Wall clock time and date at job start Tue Mar 31 2020 06:34:48 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 C 2 2 C 1.53001 * 1 3 3 H 1.08990 * 108.14396 * 2 1 4 4 C 1.45396 * 108.24554 * 117.06459 * 2 1 3 5 5 C 1.55291 * 109.84898 * 184.97664 * 4 2 1 6 6 S 1.79391 * 109.72558 * 288.76604 * 5 4 2 7 7 C 1.82423 * 106.81219 * 86.89265 * 6 5 4 8 8 C 1.54645 * 110.53843 * 319.26139 * 7 6 5 9 9 N 1.45421 * 108.32607 * 321.33220 * 8 7 6 10 10 C 1.46903 * 110.73493 * 228.07037 * 9 8 7 11 11 C 1.50697 * 109.47649 * 53.20303 * 10 9 8 12 12 C 1.38631 * 119.75104 * 269.72666 * 11 10 9 13 13 C 1.37618 * 120.25176 * 179.76362 * 12 11 10 14 14 C 1.40716 * 119.74222 * 0.48244 * 13 12 11 15 15 C 1.41394 * 120.24590 * 179.79219 * 14 13 12 16 16 H 1.07998 * 120.00234 * 204.37013 * 15 14 13 17 17 C 1.39952 * 119.99593 * 24.37260 * 15 14 13 18 18 N 1.30823 * 120.00109 * 17.87410 * 17 15 14 19 19 Si 1.86799 * 119.99823 * 197.86938 * 17 15 14 20 20 H 1.48495 * 109.47169 * 90.00106 * 19 17 15 21 21 H 1.48503 * 109.47255 * 210.00442 * 19 17 15 22 22 H 1.48504 * 109.47096 * 329.99914 * 19 17 15 23 23 C 1.40718 * 119.51068 * 359.76549 * 14 13 12 24 24 C 1.37616 * 119.74632 * 0.02562 * 23 14 13 25 25 H 1.09003 * 109.46970 * 300.00104 * 1 2 3 26 26 H 1.08996 * 109.47425 * 59.99422 * 1 2 3 27 27 H 1.09001 * 109.47467 * 180.02562 * 1 2 3 28 28 H 1.08996 * 109.40887 * 305.09518 * 4 2 1 29 29 H 1.09005 * 109.40621 * 64.94138 * 4 2 1 30 30 H 1.09002 * 109.42763 * 48.84909 * 5 4 2 31 31 H 1.08997 * 109.42656 * 168.73649 * 5 4 2 32 32 H 1.09004 * 109.25924 * 79.52827 * 7 6 5 33 33 H 1.08990 * 109.26288 * 198.98810 * 7 6 5 34 34 H 1.08999 * 109.64083 * 80.95745 * 8 7 6 35 35 H 1.08996 * 109.63514 * 201.36410 * 8 7 6 36 36 H 1.08999 * 109.46801 * 173.20335 * 10 9 8 37 37 H 1.08999 * 109.47288 * 293.19800 * 10 9 8 38 38 H 1.08002 * 119.87146 * 359.97438 * 12 11 10 39 39 H 1.07997 * 120.13104 * 180.28079 * 13 12 11 40 40 H 0.97001 * 119.99756 * 179.97438 * 18 17 15 41 41 H 1.07999 * 120.12735 * 180.02562 * 23 14 13 42 42 H 1.08002 * 119.87732 * 179.97438 * 24 23 14 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 1 1.8694 1.0357 0.0000 4 6 1.9852 -0.6283 1.2296 5 6 3.5323 -0.5360 1.3275 6 16 4.2818 -1.6375 0.1262 7 6 4.4142 -0.7036 -1.4353 8 6 3.1414 0.1425 -1.6710 9 7 1.9897 -0.6346 -1.2417 10 6 0.9364 -0.6125 -2.2655 11 6 1.5135 -1.0427 -3.5894 12 6 2.0427 -0.0936 -4.4502 13 6 2.5767 -0.4756 -5.6597 14 6 2.5750 -1.8344 -6.0256 15 6 3.1169 -2.2382 -7.2676 16 1 2.7866 -3.1578 -7.7275 17 6 4.0815 -1.4462 -7.9008 18 7 4.7356 -0.5416 -7.2186 19 14 4.4350 -1.6808 -9.7199 20 1 3.5458 -0.7963 -10.5151 21 1 5.8526 -1.3361 -9.9972 22 1 4.1876 -3.0965 -10.0937 23 6 2.0305 -2.7884 -5.1461 24 6 1.5057 -2.3840 -3.9399 25 1 -0.3633 0.5139 0.8900 26 1 -0.3634 0.5139 -0.8899 27 1 -0.3634 -1.0277 0.0005 28 1 1.5373 -0.1200 2.0835 29 1 1.6851 -1.6762 1.2336 30 1 3.8478 0.4879 1.1271 31 1 3.8499 -0.8236 2.3297 32 1 5.2807 -0.0440 -1.3874 33 1 4.5399 -1.4021 -2.2624 34 1 3.2002 1.0626 -1.0895 35 1 3.0530 0.3838 -2.7302 36 1 0.1366 -1.2952 -1.9787 37 1 0.5372 0.3979 -2.3543 38 1 2.0389 0.9492 -4.1691 39 1 2.9926 0.2649 -6.3268 40 1 5.4044 0.0071 -7.6575 41 1 2.0243 -3.8339 -5.4167 42 1 1.0869 -3.1144 -3.2635 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) 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 ZINC000335073612.