Wall clock time and date at job start Sun Mar 29 2020 22:11:20 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 1.31515 * 1 3 3 Si 1.86800 * 120.00153 * 2 1 4 4 H 1.48503 * 109.46788 * 269.99475 * 3 2 1 5 5 H 1.48503 * 109.47113 * 29.99622 * 3 2 1 6 6 H 1.48504 * 109.47371 * 149.99494 * 3 2 1 7 7 C 1.37877 * 119.99947 * 179.97438 * 2 1 3 8 8 H 1.07997 * 120.00092 * 180.02562 * 7 2 1 9 9 C 1.50703 * 119.99808 * 0.02562 * 7 2 1 10 10 S 1.81401 * 109.47088 * 179.97438 * 9 7 2 11 11 C 1.81394 * 103.00098 * 180.02562 * 10 9 7 12 12 C 1.53001 * 109.47260 * 179.97438 * 11 10 9 13 13 H 1.09002 * 110.51955 * 54.29735 * 12 11 10 14 14 C 1.54832 * 110.58065 * 291.51252 * 12 11 10 15 15 C 1.56194 * 103.68541 * 241.29715 * 14 12 11 16 16 H 1.08999 * 116.29240 * 164.01375 * 15 14 12 17 17 C 1.53357 * 104.07894 * 293.36040 * 15 14 12 18 18 C 1.31789 * 108.43044 * 70.08108 * 17 15 14 19 19 C 1.53358 * 108.42345 * 0.02562 * 18 17 15 20 20 H 1.08997 * 116.33726 * 160.59418 * 19 18 17 21 21 C 1.57258 * 100.39709 * 36.32405 * 15 14 12 22 22 H 0.97002 * 119.99965 * 0.02562 * 1 2 3 23 23 H 1.09000 * 109.46953 * 60.00341 * 9 7 2 24 24 H 1.08995 * 109.47079 * 299.99899 * 9 7 2 25 25 H 1.09007 * 109.47080 * 59.99686 * 11 10 9 26 26 H 1.09000 * 109.47190 * 300.00203 * 11 10 9 27 27 H 1.08998 * 110.58641 * 359.84563 * 14 12 11 28 28 H 1.08999 * 110.58279 * 122.74878 * 14 12 11 29 29 H 1.08005 * 125.78303 * 250.08747 * 17 15 14 30 30 H 1.07997 * 125.79167 * 180.02562 * 18 17 15 31 31 H 1.08997 * 112.52660 * 59.08046 * 21 15 14 32 32 H 1.08999 * 112.52526 * 186.94786 * 21 15 14 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 1.3151 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 2.4968 2.0463 -1.4001 5 1 1.4466 2.6527 0.7000 6 1 3.5467 1.4402 0.7002 7 6 2.0045 -1.1941 0.0005 8 1 3.0845 -1.1941 0.0010 9 6 1.2509 -2.4992 0.0005 10 16 2.4297 -3.8780 0.0005 11 6 1.3514 -5.3367 -0.0003 12 6 2.2082 -6.6043 -0.0010 13 1 2.9158 -6.5877 0.8280 14 6 2.9534 -6.7568 -1.3496 15 6 2.4094 -8.1045 -1.9220 16 1 2.5881 -8.2861 -2.9818 17 6 2.9429 -9.1646 -0.9507 18 6 2.3087 -9.0348 0.1972 19 6 1.3082 -7.8795 0.0702 20 1 0.4983 -7.8588 0.7994 21 6 0.9130 -8.0325 -1.4439 22 1 -0.4850 0.8401 -0.0004 23 1 0.6247 -2.5571 -0.8897 24 1 0.6240 -2.5567 0.8903 25 1 0.7225 -5.3231 -0.8905 26 1 0.7219 -5.3236 0.8895 27 1 2.7097 -5.9307 -2.0177 28 1 4.0297 -6.8157 -1.1882 29 1 3.7087 -9.8940 -1.1703 30 1 2.4667 -9.6394 1.0780 31 1 0.3929 -7.1561 -1.8303 32 1 0.3667 -8.9548 -1.6414 RHF calculation, no. of doubly occupied orbitals= 39 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) 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 ZINC000600557000.mol2 32 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sun Mar 29 2020 22:11:20 Heat of formation + Delta-G solvation = -0.629554 