Wall clock time and date at job start Tue Mar 31 2020 20:39:38 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 1.53006 * 1 3 3 C 1.50698 * 109.46862 * 2 1 4 4 C 1.35136 * 125.62005 * 90.00023 * 3 2 1 5 5 C 1.40362 * 107.11382 * 180.29958 * 4 3 2 6 6 C 1.36540 * 106.70990 * 359.57420 * 5 4 3 7 7 C 1.46659 * 125.98809 * 180.15316 * 6 5 4 8 8 O 1.21698 * 119.99878 * 0.29396 * 7 6 5 9 9 N 1.34773 * 119.99972 * 180.29870 * 7 6 5 10 10 C 1.47065 * 136.06017 * 359.62417 * 9 7 6 11 11 C 1.53751 * 87.88750 * 152.96994 * 10 9 7 12 12 N 1.46502 * 114.26828 * 139.79838 * 11 10 9 13 13 C 1.34773 * 120.00242 * 111.47056 * 12 11 10 14 14 O 1.21281 * 120.00271 * 0.02562 * 13 12 11 15 15 C 1.50707 * 120.00056 * 180.02562 * 13 12 11 16 16 S 1.81000 * 109.47325 * 180.02562 * 15 13 12 17 17 C 1.76199 * 99.99734 * 179.97438 * 16 15 13 18 18 H 1.07993 * 120.00044 * 359.97438 * 17 16 15 19 19 C 1.38803 * 119.99430 * 179.97438 * 17 16 15 20 20 N 1.31628 * 120.00232 * 0.02562 * 19 17 16 21 21 Si 1.86797 * 119.99577 * 179.97438 * 19 17 16 22 22 H 1.48503 * 109.47399 * 90.00461 * 21 19 17 23 23 H 1.48505 * 109.47138 * 210.00034 * 21 19 17 24 24 H 1.48501 * 109.47573 * 330.00376 * 21 19 17 25 25 C 1.47074 * 136.05821 * 180.02562 * 9 7 6 26 26 O 1.33930 * 125.61534 * 270.03953 * 3 2 1 27 27 H 1.09003 * 109.46733 * 180.02562 * 1 2 3 28 28 H 1.09007 * 109.47086 * 299.99897 * 1 2 3 29 29 H 1.08993 * 109.47211 * 60.00229 * 1 2 3 30 30 H 1.08994 * 109.47437 * 240.00055 * 2 1 3 31 31 H 1.09002 * 109.46996 * 119.99640 * 2 1 3 32 32 H 1.08002 * 126.43745 * 0.03088 * 4 3 2 33 33 H 1.08007 * 126.64273 * 179.74161 * 5 4 3 34 34 H 1.09003 * 113.47026 * 267.69956 * 10 9 7 35 35 H 1.09005 * 113.46631 * 38.13919 * 10 9 7 36 36 H 1.09007 * 114.39663 * 272.67314 * 11 10 9 37 37 H 0.97004 * 119.99478 * 291.47720 * 12 11 10 38 38 H 1.09003 * 109.46674 * 300.00728 * 15 13 12 39 39 H 1.09003 * 109.46725 * 59.99695 * 15 13 12 40 40 H 0.97002 * 119.99658 * 179.97438 * 20 19 17 41 41 H 1.09005 * 113.46160 * 321.86006 * 25 9 7 42 42 H 1.08996 * 113.46696 * 92.29610 * 25 9 7 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 1.5301 0.0000 0.0000 3 6 2.0323 1.4208 0.0000 4 6 2.2946 2.1629 1.0985 5 6 2.7316 3.4201 0.6530 6 6 2.7228 3.3779 -0.7117 7 6 3.1083 4.4710 -1.6103 8 8 3.4829 5.5335 -1.1501 9 7 3.0475 4.2989 -2.9456 10 6 2.6698 3.2079 -3.8566 11 6 2.3002 4.2796 -4.8952 12 7 2.6891 3.9471 -6.2680 13 6 1.7433 3.6825 -7.1910 14 8 0.5703 3.7201 -6.8853 15 6 2.1434 3.3399 -8.6030 16 16 0.6592 3.0406 -9.5949 17 6 1.4001 2.6738 -11.1510 18 1 2.4751 2.6845 -11.2531 19 6 0.6019 2.3711 -12.2454 