Wall clock time and date at job start Tue Mar 31 2020 21:28:00 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 1.81406 * 1 3 3 C 1.81397 * 103.00156 * 2 1 4 4 H 1.09002 * 109.47392 * 54.99826 * 3 2 1 5 5 C 1.53004 * 109.47112 * 295.00333 * 3 2 1 6 6 C 1.50701 * 109.47394 * 174.99850 * 3 2 1 7 7 O 1.21281 * 119.99695 * 25.00477 * 6 3 2 8 8 N 1.34773 * 120.00429 * 204.99805 * 6 3 2 9 9 C 1.47424 * 125.65160 * 179.97438 * 8 6 3 10 10 C 1.54907 * 104.83239 * 204.16604 * 9 8 6 11 11 H 1.09002 * 111.00095 * 81.06420 * 10 9 8 12 12 C 1.50697 * 111.00094 * 204.91521 * 10 9 8 13 13 C 1.39862 * 126.04225 * 51.89295 * 12 10 9 14 14 N 1.30835 * 108.20671 * 179.81502 * 13 12 10 15 15 N 1.40091 * 108.20198 * 0.43593 * 14 13 12 16 16 C 1.46502 * 126.03420 * 179.73653 * 15 14 13 17 17 C 1.34945 * 107.92553 * 359.72145 * 15 14 13 18 18 C 1.55150 * 101.58323 * 322.99091 * 10 9 8 19 19 H 1.08994 * 110.87176 * 277.06670 * 18 10 9 20 20 N 1.46504 * 110.71845 * 153.86249 * 18 10 9 21 21 C 1.36943 * 119.99781 * 160.02530 * 20 18 10 22 22 H 1.08002 * 119.99788 * 359.97438 * 21 20 18 23 23 C 1.38811 * 119.99622 * 180.27904 * 21 20 18 24 24 N 1.31614 * 120.00467 * 359.72375 * 23 21 20 25 25 Si 1.86801 * 119.99700 * 179.72266 * 23 21 20 26 26 H 1.48496 * 109.47031 * 59.99836 * 25 23 21 27 27 H 1.48497 * 109.47267 * 179.97438 * 25 23 21 28 28 H 1.48504 * 109.47169 * 300.00118 * 25 23 21 29 29 C 1.47028 * 125.64573 * 0.02789 * 8 6 3 30 30 H 1.09004 * 109.46699 * 59.99777 * 1 2 3 31 31 H 1.08998 * 109.47182 * 179.97438 * 1 2 3 32 32 H 1.09002 * 109.47043 * 300.00157 * 1 2 3 33 33 H 1.08993 * 109.47170 * 59.99717 * 5 3 2 34 34 H 1.09004 * 109.47142 * 180.02562 * 5 3 2 35 35 H 1.09003 * 109.46559 * 299.99437 * 5 3 2 36 36 H 1.09003 * 110.36388 * 323.00842 * 9 8 6 37 37 H 1.09000 * 110.36372 * 85.32871 * 9 8 6 38 38 H 1.07998 * 125.89861 * 359.97438 * 13 12 10 39 39 H 1.08997 * 109.47241 * 269.97856 * 16 15 14 40 40 H 1.08994 * 109.47180 * 29.98304 * 16 15 14 41 41 H 1.08999 * 109.46797 * 149.97842 * 16 15 14 42 42 H 1.07991 * 126.12574 * 180.02562 * 17 15 14 43 43 H 0.97000 * 120.00410 * 340.02855 * 20 18 10 44 44 H 0.96995 * 120.00147 * 180.02562 * 24 23 21 45 45 H 1.09000 * 109.88075 * 59.48299 * 29 8 6 46 46 H 1.08996 * 109.88098 * 298.31959 * 29 8 6 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 1.8141 0.0000 0.0000 3 6 2.2222 1.7675 0.0000 4 1 1.7296 2.2542 0.8418 5 6 1.7428 2.4016 -1.3073 6 6 3.7143 1.9386 0.1239 7 8 4.4585 1.0531 -0.2409 8 7 4.2218 3.0755 0.6398 9 6 5.6545 3.3736 0.8182 10 6 5.7020 4.4277 1.9524 11 1 5.6248 3.9528 2.9305 12 6 6.9506 5.2662 1.8584 13 6 7.4028 5.9445 0.7220 14 7 8.5140 6.5626 1.0300 15 7 8.8099 6.2885 2.3716 16 6 9.9717 6.7809 3.1159 17 6 7.8355 5.4912 2.8572 18 6 4.4390 5.2743 