Wall clock time and date at job start Tue Mar 31 2020 06:13:17 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 1.31614 * 1 3 3 Si 1.86805 * 120.00079 * 2 1 4 4 H 1.48492 * 109.47118 * 269.99528 * 3 2 1 5 5 H 1.48494 * 109.47084 * 29.99818 * 3 2 1 6 6 H 1.48502 * 109.47066 * 149.99663 * 3 2 1 7 7 C 1.38731 * 120.00072 * 179.97438 * 2 1 3 8 8 H 1.08001 * 119.99807 * 0.02562 * 7 2 1 9 9 S 1.76200 * 120.00097 * 180.02562 * 7 2 1 10 10 C 1.76202 * 99.99847 * 185.12259 * 9 7 2 11 11 C 1.39229 * 120.01645 * 265.48730 * 10 9 7 12 12 C 1.38142 * 120.19975 * 180.02562 * 11 10 9 13 13 C 1.38087 * 120.24147 * 359.72347 * 12 11 10 14 14 C 1.39636 * 120.03534 * 0.55577 * 13 12 11 15 15 C 1.47867 * 120.09613 * 179.72008 * 14 13 12 16 16 O 1.21548 * 120.00156 * 179.72575 * 15 14 13 17 17 N 1.34785 * 119.99828 * 359.72248 * 15 14 13 18 18 C 1.46500 * 119.99805 * 180.02562 * 17 15 14 19 19 H 1.09003 * 112.84751 * 25.33280 * 18 17 15 20 20 C 1.53781 * 113.61489 * 156.53195 * 18 17 15 21 21 C 1.53776 * 87.08169 * 140.06487 * 20 18 17 22 22 H 1.08997 * 113.61338 * 219.93354 * 21 20 18 23 23 N 1.46904 * 113.61215 * 89.11617 * 21 20 18 24 24 C 1.53778 * 87.08165 * 334.56771 * 21 20 18 25 25 C 1.38834 * 120.02261 * 85.51294 * 10 9 7 26 26 H 0.97010 * 120.00007 * 0.02562 * 1 2 3 27 27 H 1.07996 * 119.89937 * 359.97438 * 11 10 9 28 28 H 1.07994 * 119.87468 * 180.02562 * 12 11 10 29 29 H 1.07996 * 119.97768 * 180.27846 * 13 12 11 30 30 H 0.96997 * 119.99807 * 0.02562 * 17 15 14 31 31 H 1.09003 * 113.60877 * 254.61331 * 20 18 17 32 32 H 1.08997 * 113.61433 * 25.51115 * 20 18 17 33 33 H 1.00902 * 110.99826 * 180.02562 * 23 21 20 34 34 H 1.00897 * 111.00303 * 303.94904 * 23 21 20 35 35 H 1.09004 * 113.61777 * 270.88104 * 24 21 20 36 36 H 1.09005 * 113.61839 * 139.97774 * 24 21 20 37 37 H 1.07998 * 120.12181 * 359.97438 * 25 10 9 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 1.3161 0.0000 0.0000 3 14 2.2502 1.6178 0.0000 4 1 2.4978 2.0464 -1.4000 5 1 1.4476 2.6527 0.7000 6 1 3.5477 1.4402 0.7001 7 6 2.0098 -1.2014 0.0005 8 1 1.4698 -2.1367 0.0005 9 16 3.7718 -1.2014 0.0012 10 6 4.0778 -2.9298 -0.1532 11 6 4.2917 -3.7036 0.9843 12 6 4.5324 -5.0589 0.8676 13 6 4.5569 -5.6562 -0.3772 14 6 4.3495 -4.8886 -1.5250 15 6 4.3816 -5.5258 -2.8590 16 8 4.1959 -4.8568 -3.8567 17 7 4.6169 -6.8484 -2.9685 18 6 4.6492 -7.4796 -4.2902 19 1 4.9091 -6.7818 -5.0862 20 6 5.4578 -8.7871 -4.3288 21 6 4.3607 -9.3463 -5.2498 22 1 4.1034 -10.3848 -5.0419 23 7 4.6047 -9.0936 -6.6763 24 6 3.4065 -8.3311 -4.5989 25 6 4.1063 -3.5207 -1.4092 26 1 -0.4851 0.8401 -0.0004 27 1 4.2701 -3.2428 1.9608 28 1 4.6972 -5.6542 1.7534 29 1 4.7411 -6.7169 -0.4632 30 1 4.7648 -7.3823 -2.1723 31 1 6.4276 -8.6864 -4.8161 32 1 5.5178 -9.2920 -3.3647 33 1 3.8626 -9.4758 -7.2433 34 1 4.7236 -8.1075 -6.8537 35 1 2.9055 -8.7113 -3.7086 36 1 2.7202 -7.8623 -5.3042 37 1 3.9407 -2.9229 -2.2933 RHF calculation, no. of doubly occupied orbitals= 51 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 ZINC001580052398.mol2 37 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 06:13:17 Heat of formation + Delta-G solvation = -19.995706 kcal Electronic energy + Delta-G