Wall clock time and date at job start Tue Mar 31 2020 14:11:08 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 1.31508 * 1 3 3 Si 1.86800 * 119.99842 * 2 1 4 4 H 1.48490 * 109.47496 * 270.00053 * 3 2 1 5 5 H 1.48498 * 109.47289 * 30.00554 * 3 2 1 6 6 H 1.48508 * 109.46975 * 149.99918 * 3 2 1 7 7 C 1.37880 * 120.00325 * 180.02562 * 2 1 3 8 8 H 1.07996 * 119.99549 * 359.97438 * 7 2 1 9 9 C 1.50700 * 120.00118 * 179.97438 * 7 2 1 10 10 C 1.53002 * 109.46895 * 179.97438 * 9 7 2 11 11 N 1.46503 * 109.46961 * 179.97438 * 10 9 7 12 12 S 1.65600 * 119.99770 * 164.99840 * 11 10 9 13 13 O 1.42094 * 106.40341 * 311.45908 * 12 11 10 14 14 O 1.42100 * 106.39674 * 178.54120 * 12 11 10 15 15 C 1.76202 * 107.21716 * 65.00411 * 12 11 10 16 16 C 1.38304 * 119.92493 * 270.21402 * 15 12 11 17 17 C 1.38110 * 120.09254 * 180.24585 * 16 15 12 18 18 C 1.38863 * 119.88682 * 359.78979 * 17 16 15 19 19 C 1.38845 * 119.87458 * 359.97112 * 18 17 16 20 20 C 1.38097 * 119.97092 * 0.02562 * 19 18 17 21 21 C 1.50655 * 119.84777 * 180.02562 * 19 18 17 22 22 C 1.52906 * 109.52587 * 326.05151 * 21 19 18 23 23 C 1.50493 * 109.90882 * 48.56101 * 22 21 19 24 24 O 1.21288 * 119.60950 * 144.82188 * 23 22 21 25 25 N 1.34561 * 120.77252 * 324.85442 * 23 22 21 26 26 H 0.96996 * 120.00096 * 359.97438 * 1 2 3 27 27 H 1.08994 * 109.47049 * 60.00212 * 9 7 2 28 28 H 1.08997 * 109.46782 * 299.99685 * 9 7 2 29 29 H 1.08999 * 109.47075 * 59.99840 * 10 9 7 30 30 H 1.08998 * 109.46968 * 300.00251 * 10 9 7 31 31 H 0.97005 * 119.99709 * 344.99951 * 11 10 9 32 32 H 1.07999 * 119.95366 * 0.03364 * 16 15 12 33 33 H 1.07997 * 120.05432 * 179.80861 * 17 16 15 34 34 H 1.08002 * 119.98303 * 179.97438 * 20 19 18 35 35 H 1.09008 * 109.45851 * 86.06620 * 21 19 18 36 36 H 1.09002 * 109.46228 * 206.02791 * 21 19 18 37 37 H 1.08995 * 109.39890 * 168.70574 * 22 21 19 38 38 H 1.09007 * 109.39268 * 288.52197 * 22 21 19 39 39 H 0.97001 * 119.77020 * 180.79078 * 25 23 22 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 2.2490 1.6178 0.0000 4 1 2.4965 2.0465 -1.3999 5 1 1.4466 2.6527 0.7001 6 1 3.5467 1.4402 0.7001 7 6 2.0046 -1.1940 -0.0005 8 1 1.4646 -2.1293 -0.0005 9 6 3.5116 -1.1940 -0.0011 10 6 4.0216 -2.6365 -0.0010 11 7 5.4866 -2.6365 -0.0022 12 16 6.3149 -4.0216 0.3689 13 8 5.7349 -4.5283 1.5630 14 8 7.6955 -3.7080 0.2477 15 6 5.9587 -5.1967 -0.8949 16 6 4.8763 -6.0471 -0.7610 17 6 4.5970 -6.9729 -1.7471 18 6 5.4023 -7.0458 -2.8759 19 6 6.4853 -6.1872 -3.0095 20 6 6.7595 -5.2636 -2.0202 21 6 7.3583 -6.2664 -4.2347 22 6 7.4483 -7.7185 -4.7051 23 6 6.0712 -8.3216 -4.7728 24 8 5.8103 -9.1236 -5.6444 25 7 5.1257 -7.9809 -3.8779 26 1 -0.4850 0.8400 0.0004 27 1 3.8752 -0.6804 0.8888 28 1 3.8745 -0.6800 -0.8911 29 1 3.6579 -3.1505 -0.8907 30 1 3.6585 -3.1501 0.8892 31 1 5.9714 -1.8251 -0.2203 32 1 4.2506 -5.9895 0.1174 33 1 3.7534 -7.6388 -1.6405 34 1 7.6021 -4.5959 -2.1237 35 1 6.9283 -5.6539 -5.0273 36 1 8.3563 -5.9001 -3.9939 37 1 7.9069 -7.7512 -5.6934 38 1 8.0578 -8.2890 -4.0041 39 1 4.2463 -8.3872 -3.9281 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 ZINC001320039100.mol2 39 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 14:11:08 Heat of formation + Delta-G solvation = -123.964501 kcal Electronic energy + Delta-G solvation = -24684.288092 eV Core-core repulsion = 