1.6439 19 1 4.6498 6.0219 0.8793 20 7 3.9313 5.9105 2.8621 21 6 3.1040 6.9981 2.7727 22 1 2.8261 7.3870 1.8042 23 6 2.6276 7.6044 3.9270 24 7 2.9667 7.1307 5.1072 25 14 1.5053 9.0927 3.8052 26 1 0.2751 8.7252 3.0591 27 1 1.1382 9.5488 5.1699 28 1 2.2098 10.1868 3.0898 29 6 3.4381 4.2235 1.1192 30 1 -0.3633 0.5139 -0.8900 31 1 -0.3633 -1.0276 -0.0005 32 1 -0.3633 0.5139 0.8900 33 1 0.6636 2.2778 -1.3969 34 1 1.9885 3.4636 -1.3075 35 1 2.2355 1.9149 -2.1491 36 1 6.1952 2.4743 1.1131 37 1 6.0734 3.7853 -0.1001 38 1 6.9171 5.9581 -0.2425 39 1 10.7951 6.0741 3.0134 40 1 10.2733 7.7502 2.7190 41 1 9.7110 6.8848 4.1691 42 1 7.7730 5.1026 3.8629 43 1 4.1812 5.5614 3.7319 44 1 2.6335 7.5542 5.9137 45 1 2.7744 3.9088 1.9245 46 1 2.8559 4.6432 0.2989 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC001086967880.mol2 46 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 21:28:00 Heat of formation + Delta-G solvation = 46.069601 kcal Electronic energy + Delta-G solvation = -27452.801820 eV Core-core repulsion = 23698.361295 eV Total energy + Delta-G solvation = -3754.440525 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 338.152 amu Computer time = 0.76 seconds Orbital eigenvalues (eV) -42.18635 -41.06990 -38.83101 -35.82166 -34.78661 -34.06837 -33.11988 -32.17939 -29.99284 -29.56839 -28.95937 -27.29354 -26.14241 -25.37150 -23.73155 -22.45433 -21.73875 -20.72990 -20.41727 -19.10977 -18.39851 -17.74112 -17.61667 -16.88745 -16.52251 -16.22206 -16.02375 -15.72844 -15.38128 -15.18862 -15.08554 -14.78669 -14.54562 -14.29999 -14.16759 -13.88297 -13.75701 -13.69254 -13.49043 -13.30703 -13.22484 -13.10970 -12.93692 -12.78865 -12.63583 -12.58590 -12.37328 -12.19113 -11.79876 -11.71719 -11.38875 -11.07890 -10.89017 -10.82329 -10.28109 -9.68091 -9.26033 -8.92719 -8.72215 -7.89272 -5.17190 0.44408 1.02033 1.49085 1.52027 1.52967 1.58321 1.64063 1.75013 1.85928 2.00669 2.59896 3.31570 3.42176 3.60305 3.79861 3.88580 3.92045 3.99025 4.01024 4.10149 4.30647 4.34721 4.38246 4.38567 4.40149 4.47171 4.53473 4.60301 4.61490 4.67402 4.70439 4.78137 4.85173 4.91289 4.97679 5.03566 5.12308 5.20031 5.27374 5.45775 5.60201 5.76272 6.19429 6.31167 6.43074 6.79232 7.01487 7.40158 8.12166 8.36329 9.33276 Molecular weight = 338.15amu Principal moments of inertia in cm(-1) A = 0.007658 B = 0.004149 C = 0.002880 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 3655.203908 B = 6747.329039 C = 9719.005349 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.120 4.120 2 S -0.259 6.259 3 C -0.078 4.078 4 H 0.113 0.887 5 C -0.135 4.135 6 C 0.544 3.456 7 O -0.567 6.567 8 N -0.604 5.604 9 C 0.125 3.875 10 C -0.013 4.013 11 H 0.082 0.918 12 C -0.224 4.224 13 C 0.050 3.950 14 N -0.331 5.331 15 N -0.382 5.382 16 C 0.095 3.905 17 C 0.061 