Wall clock time and date at job start Tue Mar 31 2020 03:24:44 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 1.31512 * 1 3 3 Si 1.86799 * 120.00063 * 2 1 4 4 H 1.48503 * 109.47268 * 240.00007 * 3 2 1 5 5 H 1.48498 * 109.47426 * 0.02562 * 3 2 1 6 6 H 1.48505 * 109.46856 * 120.00493 * 3 2 1 7 7 C 1.37877 * 119.99755 * 180.02562 * 2 1 3 8 8 H 1.07999 * 119.99844 * 179.97438 * 7 2 1 9 9 S 1.76198 * 120.00226 * 359.97438 * 7 2 1 10 10 O 1.42098 * 106.40023 * 66.45967 * 9 7 2 11 11 O 1.42102 * 106.40105 * 293.54230 * 9 7 2 12 12 N 1.65594 * 107.21726 * 180.02562 * 9 7 2 13 13 C 1.40308 * 120.00244 * 65.00289 * 12 9 7 14 14 C 1.40619 * 120.08780 * 179.97438 * 13 12 9 15 15 C 1.36380 * 119.25250 * 179.97438 * 14 13 12 16 16 C 1.40475 * 119.40788 * 0.02562 * 15 14 13 17 17 O 1.22113 * 119.91634 * 180.02562 * 16 15 14 18 18 N 1.34629 * 120.15801 * 359.97438 * 16 15 14 19 19 C 1.46494 * 119.61755 * 180.02562 * 18 16 15 20 20 C 1.52995 * 109.47705 * 89.99393 * 19 18 16 21 21 C 1.52999 * 117.50117 * 243.62693 * 20 19 18 22 22 C 1.52996 * 117.50294 * 174.99969 * 20 19 18 23 23 C 1.35873 * 120.08563 * 359.97438 * 13 12 9 24 24 H 0.97002 * 119.99909 * 359.97438 * 1 2 3 25 25 H 0.96997 * 120.00181 * 244.99788 * 12 9 7 26 26 H 1.08002 * 120.37481 * 359.97438 * 14 13 12 27 27 H 1.08000 * 120.29344 * 180.27214 * 15 14 13 28 28 H 1.09000 * 109.47353 * 210.00042 * 19 18 16 29 29 H 1.09005 * 109.47232 * 329.99046 * 19 18 16 30 30 H 1.09006 * 115.54953 * 29.33582 * 20 19 18 31 31 H 1.08996 * 117.49639 * 359.97438 * 21 20 19 32 32 H 1.08998 * 117.50104 * 145.01814 * 21 20 19 33 33 H 1.08994 * 117.50392 * 214.98004 * 22 20 19 34 34 H 1.08999 * 117.50052 * 359.97438 * 22 20 19 35 35 H 1.08005 * 119.70986 * 0.02562 * 23 13 12 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 2.2491 1.6177 0.0000 4 1 3.1029 1.6964 -1.2125 5 1 1.2842 2.7465 0.0006 6 1 3.1030 1.6963 1.2125 7 6 2.0045 -1.1941 -0.0005 8 1 3.0844 -1.1941 -0.0010 9 16 1.1235 -2.7200 -0.0005 10 8 0.4509 -2.7950 -1.2500 11 8 0.4518 -2.7955 1.2494 12 7 2.2482 -3.9354 -0.0005 13 6 3.1016 -4.1015 1.1007 14 6 4.0570 -5.1333 1.1028 15 6 4.8781 -5.2790 2.1819 16 6 4.7528 -4.3971 3.2681 17 8 5.4835 -4.5188 4.2389 18 7 3.8297 -3.4174 3.2409 19 6 3.7096 -2.5040 4.3799 20 6 4.6275 -1.2988 4.1662 21 6 5.7732 -1.0982 5.1602 22 6 4.5592 -0.1676 5.1942 23 6 3.0070 -3.2659 2.1679 24 1 -0.4850 0.8401 0.0004 25 1 2.3171 -4.5325 -0.7618 26 1 4.1396 -5.8029 0.2594 27 1 5.6208 -6.0629 2.1995 28 1 2.6775 -2.1641 4.4658 29 1 3.9983 -3.0230 5.2940 30 1 4.8084 -1.0240 3.1270 31 1 5.8728 -1.8247 5.9666 32 1 6.7083 -0.6917 4.7750 33 1 4.6956 0.8511 4.8314 34 1 3.8600 -0.2819 6.0225 35 1 2.2722 -2.4743 2.1645 RHF calculation, no. of doubly occupied orbitals= 52 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 ZINC001193005556.mol2 35 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 03:24:44 Heat of formation + Delta-G solvation = -86.984703 kcal Electronic energy + Delta-G solvation = -22588.209120 eV Core-core repulsion = 19099.174460 eV Total energy + Delta-G