Wall clock time and date at job start Tue Mar 31 2020 22:21:05 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 1.31630 * 1 3 3 Si 1.86799 * 119.99885 * 2 1 4 4 H 1.48504 * 109.46893 * 269.99662 * 3 2 1 5 5 H 1.48498 * 109.47208 * 29.99888 * 3 2 1 6 6 H 1.48501 * 109.46828 * 149.99832 * 3 2 1 7 7 C 1.38803 * 120.00080 * 179.97438 * 2 1 3 8 8 H 1.08001 * 120.00343 * 180.02562 * 7 2 1 9 9 S 1.76199 * 119.99844 * 0.02562 * 7 2 1 10 10 C 1.80994 * 100.00070 * 180.02562 * 9 7 2 11 11 C 1.50700 * 109.47547 * 179.97438 * 10 9 7 12 12 O 1.21283 * 119.99658 * 0.02562 * 11 10 9 13 13 N 1.34773 * 120.00452 * 179.97438 * 11 10 9 14 14 C 1.46926 * 120.63302 * 180.02562 * 13 11 10 15 15 C 1.53191 * 108.89109 * 233.67613 * 14 13 11 16 16 C 1.53035 * 109.31327 * 305.29292 * 15 14 13 17 17 N 1.46497 * 109.46029 * 181.37638 * 16 15 14 18 18 C 1.38996 * 120.00459 * 154.99868 * 17 16 15 19 19 C 1.39070 * 119.68697 * 359.97438 * 18 17 16 20 20 C 1.38378 * 119.15847 * 179.97438 * 19 18 17 21 21 C 1.38759 * 118.53307 * 0.02562 * 20 19 18 22 22 C 1.38368 * 119.30797 * 359.97438 * 21 20 19 23 23 F 1.35094 * 119.60593 * 180.02562 * 22 21 20 24 24 N 1.32146 * 120.79039 * 359.75394 * 22 21 20 25 25 C 1.53038 * 109.54175 * 61.36680 * 16 15 14 26 26 C 1.47207 * 120.81153 * 0.14103 * 13 11 10 27 27 H 0.96996 * 119.99943 * 0.02562 * 1 2 3 28 28 H 1.08998 * 109.47309 * 59.99490 * 10 9 7 29 29 H 1.09003 * 109.47333 * 299.99603 * 10 9 7 30 30 H 1.09002 * 109.58861 * 113.81616 * 14 13 11 31 31 H 1.08996 * 109.58519 * 353.53507 * 14 13 11 32 32 H 1.09003 * 109.49975 * 65.24379 * 15 14 13 33 33 H 1.09000 * 109.49553 * 185.30642 * 15 14 13 34 34 H 1.09004 * 109.45942 * 301.34050 * 16 15 14 35 35 H 0.97006 * 120.00139 * 334.99563 * 17 16 15 36 36 H 1.08003 * 120.42193 * 359.96000 * 19 18 17 37 37 H 1.07999 * 120.73310 * 180.02562 * 20 19 18 38 38 H 1.08003 * 120.34494 * 179.97438 * 21 20 19 39 39 H 1.09002 * 109.49557 * 58.58503 * 25 16 15 40 40 H 1.09001 * 109.50153 * 178.64977 * 25 16 15 41 41 H 1.08996 * 109.53610 * 6.53712 * 26 13 11 42 42 H 1.09002 * 109.68003 * 246.23180 * 26 13 11 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 2.4978 2.0464 -1.4001 5 1 1.4477 2.6527 0.7000 6 1 3.5478 1.4401 0.7001 7 6 2.0103 -1.2021 0.0005 8 1 3.0903 -1.2021 0.0010 9 16 1.1293 -2.7280 0.0005 10 6 2.5158 -3.8914 0.0021 11 6 1.9874 -5.3027 0.0030 12 8 0.7911 -5.5023 0.0021 13 7 2.8441 -6.3431 0.0037 14 6 2.3440 -7.7247 0.0040 15 6 2.9820 -8.4829 1.1723 16 6 4.5052 -8.3689 1.0781 17 7 5.1197 -9.1203 2.1753 18 6 6.4142 -9.6091 2.0437 19 6 7.1201 -9.3815 0.8673 20 6 8.4083 -9.8726 0.7482 21 6 8.9497 -10.5782 1.8133 22 6 8.1917 -10.7683 