3.939 18 C 0.182 3.818 19 H 0.067 0.933 20 N -0.716 5.716 21 C -0.234 4.234 22 H 0.078 0.922 23 C -0.066 4.066 24 N -0.965 5.965 25 Si 0.960 3.040 26 H -0.276 1.276 27 H -0.301 1.301 28 H -0.284 1.284 29 C 0.083 3.917 30 H 0.094 0.906 31 H 0.117 0.883 32 H 0.084 0.916 33 H 0.091 0.909 34 H 0.077 0.923 35 H 0.067 0.933 36 H 0.071 0.929 37 H 0.081 0.919 38 H 0.193 0.807 39 H 0.090 0.910 40 H 0.088 0.912 41 H 0.105 0.895 42 H 0.192 0.808 43 H 0.376 0.624 44 H 0.249 0.751 45 H 0.062 0.938 46 H 0.078 0.922 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 3.140 -7.475 -8.164 11.506 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 -0.034 6.034 3 C -0.209 4.209 4 H 0.131 0.869 5 C -0.194 4.194 6 C 0.332 3.668 7 O -0.447 6.447 8 N -0.337 5.337 9 C 0.002 3.998 10 C -0.034 4.034 11 H 0.100 0.900 12 C -0.236 4.236 13 C -0.135 4.135 14 N -0.153 5.153 15 N -0.164 5.164 16 C -0.045 4.045 17 C -0.085 4.085 18 C 0.071 3.929 19 H 0.085 0.915 20 N -0.355 5.355 21 C -0.366 4.366 22 H 0.096 0.904 23 C -0.258 4.258 24 N -0.615 5.615 25 Si 0.791 3.209 26 H -0.202 1.202 27 H -0.228 1.228 28 H -0.210 1.210 29 C -0.043 4.043 30 H 0.113 0.887 31 H 0.135 0.865 32 H 0.103 0.897 33 H 0.109 0.891 34 H 0.096 0.904 35 H 0.086 0.914 36 H 0.089 0.911 37 H 0.099 0.901 38 H 0.210 0.790 39 H 0.109 0.891 40 H 0.107 0.893 41 H 0.123 0.877 42 H 0.209 0.791 43 H 0.209 0.791 44 H 0.058 0.942 45 H 0.081 0.919 46 H 0.096 0.904 Dipole moment (debyes) X Y Z Total from point charges 5.163 -7.885 -8.764 12.870 hybrid contribution -1.991 1.329 1.075 2.624 sum 3.172 -6.557 -7.688 10.590 Atomic orbital electron populations 1.23587 0.91272 1.07820 1.06189 1.87460 1.09848 1.08002 1.98083 1.23243 0.95296 0.97284 1.05082 0.86862 1.21962 1.03037 1.01262 0.93108 1.19726 0.89721 0.80552 0.76802 1.90691 1.61478 1.41640 1.50853 1.48416 1.08665 1.15988 1.60635 1.22227 0.81020 0.98039 0.98497 1.20621 0.91110 0.93319 0.98368 0.89950 1.19648 1.00046 1.09534 0.94366 1.23919 0.93520 0.95830 1.00230 1.77216 1.18931 1.24910 0.94265 1.48695 1.20792 1.38504 1.08423 1.22135 0.84823 1.01394 0.96150 1.22675 0.89738 0.95573 1.00549 1.21338 0.90076 0.91949 0.89552 0.91463 1.42379 1.56501 1.33510 1.03103 1.19532 1.19726 1.04681 0.92641 0.90368 1.25367 1.03056 1.02186 0.95222 1.69776 1.50652 1.44102 0.96987 0.85411 0.79419 0.80252 0.75861 1.20219 1.22783 1.21047 1.23130 0.95981 0.86201 0.98962 0.88731 0.86463 0.89722 0.89059 0.90424 0.91416 0.91058 0.90129 0.79046 0.89112 0.89290 0.87688 0.79146 0.79124 0.94232 0.91934 0.90412 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 -0.12 -1.87 10.45 113.37 1.19 -0.69 16 2 S -0.26 -6.69 21.10 -56.49 -1.19 -7.89 16 3 C -0.08 -1.96 2.68 29.85 0.08 -1.88 16 4 H 0.11 2.74 7.25 -2.39 -0.02 2.72 16 5 C -0.13 -2.66 9.08 71.98 