20 7 -0.7085 2.3585 -12.1210 21 14 1.3872 1.9829 -13.8952 22 1 1.6418 0.5230 -13.9911 23 1 0.4726 2.3987 -14.9889 24 1 2.6715 2.7184 -14.0175 25 6 3.3365 5.1171 -4.1330 26 8 2.2916 2.1564 -1.0888 27 1 -0.3633 -1.0277 0.0005 28 1 -0.3633 0.5138 0.8900 29 1 -0.3633 0.5138 -0.8899 30 1 1.8934 -0.5138 -0.8899 31 1 1.8934 -0.5138 0.8900 32 1 2.1842 1.8490 2.1260 33 1 3.0216 4.2577 1.2702 34 1 3.5107 2.5832 -4.1579 35 1 1.8162 2.6268 -3.5075 36 1 1.2785 4.6510 -4.8149 37 1 3.6273 3.9173 -6.5126 38 1 2.7060 4.1689 -9.0325 39 1 2.7641 2.4439 -8.5975 40 1 -1.2662 2.1473 -12.8860 41 1 3.0509 6.1630 -4.0194 42 1 4.3530 4.9954 -4.5071 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001356743866.mol2 42 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 20:39:38 Heat of formation + Delta-G solvation = -44.578071 kcal Electronic energy + Delta-G solvation = -25465.905731 eV Core-core repulsion = 21539.408582 eV Total energy + Delta-G solvation = -3926.497148 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 338.113 amu Computer time = 0.67 seconds Orbital eigenvalues (eV) -43.79331 -41.77427 -40.32052 -38.99012 -35.27448 -34.97245 -34.55737 -33.93773 -31.69409 -30.45383 -28.97015 -27.63175 -27.21614 -25.29149 -23.62462 -22.72993 -21.90736 -21.77396 -20.70323 -19.79660 -18.92256 -18.08603 -17.73478 -17.63608 -17.30100 -16.85580 -16.56837 -16.34131 -16.24049 -15.53072 -15.25918 -14.96483 -14.88590 -14.67710 -14.31920 -14.14082 -14.04836 -13.95291 -13.83424 -13.52351 -13.31955 -13.28238 -13.14008 -12.87673 -12.59691 -12.49707 -12.29887 -11.95639 -11.74187 -11.63313 -11.12125 -11.10333 -10.97925 -10.24006 -10.22771 -10.09667 -9.53990 -8.63532 -8.32654 -6.09883 -0.11035 1.17326 1.26708 1.34605 1.44042 1.50503 1.56027 1.59456 1.75707 1.94302 2.28707 2.35670 3.01795 3.08510 3.31631 3.34427 3.59859 3.72781 3.87660 3.90815 4.05364 4.16195 4.27110 4.30673 4.36381 4.41205 4.43959 4.48981 4.54269 4.57043 4.61072 4.80375 4.84894 4.91673 4.99902 5.04179 5.30184 5.37196 5.40231 5.44823 5.84918 6.22245 6.26766 6.47763 6.73246 7.09244 7.21627 8.76331 Molecular weight = 338.11amu Principal moments of inertia in cm(-1) A = 0.017516 B = 0.002007 C = 0.001856 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1598.196699 B =13946.432411 C =15084.079542 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.152 4.152 2 C -0.047 4.047 3 C 0.026 3.974 4 C -0.223 4.223 5 C -0.115 4.115 6 C -0.109 4.109 7 C 0.632 3.368 8 O -0.557 6.557 9 N -0.641 5.641 10 C 0.093 3.907 11 C 0.117 3.883 12 N -0.694 5.694 13 C 0.541 3.459 14 O -0.561 6.561 15 C -0.129 4.129 16 S -0.154 