2.9551 23 9 8.7131 -11.4538 3.9959 24 7 6.9657 -10.2827 3.0418 25 6 4.9155 -6.8977 1.1755 26 6 4.2994 -6.1215 0.0068 27 1 -0.4850 0.8400 -0.0004 28 1 3.1238 -3.7309 0.8924 29 1 3.1251 -3.7318 -0.8875 30 1 2.6100 -8.2098 -0.9352 31 1 1.2602 -7.7209 0.1192 32 1 2.6426 -8.0521 2.1143 33 1 2.6917 -9.5325 1.1266 34 1 4.8417 -8.7774 0.1252 35 1 4.6231 -9.2768 2.9938 36 1 6.6685 -8.8287 0.0568 37 1 8.9796 -9.7103 -0.1538 38 1 9.9524 -10.9748 1.7516 39 1 4.5578 -6.4820 2.1175 40 1 6.0018 -6.8193 1.1325 41 1 4.5058 -5.0579 0.1251 42 1 4.7264 -6.4744 -0.9320 RHF calculation, no. of doubly occupied orbitals= 60 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) F: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988). 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 ZINC001095214804.mol2 42 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 22:21:05 Heat of formation + Delta-G solvation = -56.366805 kcal Electronic energy + Delta-G solvation = -25931.882280 eV Core-core repulsion = 21951.820812 eV Total energy + Delta-G solvation = -3980.061468 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.116 amu Computer time = 0.62 seconds Orbital eigenvalues (eV) -50.00765 -41.46950 -40.86956 -38.82639 -36.28760 -34.58079 -33.73409 -33.05823 -32.06444 -30.66323 -29.63448 -27.67239 -25.91636 -24.68821 -24.11865 -23.51664 -21.97724 -20.45497 -19.56456 -19.08830 -18.63063 -18.09149 -17.08641 -17.01432 -16.93661 -16.86323 -16.65754 -16.48444 -16.20008 -15.84005 -15.33106 -15.09734 -14.75437 -14.54188 -14.46262 -14.23051 -14.17823 -13.96289 -13.46308 -13.36933 -13.24428 -13.15423 -12.88840 -12.67692 -12.59680 -12.29645 -12.18844 -11.73019 -11.65016 -11.22033 -11.13874 -10.86952 -10.71238 -10.60999 -10.25052 -9.72086 -8.76344 -8.66653 -8.34282 -6.12358 0.10765 0.40068 1.26533 1.42741 1.46727 1.56562 1.57418 1.87068 2.11243 2.27939 2.74988 2.94581 2.99941 3.25698 3.56819 3.74296 3.76570 3.83071 3.91534 4.03385 4.04696 4.25347 4.27582 4.30487 4.32843 4.41057 4.46868 4.64518 4.68594 4.80341 4.82925 4.85309 4.95389 5.01682 5.07031 5.22300 5.31675 5.42161 5.57411 5.58224 5.95550 6.20009 6.27649 6.43267 6.95520 7.07092 7.15855 8.74821 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.019096 B = 0.002059 C = 0.001931 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1465.942920 B =13597.720433 C =14497.540615 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.911 5.911 2 C 0.012 3.988 3 Si 0.998 3.002 4 H -0.267 1.267 5 H -0.280 1.280 6 H -0.258 1.258 7 C -0.544 4.544 8 H 0.083 0.917 9 S -0.155 6.155 10 C -0.124 4.124 11 C 0.534 3.466 12 O -0.567 6.567 13 N -0.608 5.608 14 C 0.114 3.886 15 