solvation = -3489.034660 eV No. of doubly occupied orbitals = 52 Molecular weight (most abundant/longest-lived isotopes) = 298.082 amu Computer time = 0.87 seconds Orbital eigenvalues (eV) -42.36758 -38.72465 -38.37050 -37.49697 -36.29741 -36.14019 -35.21916 -34.07803 -29.79662 -28.45543 -28.27685 -25.11473 -23.69694 -23.24560 -21.79932 -21.15931 -19.86839 -19.24508 -18.58904 -17.78030 -17.52000 -16.89063 -16.81417 -16.77097 -16.03289 -15.95994 -15.47318 -15.04881 -14.91336 -14.39747 -14.08939 -13.87050 -13.75465 -13.50177 -13.28583 -13.02304 -12.96854 -12.61944 -12.60025 -12.39612 -12.35195 -12.26494 -11.78187 -11.36200 -11.25424 -11.02585 -10.99269 -10.88611 -10.70117 -8.82411 -8.49830 -7.52996 -0.18018 0.09746 0.87636 1.35080 1.35475 1.48622 1.61787 2.17897 2.55074 2.61742 2.76307 2.83504 3.54866 3.63654 3.68637 3.76644 3.89956 3.94685 4.02941 4.10449 4.23355 4.39157 4.49211 4.56360 4.61574 4.75870 4.86615 4.97257 5.06352 5.18423 5.21576 5.22417 5.32230 5.50854 5.85965 6.04586 6.26791 6.75230 7.01338 8.16828 Molecular weight = 298.08amu Principal moments of inertia in cm(-1) A = 0.013323 B = 0.007455 C = 0.005274 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2101.067944 B = 3755.062951 C = 5307.781760 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.886 5.886 2 C 0.083 3.917 3 Si 0.979 3.021 4 H -0.255 1.255 5 H -0.265 1.265 6 H -0.247 1.247 7 C -1.033 5.033 8 H 0.121 0.879 9 S 2.710 3.290 10 O -1.030 7.030 11 O -1.023 7.023 12 N -1.044 6.044 13 C 0.073 3.927 14 C -0.014 4.014 15 C -0.224 4.224 16 C 0.491 3.509 17 O -0.594 6.594 18 N -0.470 5.470 19 C 0.121 3.879 20 C -0.195 4.195 21 C -0.163 4.163 22 C -0.157 4.157 23 C 0.046 3.954 24 H 0.301 0.699 25 H 0.433 0.567 26 H 0.185 0.815 27 H 0.179 0.821 28 H 0.101 0.899 29 H 0.104 0.896 30 H 0.095 0.905 31 H 0.099 0.901 32 H 0.098 0.902 33 H 0.104 0.896 34 H 0.112 0.888 35 H 0.165 0.835 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 9.647 -3.271 4.725 11.229 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 -0.516 5.516 2 C -0.132 4.132 3 Si 0.798 3.202 4 H -0.179 1.179 5 H -0.189 1.189 6 H -0.170 1.170 7 C -1.167 5.167 8 H 0.139 0.861 9 S 2.811 3.189 10 O -1.020 7.020 11 O -1.012 7.012 12 N -0.793 5.793 13 C -0.027 4.027 14 C -0.038 4.038 15 C -0.246 4.246 16 C 0.294 3.706 17 O -0.482 6.482 18 N -0.181 5.181 19 C 0.000 4.000 20 C -0.214 4.214 21 C -0.200 4.200 22 C -0.195 4.195 23 C -0.085 4.085 24 H 0.111 0.889 25 H 0.270 0.730 26 H 0.202 0.798 27 H 0.197 0.803 28 H 0.119 0.881 29 H 0.122 0.878 30 H 0.113 0.887 31 H 0.117 0.883 32 H 0.117 0.883 33 H 0.123 0.877 34 H 0.130 0.870 35 H 0.182 0.818 Dipole moment (debyes) X Y Z Total from point charges 8.877 -3.301 5.445 10.925 hybrid contribution 0.320 0.901 -0.699 1.185 sum 9.197 -2.400 4.746 10.624 Atomic orbital electron populations 1.69953 1.08534 1.32585 1.40552 1.25796 0.95193 1.04695 0.87502 0.85303 0.78976 0.75124 0.80833 1.17877 1.18925 1.17046 1.30690 1.07060 1.11521 1.67397 0.86092 1.00454 0.72398 0.74040 0.71996 1.93349 1.74057 1.88050 1.46571 1.93344 1.73964 