6.154 17 C -0.544 4.544 18 H 0.085 0.915 19 C 0.012 3.988 20 N -0.912 5.912 21 Si 0.997 3.003 22 H -0.268 1.268 23 H -0.280 1.280 24 H -0.258 1.258 25 C 0.105 3.895 26 O -0.168 6.168 27 H 0.085 0.915 28 H 0.063 0.937 29 H 0.042 0.958 30 H 0.090 0.910 31 H 0.126 0.874 32 H 0.185 0.815 33 H 0.166 0.834 34 H 0.117 0.883 35 H 0.080 0.920 36 H 0.111 0.889 37 H 0.424 0.576 38 H 0.114 0.886 39 H 0.115 0.885 40 H 0.270 0.730 41 H 0.090 0.910 42 H 0.126 0.874 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 11.574 -3.724 25.518 28.267 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 -0.209 4.209 2 C -0.084 4.084 3 C -0.027 4.027 4 C -0.242 4.242 5 C -0.136 4.136 6 C -0.161 4.161 7 C 0.423 3.577 8 O -0.438 6.438 9 N -0.374 5.374 10 C -0.031 4.031 11 C 0.010 3.990 12 N -0.349 5.349 13 C 0.327 3.673 14 O -0.438 6.438 15 C -0.281 4.281 16 S 0.073 5.927 17 C -0.692 4.692 18 H 0.103 0.897 19 C -0.193 4.193 20 N -0.548 5.548 21 Si 0.819 3.181 22 H -0.193 1.193 23 H -0.206 1.206 24 H -0.181 1.181 25 C -0.017 4.017 26 O -0.065 6.065 27 H 0.104 0.896 28 H 0.082 0.918 29 H 0.061 0.939 30 H 0.108 0.892 31 H 0.144 0.856 32 H 0.203 0.797 33 H 0.183 0.817 34 H 0.135 0.865 35 H 0.099 0.901 36 H 0.129 0.871 37 H 0.263 0.737 38 H 0.132 0.868 39 H 0.134 0.866 40 H 0.079 0.921 41 H 0.109 0.891 42 H 0.143 0.857 Dipole moment (debyes) X Y Z Total from point charges 9.656 -3.163 26.088 27.996 hybrid contribution 1.691 0.013 -1.287 2.125 sum 11.346 -3.150 24.801 27.454 Atomic orbital electron populations 1.21807 0.93311 1.03637 1.02137 1.20435 0.96685 0.85091 1.06211 1.23666 0.99236 0.96071 0.83716 1.21922 1.07899 0.93134 1.01196 1.22225 0.99133 0.99838 0.92393 1.21714 1.13759 0.85994 0.94595 1.16071 0.77137 0.85033 0.79420 1.90862 1.50514 1.26920 1.75547 1.49088 1.65422 1.19760 1.03128 1.23795 1.01666 0.91840 0.85774 1.22571 1.00155 0.96132 0.80147 1.45406 1.10305 1.71126 1.08082 1.20098 0.85477 0.75159 0.86529 1.90718 1.20012 1.51781 1.81262 1.23378 1.03703 1.06477 0.94507 1.85617 1.09437 1.91108 1.06497 1.23207 0.95751 1.54539 0.95654 0.89723 1.26114 0.95242 0.94437 1.03462 1.70183 1.05114 1.46846 1.32676 0.84973 0.78284 0.78838 0.76009 1.19344 1.20579 1.18137 1.23533 1.00658 0.97483 0.80044 1.84047 1.64722 1.21795 1.35895 0.89591 0.91755 0.93907 0.89168 0.85631 0.79735 0.81668 0.86486 0.90119 0.87096 0.73734 0.86819 0.86646 0.92080 0.89145 0.85667 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 -1.40 9.89 71.98 0.71 -0.69 16 2 C -0.05 -0.41 6.47 29.85 0.19 -0.22 16 3 C 0.03 0.40 6.57 24.97 0.16 0.56 16 4 C -0.22 -3.22 10.77 22.07 0.24 -2.98 16 5 C -0.12 -2.24 