Wall clock time and date at job start Tue Mar 31 2020 21:23:00 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 O 1.45203 * 1 3 3 C 1.34236 * 116.99567 * 2 1 4 4 O 1.20826 * 120.00195 * 359.97438 * 3 2 1 5 5 C 1.50703 * 119.99679 * 179.97438 * 3 2 1 6 6 S 1.81396 * 109.47101 * 179.97438 * 5 3 2 7 7 C 1.81400 * 103.00113 * 179.97438 * 6 5 3 8 8 C 1.52994 * 109.47199 * 180.02562 * 7 6 5 9 9 C 1.50696 * 109.47176 * 180.02562 * 8 7 6 10 10 O 1.20823 * 120.00135 * 0.02562 * 9 8 7 11 11 O 1.34235 * 119.99963 * 179.97438 * 9 8 7 12 12 C 1.45200 * 116.99794 * 179.97438 * 11 9 8 13 13 C 1.50701 * 109.47044 * 180.02562 * 12 11 9 14 14 C 1.38633 * 119.74785 * 269.73062 * 13 12 11 15 15 C 1.37616 * 120.24971 * 179.72226 * 14 13 12 16 16 C 1.40726 * 119.74353 * 0.56653 * 15 14 13 17 17 C 1.41392 * 120.24573 * 179.68153 * 16 15 14 18 18 H 1.07998 * 120.00120 * 204.40682 * 17 16 15 19 19 C 1.39945 * 119.99829 * 24.40979 * 17 16 15 20 20 N 1.30824 * 120.00405 * 17.84574 * 19 17 16 21 21 Si 1.86797 * 119.99936 * 197.84402 * 19 17 16 22 22 H 1.48498 * 109.47062 * 59.99965 * 21 19 17 23 23 H 1.48505 * 109.47337 * 179.97438 * 21 19 17 24 24 H 1.48504 * 109.47130 * 299.99991 * 21 19 17 25 25 C 1.40715 * 119.50640 * 359.70704 * 16 15 14 26 26 C 1.37616 * 119.75074 * 359.97438 * 25 16 15 27 27 H 1.09002 * 109.46536 * 60.00712 * 1 2 3 28 28 H 1.09002 * 109.46907 * 180.02562 * 1 2 3 29 29 H 1.08996 * 109.47619 * 300.00900 * 1 2 3 30 30 H 1.09003 * 109.47241 * 59.99395 * 5 3 2 31 31 H 1.08996 * 109.46840 * 299.99735 * 5 3 2 32 32 H 1.09000 * 109.46753 * 60.00393 * 7 6 5 33 33 H 1.08993 * 109.47215 * 300.00370 * 7 6 5 34 34 H 1.09001 * 109.47455 * 59.99620 * 8 7 6 35 35 H 1.09001 * 109.47076 * 300.00029 * 8 7 6 36 36 H 1.09004 * 109.47012 * 300.00047 * 12 11 9 37 37 H 1.09003 * 109.47353 * 60.00225 * 12 11 9 38 38 H 1.07996 * 119.87768 * 359.97438 * 14 13 12 39 39 H 1.08002 * 120.13552 * 180.27593 * 15 14 13 40 40 H 0.97002 * 120.00394 * 180.02562 * 20 19 17 41 41 H 1.08003 * 120.12445 * 179.97438 * 25 16 15 42 42 H 1.07993 * 119.88115 * 179.97438 * 26 25 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 8 1.4520 0.0000 0.0000 3 6 2.0614 1.1961 0.0000 4 8 1.4032 2.2094 -0.0005 5 6 3.5663 1.2750 0.0006 6 16 4.0806 3.0145 -0.0003 7 6 5.8913 2.9048 0.0013 8 6 6.4876 4.3137 0.0014 9 6 7.9918 4.2225 0.0021 10 8 8.5315 3.1415 0.0020 11 8 8.7321 5.3423 0.0017 12 6 10.1748 5.1787 0.0030 13 6 10.8341 6.5339 0.0031 14 6 11.1411 7.1495 -1.2006 15 6 11.7380 8.3894 -1.2126 16 6 12.0474 9.0271 0.0031 17 6 12.6668 10.2982 0.0030 18 1 13.2500 10.6147 0.8551 19 6 12.5240 