kcal Electronic energy + Delta-G solvation = -12889.888956 eV Core-core repulsion = 10747.949616 eV Total energy + Delta-G solvation = -2141.939340 eV No. of doubly occupied orbitals = 39 Molecular weight (most abundant/longest-lived isotopes) = 224.093 amu Computer time = 0.30 seconds Orbital eigenvalues (eV) -41.57344 -35.30657 -33.57788 -30.70529 -30.12738 -28.81672 -26.79581 -25.07406 -21.69860 -20.85193 -18.77327 -18.65155 -17.42282 -17.16510 -16.68940 -15.93851 -15.41484 -14.66261 -14.53702 -14.14474 -13.99647 -13.36413 -13.14178 -12.75312 -12.64647 -12.35675 -12.25478 -12.18071 -11.97220 -11.71491 -11.67971 -11.41927 -11.06367 -10.75930 -10.66123 -9.77795 -8.45961 -8.34606 -6.48197 1.00368 1.38763 1.40656 1.41268 1.53495 2.05574 2.35981 2.99755 3.52172 3.58381 3.70307 4.04875 4.09876 4.20727 4.39907 4.43966 4.52476 4.66335 4.72148 4.77845 4.92212 4.92360 5.00050 5.04691 5.13777 5.25636 5.31525 5.32860 5.55509 5.56997 5.87537 6.11179 6.59258 7.20009 8.77598 Molecular weight = 224.09amu Principal moments of inertia in cm(-1) A = 0.072193 B = 0.005216 C = 0.005111 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 387.754088 B = 5366.768101 C = 5477.175808 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.926 5.926 2 C 0.014 3.986 3 Si 0.978 3.022 4 H -0.268 1.268 5 H -0.274 1.274 6 H -0.266 1.266 7 C -0.537 4.537 8 H 0.061 0.939 9 C 0.093 3.907 10 S -0.318 6.318 11 C -0.065 4.065 12 C -0.064 4.064 13 H 0.070 0.930 14 C -0.114 4.114 15 C -0.078 4.078 16 H 0.113 0.887 17 C -0.165 4.165 18 C -0.172 4.172 19 C -0.070 4.070 20 H 0.107 0.893 21 C -0.120 4.120 22 H 0.271 0.729 23 H 0.012 0.988 24 H 0.011 0.989 25 H 0.075 0.925 26 H 0.073 0.927 27 H 0.061 0.939 28 H 0.063 0.937 29 H 0.142 0.858 30 H 0.140 0.860 31 H 0.067 0.933 32 H 0.087 0.913 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 2.945 -17.244 -1.946 17.601 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 -0.565 5.565 2 C -0.187 4.187 3 Si 0.801 3.199 4 H -0.193 1.193 5 H -0.199 1.199 6 H -0.190 1.190 7 C -0.576 4.576 8 H 0.079 0.921 9 C -0.055 4.055 10 S -0.090 6.090 11 C -0.213 4.213 12 C -0.084 4.084 13 H 0.088 0.912 14 C -0.152 4.152 15 C -0.096 4.096 16 H 0.131 0.869 17 C -0.182 4.182 18 C -0.190 4.190 19 C -0.090 4.090 20 H 0.125 0.875 21 C -0.158 4.158 22 H 0.080 0.920 23 H 0.030 0.970 24 H 0.030 0.970 25 H 0.093 0.907 26 H 0.092 0.908 27 H 0.079 0.921 28 H 0.082 0.918 29 H 0.160 0.840 30 H 0.158 0.842 31 H 0.085 0.915 32 H 0.105 0.895 Dipole moment (debyes) X Y Z Total from point charges 3.899 -17.065 -1.936 17.612 hybrid contribution -1.149 1.106 0.160 1.603 sum 2.749 -15.960 -1.777 16.292 Atomic orbital electron populations 1.70063 1.07736 1.28597 1.50108 1.25941 0.95896 1.03129 0.93712 0.85253 0.78446 0.77369 0.78837 1.19305 1.19917 1.18981 1.21011 