20909.886109 eV Total energy + Delta-G solvation = -3774.401983 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 324.098 amu Computer time = 0.60 seconds Orbital eigenvalues (eV) -42.12876 -39.89526 -38.32579 -37.05443 -36.92911 -36.52637 -35.06278 -34.67778 -31.48069 -31.31129 -30.83797 -26.37106 -25.73281 -24.50643 -23.96765 -22.65763 -21.01713 -20.14142 -19.19787 -19.03362 -18.49351 -18.37646 -17.95196 -17.16869 -16.83929 -16.22589 -16.07813 -15.88436 -15.66871 -15.40083 -15.15159 -14.79764 -14.61927 -14.52613 -14.42608 -13.62689 -13.51163 -13.39838 -13.26366 -13.21881 -13.14038 -13.05320 -12.66406 -12.38203 -12.20980 -12.02207 -11.85585 -11.77946 -11.69915 -11.41384 -11.24492 -10.74722 -10.34597 -10.00893 -9.47638 -8.25844 -6.30684 -0.63587 -0.34716 0.16958 1.25348 1.40622 1.43588 1.54026 1.82941 2.03943 2.39722 2.42179 2.80082 3.10355 3.20254 3.32159 3.58306 3.60711 3.89088 4.05146 4.19359 4.21221 4.25071 4.29226 4.53345 4.70136 4.71757 4.78475 4.80837 4.85924 4.91555 4.97841 5.03773 5.06743 5.41767 5.48412 5.49951 5.62359 5.65675 5.93924 6.12740 6.30386 6.76682 6.77775 7.33963 8.90220 Molecular weight = 324.10amu Principal moments of inertia in cm(-1) A = 0.014854 B = 0.003254 C = 0.002948 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1884.563322 B = 8603.993084 C = 9496.769394 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.950 5.950 2 C 0.006 3.994 3 Si 0.947 3.053 4 H -0.265 1.265 5 H -0.290 1.290 6 H -0.242 1.242 7 C -0.531 4.531 8 H 0.041 0.959 9 C -0.019 4.019 10 C 0.136 3.864 11 N -1.111 6.111 12 S 2.713 3.287 13 O -0.990 6.990 14 O -0.980 6.980 15 C -0.700 4.700 16 C -0.002 4.002 17 C -0.170 4.170 18 C 0.208 3.792 19 C -0.148 4.148 20 C 0.013 3.987 21 C -0.076 4.076 22 C -0.135 4.135 23 C 0.519 3.481 24 O -0.564 6.564 25 N -0.659 5.659 26 H 0.266 0.734 27 H 0.028 0.972 28 H 0.035 0.965 29 H 0.069 0.931 30 H 0.067 0.933 31 H 0.425 0.575 32 H 0.148 0.852 33 H 0.160 0.840 34 H 0.165 0.835 35 H 0.093 0.907 36 H 0.124 0.876 37 H 0.128 0.872 38 H 0.121 0.879 39 H 0.419 0.581 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 17.835 -13.214 -8.053 23.613 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 -0.590 5.590 2 C -0.191 4.191 3 Si 0.771 3.229 4 H -0.190 1.190 5 H -0.216 1.216 6 H -0.166 1.166 7 C -0.570 4.570 8 H 0.060 0.940 9 C -0.058 4.058 10 C 0.011 3.989 11 N -0.872 5.872 12 S 2.806 3.194 13 O -0.980 6.980 14 O -0.971 6.971 15 C -0.790 4.790 16 C -0.022 4.022 17 C -0.192 4.192 18 C 0.110 3.890 19 C -0.151 4.151 20 C -0.007 4.007 21 C -0.113 4.113 22 C -0.174 4.174 23 C 0.310 3.690 24 O -0.442 6.442 25 N -0.302 5.302 26 H 0.075 0.925 27 H 0.046 0.954 28 H 0.054 0.946 29 H 0.087 0.913 30 H 0.085 0.915 31 H 0.261 0.739 32 H 0.166 0.834 33 H 0.178 0.822 34 H 0.183 0.817 35 H 0.112 0.888 36 H 0.142 0.858 37 H 0.146 0.854 38 H 0.139 0.861 39 H 0.258 0.742 Dipole moment (debyes) X Y Z Total from point charges 18.181 -13.822 -7.822 24.141 hybrid contribution -1.230 0.573 -0.458 1.432 sum 16.951 -13.249 -8.280 23.053 Atomic orbital electron populations 1.70052 1.08331 1.28149 1.52472 1.25964 0.95555 1.03466 0.94155 0.85702 0.79682 0.78304 0.79231 1.19002 1.21631 1.16575 1.21333 0.91540 0.93549 1.50593 0.94031 1.19703 0.94316 0.93863 0.97892 1.21137 0.76764 0.99600 1.01441 1.55333 1.16050 1.27409 