C -0.131 4.131 16 C 0.163 3.837 17 N -0.714 5.714 18 C 0.425 3.575 19 C -0.246 4.246 20 C -0.001 4.001 21 C -0.252 4.252 22 C 0.322 3.678 23 F -0.128 7.128 24 N -0.616 5.616 25 C -0.145 4.145 26 C 0.104 3.896 27 H 0.271 0.729 28 H 0.104 0.896 29 H 0.110 0.890 30 H 0.098 0.902 31 H 0.073 0.927 32 H 0.059 0.941 33 H 0.100 0.900 34 H 0.112 0.888 35 H 0.403 0.597 36 H 0.166 0.834 37 H 0.182 0.818 38 H 0.163 0.837 39 H 0.055 0.945 40 H 0.098 0.902 41 H 0.089 0.911 42 H 0.107 0.893 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 20.682 -22.263 -1.326 30.416 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 -0.548 5.548 2 C -0.192 4.192 3 Si 0.820 3.180 4 H -0.192 1.192 5 H -0.205 1.205 6 H -0.182 1.182 7 C -0.691 4.691 8 H 0.102 0.898 9 S 0.072 5.928 10 C -0.275 4.275 11 C 0.321 3.679 12 O -0.446 6.446 13 N -0.342 5.342 14 C -0.008 4.008 15 C -0.170 4.170 16 C 0.058 3.942 17 N -0.345 5.345 18 C 0.189 3.811 19 C -0.271 4.271 20 C -0.026 4.026 21 C -0.276 4.276 22 C 0.169 3.831 23 F -0.108 7.108 24 N -0.341 5.341 25 C -0.184 4.184 26 C -0.018 4.018 27 H 0.080 0.920 28 H 0.123 0.877 29 H 0.128 0.872 30 H 0.116 0.884 31 H 0.091 0.909 32 H 0.078 0.922 33 H 0.119 0.881 34 H 0.129 0.871 35 H 0.239 0.761 36 H 0.184 0.816 37 H 0.199 0.801 38 H 0.181 0.819 39 H 0.074 0.926 40 H 0.116 0.884 41 H 0.107 0.893 42 H 0.125 0.875 Dipole moment (debyes) X Y Z Total from point charges 18.257 -22.545 -0.696 29.019 hybrid contribution 1.485 1.168 0.493 1.953 sum 19.742 -21.376 -0.203 29.099 Atomic orbital electron populations 1.70185 1.07979 1.28568 1.48052 1.26133 0.95965 1.03340 0.93808 0.84960 0.78199 0.76039 0.78832 1.19202 1.20486 1.18156 1.23185 0.95314 0.91899 1.58751 0.89848 1.85608 1.10786 0.99370 1.97021 1.23373 1.03291 0.94500 1.06332 1.20092 0.85985 0.86688 0.75102 1.90683 1.17343 1.85771 1.50776 1.48198 1.07346 1.05455 1.73223 1.21632 0.99874 0.79924 0.99417 1.22095 0.93948 1.02060 0.98870 1.21057 0.92072 0.90432 0.90620 1.44765 1.11525 1.58186 1.19993 1.18130 0.86393 0.88167 0.88454 1.21842 0.97056 1.09415 0.98760 1.21689 0.93468 0.89350 0.98059 1.21802 1.03532 1.08603 0.93683 1.18055 0.88540 0.91855 0.84633 1.91581 1.84801 1.76485 1.57894 1.66103 1.14115 1.19493 1.34360 1.22414 1.02243 0.95141 0.98633 1.22059 0.77494 1.02125 1.00122 0.92042 0.87744 0.87158 0.88371 0.90886 0.92203 0.88113 0.87062 0.76119 0.81610 0.80056 0.81935 0.92579 0.88410 0.89304 0.87543 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 -0.91 -55.62 13.22 21.65 0.29 -55.33 16 2 C 0.01 0.69 5.49 84.86 0.47 1.15 16 3 Si 1.00 42.99 29.55 68.60 2.03 45.02 16 4 H -0.27 -10.99 7.11 99.48 0.71 -10.29 16 5 H -0.28 -11.81 7.11 