0.93401 0.90287 1.52901 0.92061 1.20710 0.94113 0.93014 0.97646 1.86412 1.21732 1.02940 1.97962 1.23402 0.99712 0.94054 1.04111 1.22054 0.96478 0.91113 0.98759 0.91182 1.22748 0.99416 0.97300 0.95687 1.23011 0.94779 0.93003 0.98816 0.86937 1.24276 1.00128 0.98128 0.95706 1.24173 0.98633 0.97425 0.98743 1.23016 0.96305 0.91894 0.97748 0.87467 1.24078 0.95993 1.01887 0.93799 0.92047 0.96971 0.97026 0.90660 0.90832 0.92055 0.91843 0.84012 0.84197 0.91461 0.89457 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 -0.93 -55.42 13.29 21.45 0.28 -55.13 16 2 C 0.01 0.79 5.46 84.65 0.46 1.26 16 3 Si 0.98 44.33 29.54 68.60 2.03 46.36 16 4 H -0.27 -11.67 7.11 99.48 0.71 -10.97 16 5 H -0.27 -11.90 7.11 99.48 0.71 -11.19 16 6 H -0.27 -11.72 7.11 99.48 0.71 -11.01 16 7 C -0.54 -31.59 9.13 25.60 0.23 -31.36 16 8 H 0.06 3.59 7.71 -2.91 -0.02 3.56 16 9 C 0.09 5.11 5.70 71.24 0.41 5.52 16 10 S -0.32 -14.35 21.10 -56.49 -1.19 -15.54 16 11 C -0.06 -2.23 5.18 71.98 0.37 -1.86 16 12 C -0.06 -1.80 2.37 -9.04 -0.02 -1.82 16 13 H 0.07 2.09 8.08 -2.39 -0.02 2.07 16 14 C -0.11 -3.04 5.55 32.33 0.18 -2.86 16 15 C -0.08 -1.62 5.26 -8.06 -0.04 -1.66 16 16 H 0.11 2.01 8.14 -2.39 -0.02 1.99 16 17 C -0.16 -3.07 10.14 25.79 0.26 -2.80 16 18 C -0.17 -3.31 10.14 25.79 0.26 -3.05 16 19 C -0.07 -1.54 4.69 -8.06 -0.04 -1.57 16 20 H 0.11 2.19 8.14 -2.39 -0.02 2.17 16 21 C -0.12 -2.51 6.61 33.58 0.22 -2.28 16 22 H 0.27 15.03 8.31 -92.71 -0.77 14.26 16 23 H 0.01 0.70 8.14 -2.39 -0.02 0.68 16 24 H 0.01 0.67 8.14 -2.39 -0.02 0.65 16 25 H 0.07 2.56 7.07 -2.39 -0.02 2.54 16 26 H 0.07 2.49 8.14 -2.39 -0.02 2.47 16 27 H 0.06 1.87 7.54 -2.39 -0.02 1.85 16 28 H 0.06 1.70 8.08 -2.39 -0.02 1.68 16 29 H 0.14 2.09 8.06 -2.91 -0.02 2.07 16 30 H 0.14 2.22 8.06 -2.91 -0.02 2.19 16 31 H 0.07 1.53 7.05 -2.39 -0.02 1.52 16 32 H 0.09 1.55 8.14 -2.39 -0.02 1.53 16 Total: -1.00 -63.24 274.28 4.49 -58.75 By element: Atomic # 1 Polarization: 6.99 SS G_CDS: 1.07 Total: 8.06 kcal Atomic # 6 Polarization: -44.79 SS G_CDS: 2.30 Total: -42.49 kcal Atomic # 7 Polarization: -55.42 SS G_CDS: 0.28 Total: -55.13 kcal Atomic # 14 Polarization: 44.33 SS G_CDS: 2.03 Total: 46.36 kcal Atomic # 16 Polarization: -14.35 SS G_CDS: -1.19 Total: -15.54 kcal Total: -63.24 4.49 -58.75 kcal The number of atoms in the molecule is 32 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. ZINC000600557000.mol2 32 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 58.116 kcal (2) G-P(sol) polarization free energy of solvation -63.236 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -5.120 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.490 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -58.745 kcal (6) G-S(sol) free energy of system = (1) + (5) -0.630 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.30 seconds