11.1461 -1.1011 20 7 11.5639 10.9388 -1.9653 21 14 13.7043 12.5739 -1.3410 22 1 15.0903 12.0551 -1.4639 23 1 13.3418 13.3136 -2.5766 24 1 13.6195 13.4878 -0.1735 25 6 11.7364 8.3902 1.2186 26 6 11.1335 7.1532 1.2067 27 1 -0.3632 0.5137 -0.8901 28 1 -0.3633 -1.0277 0.0005 29 1 -0.3634 0.5139 0.8898 30 1 3.9564 0.7806 -0.8891 31 1 3.9556 0.7811 0.8908 32 1 6.2235 2.3693 -0.8880 33 1 6.2221 2.3706 0.8919 34 1 6.1552 4.8490 0.8908 35 1 6.1568 4.8483 -0.8891 36 1 10.4772 4.6279 0.8938 37 1 10.4787 4.6264 -0.8863 38 1 10.9074 6.6559 -2.1323 39 1 11.9723 8.8692 -2.1514 40 1 11.4652 11.5263 -2.7308 41 1 11.9698 8.8704 2.1575 42 1 10.8942 6.6623 2.1384 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 ZINC000776113324.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 21:23:00 Heat of formation + Delta-G solvation = -174.045747 kcal Electronic energy + Delta-G solvation = -24369.754856 eV Core-core repulsion = 20405.350817 eV Total energy + Delta-G solvation = -3964.404039 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 338.107 amu Computer time = 0.72 seconds Orbital eigenvalues (eV) -41.53122 -41.47652 -39.49335 -37.66714 -37.60195 -35.68132 -34.17431 -32.54914 -31.87981 -31.22629 -29.07042 -28.22076 -26.56606 -25.13536 -22.95250 -22.54933 -21.89963 -21.59315 -19.26834 -18.93018 -18.76214 -17.93993 -17.80982 -17.70496 -17.64665 -17.12455 -16.67936 -16.03276 -15.93215 -15.61575 -15.32184 -14.90638 -14.68387 -14.55368 -14.16131 -13.89839 -13.85166 -13.64347 -13.60314 -13.47084 -13.39687 -12.97939 -12.84162 -12.68533 -12.58369 -12.49915 -12.11053 -11.88409 -11.78474 -11.72568 -11.62135 -11.41916 -11.27745 -11.06090 -11.03039 -9.43620 -9.32980 -8.80850 -8.68552 -6.39721 0.09322 0.76357 1.00191 1.11530 1.17968 1.32338 1.38846 1.47153 1.51723 1.72744 2.04980 2.19918 2.73556 3.53255 3.66240 3.69328 3.86652 3.93427 3.95059 4.09965 4.13051 4.20494 4.28556 4.31056 4.42237 4.48435 4.55501 4.57506 4.61000 4.69780 4.80854 5.01053 5.11882 5.22807 5.30878 5.39696 5.53544 5.65362 5.89008 6.05683 6.14646 6.32424 6.53917 6.64526 6.73833 6.88633 6.97476 8.27872 Molecular weight = 338.11amu Principal moments of inertia in cm(-1) A = 0.028283 B = 0.001494 C = 0.001450 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 989.765305 B =18740.000268 C =19308.717653 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C 0.029 3.971 2 O -0.356 6.356 3 C 0.479 3.521 4 O -0.523 6.523 5 C -0.096 4.096 6 S -0.216 6.216 7 C -0.077 4.077 8 C -0.095 4.095 9 C 0.466 3.534 10 O -0.539 6.539 11 O -0.362 6.362 12 C 0.142 3.858 13 C -0.233 4.233 14 C -0.080 4.080 15 