1.88416 1.00964 0.72056 0.72703 0.73714 1.93545 1.79134 1.80472 1.44889 1.93538 1.31846 1.84239 1.87435 1.30646 1.08842 1.20696 1.18802 1.20960 0.92674 0.90599 0.98003 1.21122 1.02695 1.02483 0.92857 1.18017 0.94502 0.88478 0.88010 1.19876 0.98303 0.97665 0.99299 1.20849 0.96135 0.94758 0.88939 1.20570 1.01353 0.95635 0.93730 1.21812 0.91520 0.96969 1.07100 1.21502 0.88471 0.80142 0.78885 1.90784 1.82205 1.35672 1.35536 1.43792 1.16761 1.41104 1.28588 0.92542 0.95365 0.94626 0.91276 0.91504 0.73916 0.83397 0.82248 0.81741 0.88836 0.85817 0.85377 0.86058 0.74179 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 -0.95 -57.50 13.96 21.45 0.30 -57.20 16 2 C 0.01 0.32 5.47 84.66 0.46 0.78 16 3 Si 0.95 41.81 27.47 68.60 1.88 43.70 16 4 H -0.27 -11.14 7.11 99.48 0.71 -10.44 16 5 H -0.29 -12.88 7.11 99.48 0.71 -12.17 16 6 H -0.24 -9.76 6.54 99.48 0.65 -9.11 16 7 C -0.53 -28.55 9.66 25.60 0.25 -28.31 16 8 H 0.04 2.44 7.99 -2.91 -0.02 2.41 16 9 C -0.02 -0.78 4.18 29.85 0.12 -0.66 16 10 C 0.14 4.64 6.16 86.38 0.53 5.18 16 11 N -1.11 -30.07 6.00 -187.48 -1.12 -31.19 16 12 S 2.71 71.43 5.73 -56.49 -0.32 71.10 16 13 O -0.99 -32.63 16.75 -128.00 -2.14 -34.78 16 14 O -0.98 -27.69 17.28 -128.00 -2.21 -29.90 16 15 C -0.70 -15.34 5.95 22.29 0.13 -15.21 16 16 C 0.00 -0.05 9.51 22.25 0.21 0.16 16 17 C -0.17 -2.96 9.93 22.39 0.22 -2.74 16 18 C 0.21 3.46 6.50 38.16 0.25 3.71 16 19 C -0.15 -2.28 5.66 -19.77 -0.11 -2.40 16 20 C 0.01 0.23 9.16 22.25 0.20 0.43 16 21 C -0.08 -0.70 6.00 29.80 0.18 -0.52 16 22 C -0.13 -1.32 6.08 29.75 0.18 -1.14 16 23 C 0.52 9.00 7.72 87.63 0.68 9.68 16 24 O -0.56 -14.17 17.91 -3.05 -0.05 -14.22 16 25 N -0.66 -10.23 5.36 -304.09 -1.63 -11.86 16 26 H 0.27 15.07 8.31 -92.71 -0.77 14.30 16 27 H 0.03 1.17 7.20 -2.39 -0.02 1.16 16 28 H 0.04 1.39 7.57 -2.39 -0.02 1.37 16 29 H 0.07 2.20 8.14 -2.39 -0.02 2.18 16 30 H 0.07 2.39 7.75 -2.39 -0.02 2.37 16 31 H 0.42 9.83 8.65 -96.74 -0.84 9.00 16 32 H 0.15 3.09 7.62 -2.91 -0.02 3.07 16 33 H 0.16 1.99 8.06 -2.91 -0.02 1.97 16 34 H 0.17 2.24 7.61 -2.91 -0.02 2.22 16 35 H 0.09 0.81 8.14 -2.38 -0.02 0.79 16 36 H 0.12 0.55 8.06 -2.39 -0.02 0.53 16 37 H 0.13 0.91 8.14 -2.39 -0.02 0.89 16 38 H 0.12 0.87 8.14 -2.38 -0.02 0.85 16 39 H 0.42 5.53 8.83 -92.71 -0.82 4.71 16 Total: -1.00 -76.68 343.41 -2.60 -79.28 By element: Atomic # 1 Polarization: 16.71 SS G_CDS: -0.60 Total: 16.10 kcal Atomic # 6 Polarization: -34.34 SS G_CDS: 3.31 Total: -31.03 kcal Atomic # 7 Polarization: -97.79 SS G_CDS: -2.46 Total: -100.25 kcal Atomic # 8 Polarization: -74.49 SS G_CDS: -4.41 Total: -78.90 kcal Atomic # 14 Polarization: 41.81 SS G_CDS: 1.88 Total: 43.70 kcal Atomic # 16 Polarization: 71.43 SS G_CDS: -0.32 Total: 71.10 kcal Total: -76.68 -2.60 -79.28 kcal The number of atoms in the molecule is 39 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. ZINC001320039100.mol2 39 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 -44.688 kcal (2) G-P(sol) polarization free energy of solvation -76.677 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -121.365 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.599 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -79.276 kcal (6) G-S(sol) free energy of system = (1) + (5) -123.965 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.60 seconds