10.62 22.39 0.24 -2.01 16 6 C -0.11 -2.53 7.09 24.07 0.17 -2.36 16 7 C 0.63 16.40 8.04 86.44 0.69 17.09 16 8 O -0.56 -17.54 17.64 -4.34 -0.08 -17.62 16 9 N -0.64 -13.52 3.69 -862.65 -3.18 -16.70 16 10 C 0.09 1.67 7.64 83.26 0.64 2.31 16 11 C 0.12 2.31 4.62 45.55 0.21 2.52 16 12 N -0.69 -13.98 5.39 -441.51 -2.38 -16.36 16 13 C 0.54 17.63 7.85 87.66 0.69 18.31 16 14 O -0.56 -23.98 15.45 -3.03 -0.05 -24.03 16 15 C -0.13 -4.62 6.16 71.24 0.44 -4.19 16 16 S -0.15 -8.18 20.57 -56.49 -1.16 -9.34 16 17 C -0.54 -30.00 9.50 67.96 0.65 -29.35 16 18 H 0.08 4.30 7.80 -2.91 -0.02 4.27 16 19 C 0.01 0.68 5.49 84.86 0.47 1.14 16 20 N -0.91 -55.09 13.22 21.65 0.29 -54.80 16 21 Si 1.00 42.60 29.55 68.60 2.03 44.63 16 22 H -0.27 -11.00 7.11 99.48 0.71 -10.29 16 23 H -0.28 -11.79 7.11 99.48 0.71 -11.08 16 24 H -0.26 -10.28 7.11 99.48 0.71 -9.57 16 25 C 0.11 1.70 8.38 83.18 0.70 2.40 16 26 O -0.17 -3.51 9.25 -5.03 -0.05 -3.55 16 27 H 0.09 0.53 8.14 -2.39 -0.02 0.51 16 28 H 0.06 0.56 8.14 -2.38 -0.02 0.54 16 29 H 0.04 0.57 8.14 -2.39 -0.02 0.55 16 30 H 0.09 0.74 8.14 -2.39 -0.02 0.73 16 31 H 0.13 0.42 8.14 -2.39 -0.02 0.40 16 32 H 0.19 1.46 8.06 -2.91 -0.02 1.44 16 33 H 0.17 2.90 8.06 -2.91 -0.02 2.88 16 34 H 0.12 1.57 8.14 -2.39 -0.02 1.55 16 35 H 0.08 1.64 7.50 -2.38 -0.02 1.62 16 36 H 0.11 2.81 7.45 -2.38 -0.02 2.79 16 37 H 0.42 5.14 8.76 -92.71 -0.81 4.33 16 38 H 0.11 3.60 8.14 -2.39 -0.02 3.58 16 39 H 0.12 3.60 8.14 -2.39 -0.02 3.58 16 40 H 0.27 15.19 8.31 -92.71 -0.77 14.42 16 41 H 0.09 1.53 8.14 -2.38 -0.02 1.51 16 42 H 0.13 1.27 8.13 -2.39 -0.02 1.25 16 Total: -1.00 -82.09 382.53 1.85 -80.24 By element: Atomic # 1 Polarization: 14.76 SS G_CDS: 0.24 Total: 15.00 kcal Atomic # 6 Polarization: -3.65 SS G_CDS: 6.19 Total: 2.54 kcal Atomic # 7 Polarization: -82.59 SS G_CDS: -5.27 Total: -87.87 kcal Atomic # 8 Polarization: -45.03 SS G_CDS: -0.17 Total: -45.20 kcal Atomic # 14 Polarization: 42.60 SS G_CDS: 2.03 Total: 44.63 kcal Atomic # 16 Polarization: -8.18 SS G_CDS: -1.16 Total: -9.34 kcal Total: -82.09 1.85 -80.24 kcal The number of atoms in the molecule is 42 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. ZINC001356743866.mol2 42 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 35.663 kcal (2) G-P(sol) polarization free energy of solvation -82.093 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -46.430 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.852 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -80.241 kcal (6) G-S(sol) free energy of system = (1) + (5) -44.578 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.68 seconds