0.241 4.241 17 H 0.077 0.923 18 C -0.060 4.060 19 N -0.945 5.945 20 Si 0.973 3.027 21 H -0.280 1.280 22 H -0.295 1.295 23 H -0.274 1.274 24 S 0.239 5.761 25 C -0.184 4.184 26 C -0.088 4.088 27 H 0.073 0.927 28 H 0.061 0.939 29 H 0.041 0.959 30 H 0.071 0.929 31 H 0.091 0.909 32 H 0.138 0.862 33 H 0.410 0.590 34 H 0.037 0.963 35 H 0.039 0.961 36 H 0.105 0.895 37 H 0.063 0.937 38 H 0.072 0.928 39 H 0.083 0.917 40 H -0.010 1.010 41 H 0.040 0.960 42 H 0.248 0.752 43 H 0.093 0.907 44 H 0.083 0.917 45 H 0.093 0.907 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -7.432 -18.824 21.643 29.631 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 -0.204 4.204 2 C -0.101 4.101 3 C -0.145 4.145 4 C -0.085 4.085 5 C -0.421 4.421 6 C 0.369 3.631 7 O -0.466 6.466 8 N -0.355 5.355 9 C 0.003 3.997 10 C 0.040 3.960 11 H 0.071 0.929 12 C -0.153 4.153 13 C -0.170 4.170 14 C 0.047 3.953 15 N -0.334 5.334 16 C -0.370 4.370 17 H 0.094 0.906 18 C -0.253 4.253 19 N -0.593 5.593 20 Si 0.801 3.199 21 H -0.207 1.207 22 H -0.221 1.221 23 H -0.199 1.199 24 S 0.509 5.491 25 C -0.304 4.304 26 C -0.147 4.147 27 H 0.091 0.909 28 H 0.080 0.920 29 H 0.060 0.940 30 H 0.089 0.911 31 H 0.110 0.890 32 H 0.156 0.844 33 H 0.246 0.754 34 H 0.055 0.945 35 H 0.058 0.942 36 H 0.123 0.877 37 H 0.082 0.918 38 H 0.091 0.909 39 H 0.102 0.898 40 H 0.009 0.991 41 H 0.059 0.941 42 H 0.057 0.943 43 H 0.111 0.889 44 H 0.102 0.898 45 H 0.112 0.888 Dipole moment (debyes) X Y Z Total from point charges -7.025 -17.583 21.533 28.674 hybrid contribution -0.660 -0.419 -2.370 2.495 sum -7.684 -18.002 19.163 27.393 Atomic orbital electron populations 1.21751 0.94299 1.02489 1.01820 1.20298 0.96319 0.89677 1.03767 1.18785 1.05437 0.99749 0.90575 1.20759 0.95504 0.91813 1.00419 1.24315 1.18849 1.00261 0.98626 1.17481 0.76528 0.81646 0.87419 1.90802 1.56774 1.78127 1.20944 1.45715 1.66148 1.12436 1.11199 1.21780 0.97890 0.89802 0.90207 1.21341 0.96935 0.87163 0.90513 0.92902 1.22616 0.94371 0.97839 1.00437 1.22872 0.99799 0.97913 0.96449 1.21310 0.83312 0.98296 0.92360 1.44751 1.06194 1.46615 1.35852 1.19305 0.89364 1.28016 1.00313 0.90556 1.25676 0.97411 1.02512 0.99746 1.70136 1.11313 1.47201 1.30686 0.85173 0.78050 0.78405 0.78292 1.20684 1.22131 1.19902 1.82691 1.59628 1.11450 0.95347 1.24517 1.05502 0.98777 1.01651 1.20595 1.03788 1.02378 0.87901 0.90855 0.92003 0.94024 0.91065 0.89006 0.84427 0.75368 0.94494 0.94214 0.87656 0.91818 0.90881 0.89818 0.99149 0.94145 0.94262 0.88850 0.89818 0.88798 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 -0.15 -1.65 9.83 71.98 0.71 -0.95 16 2 C -0.06 -0.77 5.54 29.85 0.17 -0.60 16 3 C -0.13 -2.40 5.04 -21.05 -0.11 -2.51 16 4 C -0.05 -1.25 9.78 21.72 0.21 -1.04 16 5 C -0.30 -8.07 6.45 24.07 0.16 -7.92 16 6 C 0.58 20.48 7.78 86.42 0.67 21.15 16 7 O -0.58 -26.18 16.84 -4.37 -0.07 -26.25 16 8 N -0.70 -22.65 5.32 -467.18 -2.49 -25.14 16 9 C 0.13 5.29 5.07 86.38 0.44 5.73 16 10 C 0.15 5.82 3.22 45.34 0.15 5.97 16 11 H 0.05 1.96 8.14 -2.39 -0.02 1.94 16 12 C -0.11 -3.57 6.10 31.78 0.19 -3.38 16 13 C -0.13 -4.59 7.09 31.99 0.23 -4.36 16 14 C 0.17 8.47 5.43 86.86 0.47 8.94 16 15 N -0.61 -31.09 3.13 -668.22 -2.09 -33.18 16 16 C -0.24 -13.63 9.76 84.03 0.82 -12.81 16 17 H 0.08 4.20 7.83 -2.91 -0.02 4.18 16 18 C -0.06 -3.46 5.47 84.86 0.46 -3.00 16 19 N -0.95 -57.66 10.53 21.65 0.23 -57.43 16 20 Si 0.97 47.04 29.55 68.60 2.03 49.07 16 21 H -0.28 -13.09 7.11 99.48 0.71 -12.38 16 22 H -0.29 -14.39 7.11 99.48 0.71 -13.68 16 23 H -0.27 -12.84 7.11 99.48 0.71 -12.13 16 24 S 0.24 4.18 22.10 -56.49 -1.25 2.93 16 25 C -0.18 -2.77 6.28 24.68 0.15 -2.61 16 26 C -0.09 -0.67 9.71 71.24 0.69 0.02 16 27 H 0.07 0.61 8.14 -2.39 -0.02 0.59 16 28 H 0.06 0.62 7.25 -2.39 -0.02 0.60 16 29 H 0.04 0.60 8.14 -2.39 -0.02 0.59 16 30 H 0.07 0.93 8.10 -2.39 -0.02 0.91 16 31 H 0.09 0.80 7.46 -2.38 -0.02 0.78 16 32 H 0.14 3.63 8.06 -2.91 -0.02 3.61 16 33 H 0.41 10.15 7.45 -92.71 -0.69 9.46 16 34 H 0.04 1.73 7.92 -2.39 -0.02 1.71 16 35 H 0.04 1.85 8.08 -2.39 -0.02 1.83 16 36 H 0.11 2.36 8.14 -2.39 -0.02 2.34 16 37 H 0.06 2.02 7.81 -2.39 -0.02 2.00 16 38 H 0.07 2.37 8.14 -2.38 -0.02 2.35 16 39 H 0.08 2.52 8.14 -2.39 -0.02 2.50 16 40 H -0.01 -0.53 8.08 -2.39 -0.02 -0.55 16 41 H 0.04 2.23 6.85 -2.39 -0.02 2.22 16 42 H 0.25 14.72 8.31 -92.71 -0.77 13.95 16 43 H 0.09 0.50 8.14 -2.39 -0.02 0.48 16 44 H 0.08 0.48 8.14 -2.39 -0.02 0.46 16 45 H 0.09 0.51 6.40 -2.39 -0.02 0.50 16 Total: -1.00 -75.20 376.06 2.07 -73.14 By element: Atomic # 1 Polarization: 13.95 SS G_CDS: 0.30 Total: 14.24 kcal Atomic # 6 Polarization: -2.79 SS G_CDS: 5.41 Total: 2.62 kcal Atomic # 7 Polarization: -111.40 SS G_CDS: -4.35 Total: -115.75 kcal Atomic # 8 Polarization: -26.18 SS G_CDS: -0.07 Total: -26.25 kcal Atomic # 14 Polarization: 47.04 SS G_CDS: 2.03 Total: 49.07 kcal Atomic # 16 Polarization: 4.18 SS G_CDS: -1.25 Total: 2.93 kcal Total: -75.20 2.07 -73.14 kcal The number of atoms in the molecule is 45 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. ZINC001028305734.mol2 45 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 54.966 kcal (2) G-P(sol) polarization free energy of solvation -75.203 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -20.237 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.067 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -73.136 kcal (6) G-S(sol) free energy of system = (1) + (5) -18.170 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.66 seconds