Wall clock time and date at job start Sat Apr 11 2020 06:14:09 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 N 2 2 C 1.31626 * 1 3 3 Si 1.86800 * 119.99989 * 2 1 4 4 H 1.48499 * 109.47267 * 270.00560 * 3 2 1 5 5 H 1.48497 * 109.46801 * 30.00506 * 3 2 1 6 6 H 1.48498 * 109.47109 * 150.00110 * 3 2 1 7 7 C 1.38798 * 120.00147 * 180.02562 * 2 1 3 8 8 H 1.08001 * 120.00305 * 359.97438 * 7 2 1 9 9 S 1.76202 * 119.99940 * 179.97438 * 7 2 1 10 10 C 1.81004 * 99.99706 * 180.02562 * 9 7 2 11 11 C 1.50705 * 109.46956 * 180.02562 * 10 9 7 12 12 O 1.21291 * 119.99904 * 359.97438 * 11 10 9 13 13 N 1.34777 * 119.99893 * 179.97438 * 11 10 9 14 14 C 1.39930 * 119.99643 * 185.27387 * 13 11 10 15 15 C 1.38959 * 120.02800 * 213.30968 * 14 13 11 16 16 C 1.38161 * 120.09168 * 180.02562 * 15 14 13 17 17 C 1.38150 * 120.14453 * 359.70705 * 16 15 14 18 18 C 1.39004 * 120.06302 * 0.54550 * 17 16 15 19 19 S 1.76198 * 120.04685 * 179.74835 * 18 17 16 20 20 C 1.81403 * 102.99956 * 359.72522 * 19 18 17 21 21 C 1.53002 * 109.47077 * 179.97438 * 20 19 18 22 22 C 1.50697 * 109.47201 * 179.97438 * 21 20 19 23 23 O 1.20829 * 119.99856 * 0.02562 * 22 21 20 24 24 O 1.34227 * 119.99924 * 179.97438 * 22 21 20 25 25 C 1.38692 * 120.02882 * 33.33334 * 14 13 11 26 26 H 0.96999 * 120.00385 * 359.97438 * 1 2 3 27 27 H 1.09000 * 109.47224 * 60.00117 * 10 9 7 28 28 H 1.09003 * 109.47264 * 299.99509 * 10 9 7 29 29 H 0.96998 * 119.99966 * 5.26952 * 13 11 10 30 30 H 1.08007 * 119.95759 * 0.02562 * 15 14 13 31 31 H 1.07994 * 119.92758 * 179.97438 * 16 15 14 32 32 H 1.08004 * 119.96731 * 180.29442 * 17 16 15 33 33 H 1.09001 * 109.47258 * 299.99810 * 20 19 18 34 34 H 1.08998 * 109.46759 * 60.00045 * 20 19 18 35 35 H 1.09001 * 109.47104 * 300.00127 * 21 20 19 36 36 H 1.09007 * 109.46776 * 59.99995 * 21 20 19 37 37 H 0.96705 * 116.99549 * 180.02562 * 24 22 21 38 38 H 1.07995 * 120.08141 * 0.02562 * 25 14 13 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 1.3163 0.0000 0.0000 3 14 2.2503 1.6177 0.0000 4 1 2.4977 2.0465 -1.4000 5 1 1.4477 2.6526 0.7001 6 1 3.5478 1.4402 0.7000 7 6 2.0103 -1.2020 -0.0005 8 1 1.4704 -2.1374 -0.0005 9 16 3.7723 -1.2019 -0.0012 10 6 4.0866 -2.9845 -0.0025 11 6 5.5731 -3.2325 -0.0026 12 8 6.3441 -2.2961 -0.0024 13 7 6.0457 -4.4946 -0.0030 14 6 7.4212 -4.7267 0.1083 15 6 7.9982 -5.8114 -0.5408 16 6 9.3560 -6.0421 -0.4314 17 6 10.1458 -5.1921 0.3184 18 6 9.5744 -4.1081 0.9746 19 16 10.5811 -3.0281 1.9361 20 6 12.2366 -3.7485 1.7597 21 6 13.2441 -2.9110 2.5499 22 6 14.6193 -3.5098 2.4039 23 8 14.7774 -4.5041 1.7359 24 8 15.6686 -2.9379 3.0151 25 6 8.2096 -3.8744 0.8669 26 1 -0.4850 0.8400 0.0004 27 1 3.6433 -3.4309 -0.8927 28 1 3.6441 -3.4321 0.8874 29 1 5.4324 -5.2421 -0.0804 30 1 7.3843 -6.4752 -1.1317 31 1 9.8016 -6.8861 -0.9366 32 1 11.2077 -5.3723 0.3981 33 1 12.2316 -4.7688 2.1433 34 1 12.5186 -3.7574 0.7069 35 1 13.2490 -1.8908 2.1660 36 1 12.9622 -2.9016 3.6029 37 1 16.5309 -3.3580 2.8917 38 1 7.7634 -3.0311 1.3729 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC001601075457.mol2 38 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sat Apr 11 2020 06:14:09 Heat of formation + Delta-G solvation = -129.251889 kcal Electronic energy + Delta-G solvation = -22802.954290 eV Core-core