99.48 0.71 -11.11 16 6 H -0.26 -10.38 7.11 99.48 0.71 -9.67 16 7 C -0.54 -30.54 9.50 67.96 0.65 -29.89 16 8 H 0.08 4.32 7.80 -2.91 -0.02 4.30 16 9 S -0.16 -8.50 20.57 -56.49 -1.16 -9.66 16 10 C -0.12 -4.74 4.51 71.24 0.32 -4.42 16 11 C 0.53 18.93 7.72 87.66 0.68 19.60 16 12 O -0.57 -25.61 15.27 -3.04 -0.05 -25.66 16 13 N -0.61 -13.89 2.98 -818.12 -2.44 -16.33 16 14 C 0.11 2.06 6.42 86.36 0.55 2.61 16 15 C -0.13 -1.70 5.55 30.67 0.17 -1.53 16 16 C 0.16 1.66 2.10 45.02 0.09 1.76 16 17 N -0.71 -9.56 5.24 -324.46 -1.70 -11.26 16 18 C 0.43 6.75 7.63 133.04 1.01 7.76 16 19 C -0.25 -2.43 8.82 22.50 0.20 -2.23 16 20 C 0.00 0.00 10.16 22.43 0.23 0.22 16 21 C -0.25 -3.02 10.08 22.43 0.23 -2.79 16 22 C 0.32 6.22 8.41 84.68 0.71 6.93 16 23 F -0.13 -2.74 17.29 44.97 0.78 -1.96 16 24 N -0.62 -13.17 10.40 -194.34 -2.02 -15.20 16 25 C -0.14 -1.73 5.57 30.68 0.17 -1.56 16 26 C 0.10 1.50 6.35 86.32 0.55 2.05 16 27 H 0.27 15.34 8.31 -92.71 -0.77 14.57 16 28 H 0.10 3.65 7.70 -2.40 -0.02 3.63 16 29 H 0.11 3.74 7.95 -2.39 -0.02 3.72 16 30 H 0.10 1.23 8.14 -2.39 -0.02 1.21 16 31 H 0.07 1.77 7.00 -2.39 -0.02 1.75 16 32 H 0.06 1.01 8.14 -2.39 -0.02 0.99 16 33 H 0.10 1.00 8.14 -2.39 -0.02 0.98 16 34 H 0.11 0.67 6.45 -2.39 -0.02 0.66 16 35 H 0.40 5.91 8.73 -92.70 -0.81 5.10 16 36 H 0.17 0.74 6.09 -2.91 -0.02 0.72 16 37 H 0.18 0.03 8.06 -2.91 -0.02 0.00 16 38 H 0.16 1.17 8.06 -2.91 -0.02 1.15 16 39 H 0.06 0.93 8.14 -2.39 -0.02 0.91 16 40 H 0.10 0.90 7.67 -2.39 -0.02 0.88 16 41 H 0.09 1.43 5.97 -2.39 -0.01 1.42 16 42 H 0.11 0.89 8.14 -2.39 -0.02 0.87 16 Total: -1.00 -80.93 364.67 2.00 -78.93 By element: Atomic # 1 Polarization: 11.54 SS G_CDS: 0.25 Total: 11.80 kcal Atomic # 6 Polarization: -6.37 SS G_CDS: 6.03 Total: -0.34 kcal Atomic # 7 Polarization: -92.24 SS G_CDS: -5.88 Total: -98.12 kcal Atomic # 8 Polarization: -25.61 SS G_CDS: -0.05 Total: -25.66 kcal Atomic # 9 Polarization: -2.74 SS G_CDS: 0.78 Total: -1.96 kcal Atomic # 14 Polarization: 42.99 SS G_CDS: 2.03 Total: 45.02 kcal Atomic # 16 Polarization: -8.50 SS G_CDS: -1.16 Total: -9.66 kcal Total: -80.93 2.00 -78.93 kcal The number of atoms in the molecule is 42 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. ZINC001095214804.mol2 42 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 22.559 kcal (2) G-P(sol) polarization free energy of solvation -80.926 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -58.367 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.000 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.926 kcal (6) G-S(sol) free energy of system = (1) + (5) -56.367 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.62 seconds