Wall clock time and date at job start Mon Mar 30 2020 06:40:36 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 1.31516 * 1 3 3 Si 1.86801 * 120.00332 * 2 1 4 4 H 1.48498 * 109.46899 * 269.99909 * 3 2 1 5 5 H 1.48495 * 109.47200 * 30.00032 * 3 2 1 6 6 H 1.48497 * 109.46831 * 150.00189 * 3 2 1 7 7 C 1.37883 * 119.99733 * 179.97438 * 2 1 3 8 8 H 1.07993 * 120.00211 * 179.97438 * 7 2 1 9 9 C 1.50703 * 119.99911 * 0.02562 * 7 2 1 10 10 C 1.52997 * 109.47170 * 179.97438 * 9 7 2 11 11 C 1.53000 * 109.47350 * 179.97438 * 10 9 7 12 12 C 1.52997 * 109.47350 * 180.02562 * 11 10 9 13 13 S 1.81397 * 109.47310 * 180.02562 * 12 11 10 14 14 C 1.76198 * 103.00056 * 180.02562 * 13 12 11 15 15 C 1.39146 * 119.62862 * 180.02562 * 14 13 12 16 16 C 1.38261 * 119.16622 * 180.02562 * 15 14 13 17 17 C 1.39431 * 118.45289 * 359.97438 * 16 15 14 18 18 N 1.40046 * 120.40286 * 180.02562 * 17 16 15 19 19 C 1.38636 * 119.19532 * 0.02562 * 17 16 15 20 20 N 1.31984 * 120.75773 * 359.97438 * 19 17 16 21 21 H 0.96997 * 119.99643 * 359.97438 * 1 2 3 22 22 H 1.09008 * 109.46951 * 59.99805 * 9 7 2 23 23 H 1.09000 * 109.47093 * 300.00112 * 9 7 2 24 24 H 1.09000 * 109.47002 * 60.00061 * 10 9 7 25 25 H 1.08996 * 109.47218 * 300.00266 * 10 9 7 26 26 H 1.09008 * 109.46660 * 60.00471 * 11 10 9 27 27 H 1.09000 * 109.47204 * 300.00889 * 11 10 9 28 28 H 1.09000 * 109.47002 * 60.00307 * 12 11 10 29 29 H 1.08996 * 109.47218 * 300.00513 * 12 11 10 30 30 H 1.07995 * 120.42114 * 0.02562 * 15 14 13 31 31 H 1.08001 * 120.76977 * 179.97438 * 16 15 14 32 32 H 0.97007 * 119.99750 * 179.97438 * 18 17 16 33 33 H 0.96998 * 120.00342 * 359.97042 * 18 17 16 34 34 H 1.07999 * 119.62255 * 179.97438 * 19 17 16 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 1.3152 0.0000 0.0000 3 14 2.2493 1.6177 0.0000 4 1 2.4968 2.0463 -1.4001 5 1 1.4468 2.6526 0.7000 6 1 3.5468 1.4400 0.7000 7 6 2.0045 -1.1941 0.0005 8 1 3.0844 -1.1942 0.0001 9 6 1.2509 -2.4992 0.0005 10 6 2.2451 -3.6622 0.0005 11 6 1.4800 -4.9872 0.0012 12 6 2.4742 -6.1501 0.0018 13 16 1.5671 -7.7210 0.0018 14 6 2.8557 -8.9228 0.0034 15 6 2.5338 -10.2765 0.0032 16 6 3.5526 -11.2113 0.0049 17 6 4.8708 -10.7572 0.0063 18 7 5.9343 -11.6684 0.0075 19 6 5.1161 -9.3927 0.0064 20 7 4.1192 -8.5277 0.0047 21 1 -0.4849 0.8400 0.0004 22 1 0.6246 -2.5571 -0.8897 23 1 0.6239 -2.5567 0.8903 24 1 2.8717 -3.6045 0.8905 25 1 2.8717 -3.6045 -0.8894 26 1 0.8531 -5.0451 -0.8887 27 1 0.8535 -5.0446 0.8913 28 1 3.1007 -6.0920 0.8918 29 1 3.1009 -6.0929 -0.8881 30 1 1.5013 -10.5931 0.0017 31 1 3.3322 -12.2686 0.0052 32 1 6.8492 -11.3460 0.0081 33 1 5.7561 -12.6219 0.0079 34 1 6.1345 -9.0334 0.0078 RHF calculation, no. of doubly occupied orbitals= 44 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 ZINC000385254334.mol2 34 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 06:40:36 Heat of formation + Delta-G solvation = -15.537202 kcal Electronic energy + Delta-G solvation = -14908.018889 eV Core-core repulsion = 12350.817523 eV Total energy + Delta-G solvation = -2557.201366 eV No. of doubly occupied orbitals = 44 Molecular weight (most abundant/longest-lived isotopes) = 252.099 amu Computer time = 0.51 seconds Orbital eigenvalues (eV) -40.96340 -36.88901 -35.99578 -34.66535 -33.03933 -31.27904 -30.01496 -27.12830 -24.75675 -24.21572 -23.38439 -21.80686 -18.89711 -18.42117 -18.25908 -17.80674 -16.57599 -16.55417 -16.09166 -15.90070 -15.30062 -15.04510 -14.60004 -14.41252 -14.09608 -13.85542 -13.45740 -13.05635 -12.93712 -12.56444 -12.38426 -12.25928 -12.23652 -11.44107 -11.38241 -11.32900 -11.00308 -10.75096 -10.55032 -10.54514 -9.54145 -8.19080 -8.03395 -6.30409 0.21137 0.35554 0.62847 1.39938 1.40777 1.42134 1.53365 2.41988 2.80138 2.90181 3.13692 3.69467 3.93630 3.94939 3.96989 4.11289 4.20138 4.41243 4.53404 4.73154 4.79335 4.85080 5.00528 5.03757 5.09909 5.24694 5.26952 5.49614 5.53766 5.76351 5.86873 6.26158 6.40086 6.86325 6.86648 6.97026 7.38650 8.92959 Molecular weight = 252.10amu Principal moments of inertia in cm(-1) A = 0.050284 B = 0.003102 C = 0.002931 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 556.706526 B = 9024.057940 C = 9549.714484 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.934 5.934 2 C -0.003 4.003 3 Si 0.967 3.033 4 H -0.272 1.272 5 H -0.281 1.281 6 H -0.263 1.263 7 C -0.545 4.545 8 H 0.060 0.940 9 C 0.023 3.977 10 C -0.091 4.091 11 C -0.095 4.095 12 C -0.069 4.069 13 S -0.113 6.113 14 C 0.037 3.963 15 C -0.102 4.102 16 C -0.141 4.141 17 C 0.169 3.831 18 N -0.854 5.854 19 C 0.022 3.978 20 N -0.477 5.477 21 H 0.264 0.736 22 H -0.008 1.008 23 H -0.008 1.008 24 H 0.053 0.947 25 H 0.053 0.947 26 H 0.063 0.937 27 H 0.063 0.937 28 H 0.083 0.917 29 H 0.083 0.917 30 H 0.152 0.848 31 H 0.169 0.831 32 H 0.411 0.589 33 H 0.412 0.588 34 H 0.169 0.831 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 10.843 -26.856 0.011 28.962 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 -0.575 5.575 2 C -0.200 4.200 3 Si 0.791 3.209 4 H -0.197 1.197 5 H -0.206 1.206 6 H -0.187 1.187 7 C -0.583 4.583 8 H 0.078 0.922 9 C -0.014 4.014 10 C -0.130 4.130 11 C -0.134 4.134 12 C -0.218 4.218 13 S 0.127 5.873 14 C -0.212 4.212 15 C -0.128 4.128 16 C -0.172 4.172 17 C 0.058 3.942 18 N -0.395 5.395 19 C -0.144 4.144 20 N -0.189 5.189 21 H 0.073 0.927 22 H 0.011 0.989 23 H 0.011 0.989 24 H 0.072 0.928 25 H 0.072 0.928 26 H 0.082 0.918 27 H 0.082 0.918 28 H 0.102 0.898 29 H 0.102 0.898 30 H 0.170 0.830 31 H 0.187 0.813 32 H 0.241 0.759 33 H 0.243 0.757 34 H 0.186 0.814 Dipole moment (debyes) X Y Z Total from point charges 9.654 -25.931 0.014 27.670 hybrid contribution 1.501 0.219 -0.009 1.517 sum 11.155 -25.712 0.005 28.028 Atomic orbital electron populations 1.70105 1.07837 1.27788 1.51732 1.26022 0.95813 1.03469 0.94732 0.85422 0.78648 0.78299 0.78536 1.19697 1.20635 1.18722 1.21727 0.93585 0.92450 1.50492 0.92176 