repulsion = 19054.675045 eV Total energy + Delta-G solvation = -3748.279245 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 341.059 amu Computer time = 0.46 seconds Orbital eigenvalues (eV) -41.57314 -41.27471 -39.44820 -37.22921 -35.93653 -34.67884 -34.28451 -32.04228 -32.00916 -29.73265 -27.86019 -26.74268 -24.26360 -23.73356 -22.09516 -21.64719 -20.00515 -19.28738 -19.16194 -18.05104 -17.93268 -17.34335 -17.28874 -17.11437 -16.85409 -16.74181 -15.92882 -15.74544 -15.42408 -15.20765 -14.96355 -14.82902 -14.55925 -14.25179 -13.86862 -13.68697 -13.50138 -13.36297 -13.03280 -12.90039 -12.75649 -12.67106 -12.54804 -12.48243 -11.89043 -11.75552 -11.65842 -11.27943 -11.17871 -11.00444 -10.60054 -10.56006 -9.32335 -9.00913 -8.52188 -8.45637 -6.23430 0.09112 0.27295 0.30830 0.94357 1.14835 1.30926 1.32155 1.44587 1.45096 1.52691 2.06614 2.21873 2.24208 2.67817 2.69156 2.86176 3.45767 3.65697 3.77697 3.91737 4.06468 4.17492 4.19177 4.26854 4.41187 4.44062 4.49270 4.52226 4.53339 4.71704 4.75756 5.15894 5.23774 5.31329 5.40625 5.58059 5.70136 5.90930 6.11207 6.28904 6.92931 6.94339 7.00634 8.59985 Molecular weight = 341.06amu Principal moments of inertia in cm(-1) A = 0.017633 B = 0.002073 C = 0.001875 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1587.511108 B =13503.765399 C =14926.909437 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.915 5.915 2 C 0.046 3.954 3 Si 0.913 3.087 4 H -0.263 1.263 5 H -0.259 1.259 6 H -0.237 1.237 7 C -0.529 4.529 8 H 0.065 0.935 9 S -0.173 6.173 10 C -0.110 4.110 11 C 0.535 3.465 12 O -0.537 6.537 13 N -0.656 5.656 14 C 0.154 3.846 15 C -0.143 4.143 16 C -0.075 4.075 17 C -0.152 4.152 18 C -0.078 4.078 19 S -0.123 6.123 20 C -0.092 4.092 21 C -0.098 4.098 22 C 0.496 3.504 23 O -0.550 6.550 24 O -0.511 6.511 25 C -0.130 4.130 26 H 0.277 0.723 27 H 0.122 0.878 28 H 0.120 0.880 29 H 0.431 0.569 30 H 0.160 0.840 31 H 0.165 0.835 32 H 0.143 0.857 33 H 0.101 0.899 34 H 0.097 0.903 35 H 0.131 0.869 36 H 0.134 0.866 37 H 0.430 0.570 38 H 0.110 0.890 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 29.301 -14.239 3.894 32.810 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 -0.553 5.553 2 C -0.159 4.159 3 Si 0.735 3.265 4 H -0.187 1.187 5 H -0.184 1.184 6 H -0.161 1.161 7 C -0.676 4.676 8 H 0.083 0.917 9 S 0.053 5.947 10 C -0.261 4.261 11 C 0.322 3.678 12 O -0.413 6.413 13 N -0.304 5.304 14 C 0.058 3.942 15 C -0.165 4.165 16 C -0.095 4.095 17 C -0.177 4.177 18 C -0.191 4.191 19 S 0.121 5.879 20 C -0.241 4.241 21 C -0.137 4.137 22 C 0.338 3.662 23 O -0.441 6.441 24 O -0.325 6.325 25 C -0.155 4.155 26 H 0.086 0.914 27 H 0.140 0.860 28 H 0.138 0.862 29 H 0.271 0.729 30 H 0.178 0.822 31 H 0.183 0.817 32 H 0.160 0.840 33 H 0.120 0.880 34 H 0.116 0.884 35 H 0.149 0.851 36 H 0.152 0.848 37 H 0.293 0.707 38 H 0.128 0.872 Dipole moment (debyes) X Y Z Total from point charges 29.774 -11.625 4.475 32.275 hybrid contribution -0.861 -1.851 -0.849 2.211 sum 28.913 -13.476 3.626 32.105 Atomic orbital electron populations 1.70007 1.07243 1.29017 1.49029 1.25538 0.95263 1.02189 0.92925 0.85892 0.80694 0.79760 0.80194 1.18735 1.18359 1.16106 1.22445 0.90092 0.96772 1.58321 0.91691 1.84774 1.06631 1.05632 1.97617 1.23254 0.94506 1.00174 1.08144 1.20224 0.90050 