0.65 -2.00 16 6 C 0.54 17.10 6.97 87.66 0.61 17.71 16 7 O -0.57 -21.63 16.39 -3.03 -0.05 -21.68 16 8 N -0.60 -17.80 3.33 -811.79 -2.70 -20.50 16 9 C 0.12 3.52 6.35 86.85 0.55 4.07 16 10 C -0.01 -0.39 3.06 -10.15 -0.03 -0.42 16 11 H 0.08 2.56 8.00 -2.39 -0.02 2.54 16 12 C -0.22 -6.58 5.02 -20.15 -0.10 -6.69 16 13 C 0.05 1.47 10.85 85.23 0.92 2.40 16 14 N -0.33 -10.28 12.58 -57.03 -0.72 -11.00 16 15 N -0.38 -10.23 4.01 -369.58 -1.48 -11.71 16 16 C 0.09 1.61 11.47 127.77 1.47 3.07 16 17 C 0.06 1.68 11.40 83.54 0.95 2.63 16 18 C 0.18 6.17 3.04 46.18 0.14 6.31 16 19 H 0.07 2.33 7.68 -2.39 -0.02 2.31 16 20 N -0.72 -31.62 5.18 -317.33 -1.64 -33.26 16 21 C -0.23 -11.65 9.98 84.03 0.84 -10.81 16 22 H 0.08 3.72 7.83 -2.91 -0.02 3.69 16 23 C -0.07 -3.48 5.50 84.86 0.47 -3.01 16 24 N -0.96 -55.05 13.06 21.65 0.28 -54.77 16 25 Si 0.96 43.37 29.55 68.60 2.03 45.40 16 26 H -0.28 -11.91 7.11 99.48 0.71 -11.21 16 27 H -0.30 -13.99 7.11 99.48 0.71 -13.28 16 28 H -0.28 -12.59 7.11 99.48 0.71 -11.88 16 29 C 0.08 2.50 5.98 86.73 0.52 3.02 16 30 H 0.09 1.17 7.14 -2.39 -0.02 1.15 16 31 H 0.12 1.49 8.14 -2.39 -0.02 1.47 16 32 H 0.08 1.23 8.14 -2.39 -0.02 1.21 16 33 H 0.09 1.37 6.92 -2.39 -0.02 1.35 16 34 H 0.08 1.46 7.29 -2.38 -0.02 1.45 16 35 H 0.07 1.43 8.14 -2.39 -0.02 1.41 16 36 H 0.07 2.09 8.04 -2.39 -0.02 2.07 16 37 H 0.08 2.10 7.35 -2.39 -0.02 2.08 16 38 H 0.19 4.71 7.94 -2.91 -0.02 4.69 16 39 H 0.09 1.17 8.14 -2.39 -0.02 1.15 16 40 H 0.09 1.46 8.14 -2.39 -0.02 1.44 16 41 H 0.10 1.37 8.14 -2.39 -0.02 1.35 16 42 H 0.19 4.26 8.06 -2.91 -0.02 4.23 16 43 H 0.38 18.15 7.71 -92.71 -0.72 17.44 16 44 H 0.25 14.02 8.31 -92.71 -0.77 13.25 16 45 H 0.06 2.09 7.68 -2.39 -0.02 2.07 16 46 H 0.08 2.11 7.29 -2.39 -0.02 2.10 16 Total: -1.00 -69.92 391.69 3.05 -66.87 By element: Atomic # 1 Polarization: 34.54 SS G_CDS: 0.27 Total: 34.81 kcal Atomic # 6 Polarization: 5.46 SS G_CDS: 8.26 Total: 13.72 kcal Atomic # 7 Polarization: -124.97 SS G_CDS: -6.26 Total: -131.23 kcal Atomic # 8 Polarization: -21.63 SS G_CDS: -0.05 Total: -21.68 kcal Atomic # 14 Polarization: 43.37 SS G_CDS: 2.03 Total: 45.40 kcal Atomic # 16 Polarization: -6.69 SS G_CDS: -1.19 Total: -7.89 kcal Total: -69.92 3.05 -66.87 kcal The number of atoms in the molecule is 46 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. ZINC001086967880.mol2 46 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 112.940 kcal (2) G-P(sol) polarization free energy of solvation -69.923 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 43.017 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.052 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -66.871 kcal (6) G-S(sol) free energy of system = (1) + (5) 46.070 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.76 seconds