solvation = -19887.514099 eV Core-core repulsion = 16754.984925 eV Total energy + Delta-G solvation = -3132.529174 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 292.099 amu Computer time = 0.44 seconds Orbital eigenvalues (eV) -41.52497 -40.11676 -38.91423 -35.19275 -34.74004 -32.57734 -32.00316 -31.27001 -27.94192 -26.67927 -25.93743 -24.22731 -23.50742 -21.78238 -20.53422 -19.92179 -18.87100 -18.11579 -17.21684 -17.14910 -16.69885 -16.29637 -16.25889 -15.93445 -15.64918 -15.13674 -14.97157 -14.72905 -14.43285 -13.96899 -13.80809 -13.59418 -13.49000 -13.14312 -13.08736 -12.84434 -12.66499 -12.30886 -11.87910 -11.87068 -11.48794 -11.24769 -11.17989 -10.92199 -10.25053 -9.94407 -9.77705 -9.64758 -9.16634 -8.55910 -6.30233 -0.23614 0.18577 1.04774 1.29947 1.42478 1.63115 1.74045 2.07334 2.20018 2.57250 2.82332 2.94362 3.43683 3.46272 3.63762 3.70955 3.89230 3.90770 3.98757 4.09274 4.29613 4.42157 4.56371 4.65006 4.73581 4.83590 4.87869 4.92813 5.04673 5.13170 5.17570 5.28083 5.41959 5.45965 5.66667 5.81164 6.07778 6.17936 6.44453 6.50669 6.86516 7.11235 8.57776 Molecular weight = 292.10amu Principal moments of inertia in cm(-1) A = 0.025236 B = 0.003300 C = 0.003093 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1109.258712 B = 8482.079038 C = 9051.730169 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.919 5.919 2 C 0.041 3.959 3 Si 0.922 3.078 4 H -0.263 1.263 5 H -0.256 1.256 6 H -0.226 1.226 7 C -0.524 4.524 8 H 0.045 0.955 9 S -0.116 6.116 10 C -0.119 4.119 11 C -0.059 4.059 12 C -0.121 4.121 13 C -0.058 4.058 14 C -0.160 4.160 15 C 0.560 3.440 16 O -0.585 6.585 17 N -0.695 5.695 18 C 0.108 3.892 19 H 0.087 0.913 20 C -0.126 4.126 21 C 0.081 3.919 22 H 0.113 0.887 23 N -0.837 5.837 24 C -0.189 4.189 25 C -0.045 4.045 26 H 0.278 0.722 27 H 0.141 0.859 28 H 0.179 0.821 29 H 0.177 0.823 30 H 0.418 0.582 31 H 0.079 0.921 32 H 0.117 0.883 33 H 0.353 0.647 34 H 0.341 0.659 35 H 0.099 0.901 36 H 0.053 0.947 37 H 0.104 0.896 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 12.285 -21.639 -3.358 25.108 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 -0.557 5.557 2 C -0.165 4.165 3 Si 0.743 3.257 4 H -0.188 1.188 5 H -0.181 1.181 6 H -0.149 1.149 7 C -0.671 4.671 8 H 0.063 0.937 9 S 0.118 5.882 10 C -0.230 4.230 11 C -0.080 4.080 12 C -0.140 4.140 13 C -0.077 4.077 14 C -0.165 4.165 15 C 0.349 3.651 16 O -0.466 6.466 17 N -0.347 5.347 18 C 0.004 3.996 19 H 0.106 0.894 20 C -0.164 4.164 21 C -0.032 4.032 22 H 0.131 0.869 23 N -0.367 5.367 24 C -0.230 4.230 25 C -0.066 4.066 26 H 0.088 0.912 27 H 0.159 0.841 28 H 0.196 0.804 29 H 0.194 0.806 30 H 0.257 0.743 31 H 0.098 0.902 32 H 0.136 0.864 33 H 0.167 0.833 34 H 0.154 0.846 35 H 0.117 0.883 36 H 0.072 0.928 37 H 0.122 0.878 Dipole moment (debyes) X Y Z Total from point charges 13.369 -20.605 -3.900 24.869 hybrid contribution -2.292 0.694 -0.093 2.396 sum 11.077 -19.911 -3.993 23.132 Atomic orbital electron populations 1.70029 1.07654 1.29228 1.48802 1.25738 0.95438 1.02655 0.92623 0.85764 0.80867 0.78760 0.80318 1.18763 1.18050 1.14929 1.22372 0.89864 0.96156 1.58733 0.93668 1.82616 1.07120 1.02621 1.95843 1.22076 1.06074 0.99027 