0.82797 0.74735 1.90733 1.59094 1.43513 1.47914 1.43301 1.06198 1.08324 1.72600 1.17798 0.83294 0.96750 0.96376 1.21279 0.96262 0.98399 1.00582 1.21263 0.92487 0.99051 0.96685 1.21427 1.01074 0.95002 1.00154 1.21586 0.95999 0.99395 1.02168 1.85665 1.02393 1.37674 1.62135 1.23411 0.92453 1.03040 1.05165 1.20999 0.86023 1.01529 1.05109 1.23259 0.87668 0.80784 0.74508 1.90748 1.86467 1.27045 1.39819 1.84489 1.20992 1.58108 1.68905 1.20635 0.92775 1.01135 1.01000 0.91359 0.86036 0.86186 0.72874 0.82241 0.81710 0.83969 0.87998 0.88432 0.85079 0.84782 0.70723 0.87162 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 -0.92 -55.27 13.97 21.65 0.30 -54.97 16 2 C 0.05 2.71 5.50 84.86 0.47 3.17 16 3 Si 0.91 44.76 27.74 68.60 1.90 46.66 16 4 H -0.26 -12.59 7.11 99.48 0.71 -11.89 16 5 H -0.26 -11.95 7.11 99.48 0.71 -11.24 16 6 H -0.24 -11.63 6.74 99.48 0.67 -10.96 16 7 C -0.53 -30.33 10.04 67.95 0.68 -29.64 16 8 H 0.06 3.91 8.03 -2.91 -0.02 3.89 16 9 S -0.17 -8.59 18.55 -56.49 -1.05 -9.64 16 10 C -0.11 -3.97 6.16 71.24 0.44 -3.53 16 11 C 0.53 18.10 7.58 87.66 0.66 18.76 16 12 O -0.54 -22.74 13.55 -3.06 -0.04 -22.78 16 13 N -0.66 -15.89 5.34 -303.56 -1.62 -17.51 16 14 C 0.15 3.83 6.28 38.13 0.24 4.07 16 15 C -0.14 -2.50 9.96 22.42 0.22 -2.28 16 16 C -0.07 -1.16 10.03 22.23 0.22 -0.94 16 17 C -0.15 -2.85 9.36 22.43 0.21 -2.64 16 18 C -0.08 -1.91 6.11 22.61 0.14 -1.77 16 19 S -0.12 -2.60 21.92 -56.49 -1.24 -3.83 16 20 C -0.09 -1.26 3.62 71.98 0.26 -1.00 16 21 C -0.10 -0.92 5.82 29.85 0.17 -0.74 16 22 C 0.50 5.69 8.33 71.24 0.59 6.28 16 23 O -0.55 -9.98 16.74 21.95 0.37 -9.62 16 24 O -0.51 -3.67 13.42 -51.39 -0.69 -4.35 16 25 C -0.13 -3.80 8.40 22.53 0.19 -3.61 16 26 H 0.28 15.49 8.31 -92.71 -0.77 14.71 16 27 H 0.12 3.91 8.14 -2.40 -0.02 3.89 16 28 H 0.12 3.93 8.14 -2.39 -0.02 3.91 16 29 H 0.43 6.83 8.82 -92.71 -0.82 6.01 16 30 H 0.16 1.77 8.06 -2.91 -0.02 1.75 16 31 H 0.17 1.39 8.06 -2.91 -0.02 1.36 16 32 H 0.14 2.09 5.87 -2.91 -0.02 2.08 16 33 H 0.10 1.34 7.72 -2.39 -0.02 1.32 16 34 H 0.10 1.38 7.69 -2.39 -0.02 1.36 16 35 H 0.13 0.96 8.14 -2.39 -0.02 0.94 16 36 H 0.13 0.87 8.14 -2.38 -0.02 0.86 16 37 H 0.43 -0.28 9.10 -74.05 -0.67 -0.95 16 38 H 0.11 3.94 6.41 -2.91 -0.02 3.93 16 Total: -1.00 -80.99 360.00 2.04 -78.95 By element: Atomic # 1 Polarization: 11.36 SS G_CDS: -0.40 Total: 10.97 kcal Atomic # 6 Polarization: -18.38 SS G_CDS: 4.50 Total: -13.88 kcal Atomic # 7 Polarization: -71.16 SS G_CDS: -1.32 Total: -72.48 kcal Atomic # 8 Polarization: -36.38 SS G_CDS: -0.36 Total: -36.75 kcal Atomic # 14 Polarization: 44.76 SS G_CDS: 1.90 Total: 46.66 kcal Atomic # 16 Polarization: -11.19 SS G_CDS: -2.29 Total: -13.47 kcal Total: -80.99 2.04 -78.95 kcal The number of atoms in the molecule is 38 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. ZINC001601075457.mol2 38 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 -50.300 kcal (2) G-P(sol) polarization free energy of solvation -80.990 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -131.290 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.038 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.952 kcal (6) G-S(sol) free energy of system = (1) + (5) -129.252 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.46 seconds