C -0.194 4.194 16 C 0.087 3.913 17 C -0.494 4.494 18 H 0.080 0.920 19 C 0.036 3.964 20 N -0.818 5.818 21 Si 0.984 3.016 22 H -0.260 1.260 23 H -0.267 1.267 24 H -0.258 1.258 25 C -0.246 4.246 26 C -0.065 4.065 27 H 0.062 0.938 28 H 0.135 0.865 29 H 0.062 0.938 30 H 0.150 0.850 31 H 0.151 0.849 32 H 0.099 0.901 33 H 0.100 0.900 34 H 0.127 0.873 35 H 0.125 0.875 36 H 0.075 0.925 37 H 0.070 0.930 38 H 0.107 0.893 39 H 0.104 0.896 40 H 0.291 0.709 41 H 0.102 0.898 42 H 0.119 0.881 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -16.460 -19.407 1.787 25.510 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 -0.064 4.064 2 O -0.273 6.273 3 C 0.321 3.679 4 O -0.412 6.412 5 C -0.244 4.244 6 S 0.010 5.990 7 C -0.225 4.225 8 C -0.134 4.134 9 C 0.309 3.691 10 O -0.430 6.430 11 O -0.279 6.279 12 C 0.069 3.931 13 C -0.234 4.234 14 C -0.099 4.099 15 C -0.213 4.213 16 C 0.085 3.915 17 C -0.523 4.523 18 H 0.098 0.902 19 C -0.180 4.180 20 N -0.443 5.443 21 Si 0.804 3.196 22 H -0.184 1.184 23 H -0.191 1.191 24 H -0.182 1.182 25 C -0.266 4.266 26 C -0.083 4.083 27 H 0.081 0.919 28 H 0.153 0.847 29 H 0.081 0.919 30 H 0.168 0.832 31 H 0.168 0.832 32 H 0.117 0.883 33 H 0.119 0.881 34 H 0.145 0.855 35 H 0.143 0.857 36 H 0.093 0.907 37 H 0.088 0.912 38 H 0.125 0.875 39 H 0.122 0.878 40 H 0.101 0.899 41 H 0.120 0.880 42 H 0.137 0.863 Dipole moment (debyes) X Y Z Total from point charges -17.276 -18.444 1.573 25.321 hybrid contribution 1.098 -0.228 -0.228 1.145 sum -16.178 -18.672 1.345 24.742 Atomic orbital electron populations 1.23605 0.74189 1.05956 1.02676 1.86478 1.25286 1.31773 1.83716 1.22962 0.91213 0.81668 0.72030 1.90735 1.67425 1.37220 1.45788 1.23116 0.90987 0.98828 1.11425 1.87684 1.04751 1.08168 1.98375 1.23157 0.92678 0.99086 1.07582 1.21035 0.85489 0.98420 1.08444 1.23984 0.91873 0.81840 0.71410 1.90622 1.75048 1.30090 1.47237 1.86687 1.22097 1.36236 1.82905 1.21576 0.74775 0.94680 1.02037 1.19037 1.12127 0.98775 0.93509 1.20783 0.97753 0.94723 0.96611 1.21269 1.06763 0.95135 0.98175 1.18048 0.88745 0.92819 0.91927 1.19916 1.29071 1.00148 1.03172 0.90201 1.26814 0.95650 1.01671 0.93884 1.69868 1.26219 1.36939 1.11285 0.85222 0.78705 0.76776 0.78868 1.18398 1.19136 1.18242 1.21179 1.10129 0.98351 0.96891 1.20717 0.96632 0.94262 0.96681 0.91897 0.84706 0.91873 0.83229 0.83166 0.88265 0.88134 0.85460 0.85669 0.90669 0.91186 0.87513 0.87819 0.89852 0.87963 0.86329 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 0.03 0.25 10.56 113.37 1.20 1.45 16 2 O -0.36 -4.69 10.57 -51.48 -0.54 -5.23 16 3 C 0.48 7.85 7.98 71.24 0.57 8.42 16 4 O -0.52 -12.49 15.61 21.96 0.34 -12.15 16 5 C -0.10 -1.07 6.54 71.24 0.47 -0.61 16 6 S -0.22 -3.79 20.88 -56.49 -1.18 -4.97 16 7 C -0.08 -1.21 5.23 71.98 0.38 -0.84 16 8 C -0.10 -1.82 5.82 29.84 0.17 -1.65 16 9 C 0.47 12.77 7.96 71.23 0.57 13.34 16 10 O -0.54 -16.60 15.73 21.97 0.35 -16.26 16 11 O -0.36 -12.19 10.20 -51.47 -0.53 -12.71 16 12 C 0.14 4.97 5.58 71.24 0.40 5.37 16 13 C -0.23 -9.93 5.54 -19.67 -0.11 -10.04 16 14 C -0.08 -3.71 9.67 22.22 0.21 -3.49 16 15 C -0.19 -10.16 8.70 22.73 0.20 -9.96 16 16 C 0.09 4.68 5.58 -21.29 -0.12 4.56 16 17 C -0.49 -26.29 9.05 23.46 0.21 -26.07 16 18 H 0.08 4.06 7.91 -2.91 -0.02 4.04 16 19 C 0.04 1.78 5.14 85.26 0.44 2.22 16 20 N -0.82 -42.20 10.95 21.83 0.24 -41.96 16 21 Si 0.98 37.27 29.59 68.60 2.03 39.30 16 22 H -0.26 -9.63 7.11 99.48 0.71 -8.92 16 23 H -0.27 -9.56 7.11 99.48 0.71 -8.85 16 24 H -0.26 -9.45 7.11 99.48 0.71 -8.75 16 25 C -0.25 -11.96 9.80 22.73 0.22 -11.74 16 26 C -0.06 -2.80 9.67 22.22 0.21 -2.59 16 27 H 0.06 0.59 8.13 -2.39 -0.02 0.57 16 28 H 0.13 0.29 8.14 -2.39 -0.02 0.27 16 29 H 0.06 0.59 8.13 -2.39 -0.02 0.57 16 30 H 0.15 0.98 8.14 -2.39 -0.02 0.96 16 31 H 0.15 0.97 8.14 -2.39 -0.02 0.95 16 32 H 0.10 1.50 8.10 -2.39 -0.02 1.48 16 33 H 0.10 1.49 8.10 -2.39 -0.02 1.47 16 34 H 0.13 2.17 8.14 -2.39 -0.02 2.15 16 35 H 0.13 2.20 8.14 -2.39 -0.02 2.18 16 36 H 0.08 2.43 8.07 -2.38 -0.02 2.41 16 37 H 0.07 2.34 8.07 -2.39 -0.02 2.32 16 38 H 0.11 4.41 8.06 -2.91 -0.02 4.39 16 39 H 0.10 5.65 6.16 -2.91 -0.02 5.64 16 40 H 0.29 13.53 8.30 -92.71 -0.77 12.76 16 41 H 0.10 4.66 8.06 -2.91 -0.02 4.64 16 42 H 0.12 4.35 8.06 -2.91 -0.02 4.33 16 Total: -1.00 -67.76 383.51 6.75 -61.01 By element: Atomic # 1 Polarization: 23.57 SS G_CDS: 1.03 Total: 24.60 kcal Atomic # 6 Polarization: -36.65 SS G_CDS: 5.02 Total: -31.63 kcal Atomic # 7 Polarization: -42.20 SS G_CDS: 0.24 Total: -41.96 kcal Atomic # 8 Polarization: -45.96 SS G_CDS: -0.38 Total: -46.35 kcal Atomic # 14 Polarization: 37.27 SS G_CDS: 2.03 Total: 39.30 kcal Atomic # 16 Polarization: -3.79 SS G_CDS: -1.18 Total: -4.97 kcal Total: -67.76 6.75 -61.01 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. ZINC000776113324.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 -113.038 kcal (2) G-P(sol) polarization free energy of solvation -67.762 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -180.800 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 6.754 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.008 kcal (6) G-S(sol) free energy of system = (1) + (5) -174.046 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.72 seconds