1.19026 0.94466 0.93048 0.94905 1.21401 0.97992 0.92771 1.00839 1.21305 0.97269 0.92425 1.02447 1.23274 1.00304 0.92542 1.05696 1.85339 1.10273 0.98825 1.92894 1.22754 0.94545 0.95750 1.08182 1.21684 1.01709 0.90640 0.98777 1.21292 0.90012 1.01313 1.04631 1.18839 0.89972 0.91025 0.94391 1.42394 1.05962 1.07667 1.83458 1.22549 0.98629 0.88438 1.04780 1.67783 0.99435 1.39493 1.12152 0.92746 0.98949 0.98926 0.92829 0.92803 0.91778 0.91784 0.89837 0.89840 0.83007 0.81328 0.75907 0.75732 0.81351 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 -58.46 13.29 21.45 0.28 -58.18 16 2 C 0.00 -0.17 5.46 84.66 0.46 0.29 16 3 Si 0.97 45.37 29.54 68.60 2.03 47.40 16 4 H -0.27 -12.28 7.11 99.48 0.71 -11.57 16 5 H -0.28 -12.83 7.11 99.48 0.71 -12.12 16 6 H -0.26 -11.79 7.11 99.48 0.71 -11.08 16 7 C -0.54 -32.13 9.11 25.60 0.23 -31.90 16 8 H 0.06 3.40 7.74 -2.91 -0.02 3.37 16 9 C 0.02 1.26 4.97 29.85 0.15 1.41 16 10 C -0.09 -3.92 5.15 30.59 0.16 -3.76 16 11 C -0.10 -3.50 5.22 30.59 0.16 -3.34 16 12 C -0.07 -2.24 5.20 71.98 0.37 -1.87 16 13 S -0.11 -3.34 21.90 -56.49 -1.24 -4.58 16 14 C 0.04 1.01 6.99 84.83 0.59 1.61 16 15 C -0.10 -2.07 9.83 22.49 0.22 -1.84 16 16 C -0.14 -2.09 10.04 22.56 0.23 -1.86 16 17 C 0.17 2.52 6.79 38.21 0.26 2.78 16 18 N -0.85 -5.66 9.11 -50.99 -0.46 -6.12 16 19 C 0.02 0.46 11.05 84.76 0.94 1.39 16 20 N -0.48 -13.16 9.41 -191.82 -1.81 -14.97 16 21 H 0.26 15.43 8.31 -92.71 -0.77 14.66 16 22 H -0.01 -0.47 8.14 -2.38 -0.02 -0.49 16 23 H -0.01 -0.45 8.14 -2.39 -0.02 -0.47 16 24 H 0.05 2.25 8.14 -2.39 -0.02 2.23 16 25 H 0.05 2.26 8.14 -2.39 -0.02 2.24 16 26 H 0.06 2.36 8.14 -2.38 -0.02 2.34 16 27 H 0.06 2.36 8.14 -2.39 -0.02 2.34 16 28 H 0.08 2.72 8.14 -2.39 -0.02 2.70 16 29 H 0.08 2.72 8.14 -2.39 -0.02 2.70 16 30 H 0.15 2.51 8.06 -2.91 -0.02 2.49 16 31 H 0.17 1.27 8.06 -2.91 -0.02 1.25 16 32 H 0.41 1.46 8.86 -92.70 -0.82 0.64 16 33 H 0.41 0.94 8.86 -92.71 -0.82 0.12 16 34 H 0.17 2.62 8.06 -2.91 -0.02 2.60 16 Total: -1.00 -71.63 307.46 2.03 -69.60 By element: Atomic # 1 Polarization: 4.49 SS G_CDS: -0.54 Total: 3.95 kcal Atomic # 6 Polarization: -40.87 SS G_CDS: 3.77 Total: -37.10 kcal Atomic # 7 Polarization: -77.29 SS G_CDS: -1.99 Total: -79.27 kcal Atomic # 14 Polarization: 45.37 SS G_CDS: 2.03 Total: 47.40 kcal Atomic # 16 Polarization: -3.34 SS G_CDS: -1.24 Total: -4.58 kcal Total: -71.63 2.03 -69.60 kcal The number of atoms in the molecule is 34 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. ZINC000385254334.mol2 34 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 54.062 kcal (2) G-P(sol) polarization free energy of solvation -71.634 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -17.572 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.035 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -69.599 kcal (6) G-S(sol) free energy of system = (1) + (5) -15.537 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.51 seconds