1.87814 1.46097 1.53327 1.51516 1.49486 1.24937 1.16739 0.97394 0.99815 0.88800 1.21601 0.89438 0.93577 0.99176 1.22230 1.05338 1.03500 0.93530 1.17604 0.80929 0.82055 0.89979 1.90895 1.45516 1.74807 1.36938 1.45117 1.29089 1.27675 1.16170 1.21666 1.01340 0.88785 0.88244 1.22548 1.03102 0.98356 0.97361 1.23044 0.93224 1.02704 1.00985 1.23076 1.00974 0.95100 1.00302 1.21933 0.97114 1.01497 0.87971 0.88879 0.73001 0.79810 0.80320 0.88067 0.87797 0.88717 0.88292 0.88309 0.87719 0.87018 0.81779 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 -0.89 -48.75 13.19 21.45 0.28 -48.47 16 2 C 0.08 4.22 5.46 84.65 0.46 4.68 16 3 Si 0.98 38.18 29.54 68.60 2.03 40.21 16 4 H -0.25 -9.54 7.11 99.48 0.71 -8.83 16 5 H -0.27 -9.81 7.11 99.48 0.71 -9.11 16 6 H -0.25 -8.97 7.11 99.48 0.71 -8.26 16 7 C -1.03 -51.34 8.38 67.73 0.57 -50.77 16 8 H 0.12 5.46 7.81 -2.91 -0.02 5.43 16 9 S 2.71 131.88 4.56 -56.49 -0.26 131.62 16 10 O -1.03 -56.70 18.02 -128.00 -2.31 -59.00 16 11 O -1.02 -54.50 15.66 -128.00 -2.00 -56.51 16 12 N -1.04 -36.66 5.90 -51.71 -0.31 -36.97 16 13 C 0.07 2.41 6.56 37.82 0.25 2.66 16 14 C -0.01 -0.33 9.96 22.42 0.22 -0.11 16 15 C -0.22 -5.85 9.98 22.38 0.22 -5.62 16 16 C 0.49 16.40 7.40 84.81 0.63 17.03 16 17 O -0.59 -22.54 16.63 -5.69 -0.09 -22.63 16 18 N -0.47 -15.81 2.59 -650.29 -1.69 -17.49 16 19 C 0.12 3.62 5.61 86.38 0.48 4.11 16 20 C -0.19 -5.50 6.01 -10.80 -0.06 -5.56 16 21 C -0.16 -3.88 10.18 30.59 0.31 -3.57 16 22 C -0.16 -3.52 10.25 30.59 0.31 -3.20 16 23 C 0.05 1.67 8.79 83.49 0.73 2.41 16 24 H 0.30 14.96 8.31 -92.71 -0.77 14.19 16 25 H 0.43 11.85 8.86 -96.75 -0.86 10.99 16 26 H 0.18 2.72 8.06 -2.91 -0.02 2.70 16 27 H 0.18 3.60 8.06 -2.91 -0.02 3.58 16 28 H 0.10 2.91 8.02 -2.39 -0.02 2.89 16 29 H 0.10 2.98 7.12 -2.38 -0.02 2.96 16 30 H 0.09 2.98 8.14 -2.38 -0.02 2.96 16 31 H 0.10 2.34 8.03 -2.39 -0.02 2.32 16 32 H 0.10 2.19 8.14 -2.39 -0.02 2.17 16 33 H 0.10 2.18 8.14 -2.39 -0.02 2.16 16 34 H 0.11 2.16 8.14 -2.39 -0.02 2.14 16 35 H 0.17 6.92 4.65 -2.91 -0.01 6.91 16 Total: -1.00 -72.06 317.48 0.06 -72.00 By element: Atomic # 1 Polarization: 34.92 SS G_CDS: 0.28 Total: 35.20 kcal Atomic # 6 Polarization: -42.09 SS G_CDS: 4.13 Total: -37.96 kcal Atomic # 7 Polarization: -101.22 SS G_CDS: -1.71 Total: -102.93 kcal Atomic # 8 Polarization: -133.74 SS G_CDS: -4.41 Total: -138.14 kcal Atomic # 14 Polarization: 38.18 SS G_CDS: 2.03 Total: 40.21 kcal Atomic # 16 Polarization: 131.88 SS G_CDS: -0.26 Total: 131.62 kcal Total: -72.06 0.06 -72.00 kcal The number of atoms in the molecule is 35 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. ZINC001193005556.mol2 35 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 -14.988 kcal (2) G-P(sol) polarization free energy of solvation -72.061 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -87.049 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.064 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -71.997 kcal (6) G-S(sol) free energy of system = (1) + (5) -86.985 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.87 seconds