0.95841 1.22107 0.93338 0.94820 0.97695 1.21588 0.99785 0.93503 0.99144 1.21774 0.94523 1.00874 0.90486 1.19984 1.08600 0.93748 0.94165 1.18476 0.75464 0.82965 0.88222 1.90747 1.51359 1.64581 1.39913 1.45696 1.71609 1.07012 1.10388 1.22709 0.98414 0.93585 0.84937 0.89444 1.23469 0.98506 0.93072 1.01386 1.22320 0.94143 0.99048 0.87674 0.86881 1.58738 1.51276 1.21601 1.05038 1.24348 0.97370 0.98697 1.02570 1.21643 0.93756 0.94582 0.96663 0.91229 0.84149 0.80356 0.80617 0.74321 0.90209 0.86430 0.83262 0.84577 0.88267 0.92767 0.87755 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 -57.53 13.97 21.64 0.30 -57.23 16 2 C 0.04 2.42 5.50 84.84 0.47 2.89 16 3 Si 0.92 44.42 27.74 68.60 1.90 46.32 16 4 H -0.26 -12.47 7.11 99.48 0.71 -11.76 16 5 H -0.26 -11.54 7.11 99.48 0.71 -10.83 16 6 H -0.23 -10.32 6.74 99.48 0.67 -9.65 16 7 C -0.52 -31.80 10.01 67.94 0.68 -31.12 16 8 H 0.04 3.04 8.02 -2.91 -0.02 3.01 16 9 S -0.12 -5.83 19.38 -56.49 -1.09 -6.93 16 10 C -0.12 -5.10 5.45 22.65 0.12 -4.97 16 11 C -0.06 -1.95 9.79 22.49 0.22 -1.73 16 12 C -0.12 -2.76 10.02 22.21 0.22 -2.54 16 13 C -0.06 -1.27 9.54 22.57 0.22 -1.05 16 14 C -0.16 -5.14 5.87 -20.11 -0.12 -5.25 16 15 C 0.56 17.62 7.77 86.79 0.67 18.30 16 16 O -0.58 -24.15 15.96 -3.87 -0.06 -24.21 16 17 N -0.70 -13.79 5.32 -442.88 -2.35 -16.15 16 18 C 0.11 1.96 3.87 45.52 0.18 2.13 16 19 H 0.09 2.07 7.07 -2.39 -0.02 2.05 16 20 C -0.13 -1.39 7.62 31.12 0.24 -1.15 16 21 C 0.08 0.91 5.18 45.44 0.24 1.15 16 22 H 0.11 0.93 8.14 -2.39 -0.02 0.91 16 23 N -0.84 -10.44 9.64 -166.50 -1.60 -12.04 16 24 C -0.19 -2.87 7.60 31.12 0.24 -2.64 16 25 C -0.04 -1.87 9.34 22.70 0.21 -1.66 16 26 H 0.28 15.96 8.31 -92.70 -0.77 15.19 16 27 H 0.14 4.37 8.06 -2.91 -0.02 4.35 16 28 H 0.18 2.35 8.06 -2.91 -0.02 2.33 16 29 H 0.18 1.83 6.39 -2.91 -0.02 1.81 16 30 H 0.42 4.90 6.74 -92.71 -0.62 4.28 16 31 H 0.08 0.99 8.14 -2.39 -0.02 0.97 16 32 H 0.12 0.71 8.11 -2.39 -0.02 0.69 16 33 H 0.35 3.43 9.08 -89.69 -0.81 2.61 16 34 H 0.34 4.72 8.15 -89.70 -0.73 3.99 16 35 H 0.10 1.33 8.14 -2.38 -0.02 1.31 16 36 H 0.05 1.01 8.14 -2.38 -0.02 0.99 16 37 H 0.10 4.99 7.65 -2.91 -0.02 4.97 16 Total: -1.00 -80.25 328.72 -0.41 -80.66 By element: Atomic # 1 Polarization: 18.30 SS G_CDS: -1.08 Total: 17.22 kcal Atomic # 6 Polarization: -31.23 SS G_CDS: 3.58 Total: -27.65 kcal Atomic # 7 Polarization: -81.76 SS G_CDS: -3.66 Total: -85.41 kcal Atomic # 8 Polarization: -24.15 SS G_CDS: -0.06 Total: -24.21 kcal Atomic # 14 Polarization: 44.42 SS G_CDS: 1.90 Total: 46.32 kcal Atomic # 16 Polarization: -5.83 SS G_CDS: -1.09 Total: -6.93 kcal Total: -80.25 -0.41 -80.66 kcal The number of atoms in the molecule is 37 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. ZINC001580052398.mol2 37 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 60.664 kcal (2) G-P(sol) polarization free energy of solvation -80.250 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -19.586 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.410 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -80.660 kcal (6) G-S(sol) free energy of system = (1) + (5) -19.996 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.44 seconds