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 06:34:48 Heat of formation + Delta-G solvation = 23.831686 kcal Electronic energy + Delta-G solvation = -21570.867948 eV Core-core repulsion = 18641.498278 eV Total energy + Delta-G solvation = -2929.369670 eV No. of doubly occupied orbitals = 52 Molecular weight (most abundant/longest-lived isotopes) = 291.135 amu Computer time = 4.92 seconds Orbital eigenvalues (eV) -40.82165 -39.03672 -35.88616 -34.64319 -32.88168 -31.72739 -31.12443 -29.50621 -28.01086 -25.83066 -24.42005 -23.50716 -22.49038 -21.75859 -20.75385 -19.21804 -17.49661 -17.30800 -17.04773 -16.43524 -16.15404 -15.77404 -15.49967 -15.23360 -15.11380 -14.41239 -14.27932 -14.04144 -13.82639 -13.69914 -13.53864 -13.28301 -12.86091 -12.75008 -12.64790 -12.62458 -12.40950 -12.29781 -12.08166 -11.94957 -11.74104 -11.37457 -11.31214 -11.20295 -10.99395 -10.48932 -9.34725 -9.30422 -9.13239 -8.63563 -8.27851 -6.32378 0.91754 0.94379 1.16764 1.36984 1.49627 1.50355 1.93987 2.20255 2.66534 3.14361 3.65540 3.79101 3.94979 4.02528 4.09520 4.19932 4.29791 4.37886 4.44668 4.47318 4.52539 4.63790 4.68252 4.78331 4.81338 4.85136 4.91169 4.95707 5.00305 5.04496 5.14082 5.17735 5.31114 5.39308 5.42465 5.49225 5.71584 5.96028 6.10854 6.12740 6.29912 6.31344 6.41769 6.71295 6.95809 7.05281 8.32935 Molecular weight = 291.14amu Principal moments of inertia in cm(-1) A = 0.025178 B = 0.004244 C = 0.003948 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1111.814726 B = 6595.694438 C = 7091.230880 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.163 4.163 2 C 0.059 3.941 3 H 0.048 0.952 4 C -0.097 4.097 5 C -0.080 4.080 6 S -0.279 6.279 7 C -0.058 4.058 8 C 0.025 3.975 9 N -0.497 5.497 10 C 0.120 3.880 11 C -0.196 4.196 12 C -0.094 4.094 13 C -0.188 4.188 14 C 0.082 3.918 15 C -0.504 4.504 16 H 0.071 0.929 17 C 0.038 3.962 18 N -0.824 5.824 19 Si 0.979 3.021 20 H -0.261 1.261 21 H -0.268 1.268 22 H -0.261 1.261 23 C -0.245 4.245 24 C -0.070 4.070 25 H 0.077 0.923 26 H 0.058 0.942 27 H 0.060 0.940 28 H 0.102 0.898 29 H 0.068 0.932 30 H 0.081 0.919 31 H 0.117 0.883 32 H 0.081 0.919 33 H 0.068 0.932 34 H 0.063 0.937 35 H 0.079 0.921 36 H 0.082 0.918 37 H 0.041 0.959 38 H 0.104 0.896 39 H 0.099 0.901 40 H 0.287 0.713 41 H 0.089 0.911 42 H 0.108 0.892 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -4.213 5.033 14.088 15.542 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 C -0.220 4.220 2 C -0.048 4.048 3 H 0.065 0.935 4 C -0.137 4.137 5 C -0.228 4.228 6 S -0.053 6.053 7 C -0.207 4.207 8 C -0.106 4.106 9 N -0.220 5.220 10 C -0.006 4.006 11 C -0.198 4.198 12 C -0.112 4.112 13 C -0.207 4.207 14 C 0.080 3.920 15 C -0.533 4.533 16 H 0.089 0.911 17 C -0.177 4.177 18 N -0.450 5.450 19 Si 0.800 3.200 20 H -0.186 1.186 21 H -0.192 1.192 22 H -0.184 1.184 23 C -0.265 4.265 24 C -0.089 4.089 25 H 0.095 0.905 26 H 0.077 0.923 27 H 0.079 0.921 28 H 0.120 0.880 29 H 0.087 0.913 30 H 0.100 0.900 31 H 0.135 0.865 32 H 0.100 0.900 33 H 0.086 0.914 34 H 0.081 0.919 35 H 0.097 0.903 36 H 0.100 0.900 37 H 0.059 0.941 38 H 0.122 0.878 39 H 0.117 0.883 40 H 0.098 0.902 41 H 0.107 0.893 42 H 0.126 0.874 Dipole moment (debyes) X Y Z Total from point charges -3.578 3.664 14.354 15.241 hybrid contribution -0.017 1.764 -1.618 2.394 sum -3.595 5.428 12.736 14.304 Atomic orbital electron populations 1.22310 0.94113 1.02724 1.02880 1.20734 0.96495 0.96257 0.91359 0.93458 1.20830 0.93281 1.02575 0.97006 1.23585 0.98689 1.00835 0.99709 1.86003 1.80488 1.30404 1.08384 1.23820 1.00077 1.00782 0.96001 1.22902 0.90945 0.94018 1.02695 1.63514 1.05766 1.49501 1.03263 1.20981 0.93115 0.98985 0.87531 1.19309 1.09982 0.93074 0.97399 1.20673 0.98719 0.97529 0.94308 1.21218 1.05580 0.95890 0.98027 1.17921 0.89566 0.92089 0.92461 1.19833 1.20919 1.07788 1.04807 0.91110 1.26688 0.93580 0.93159 1.04259 1.69872 1.17996 1.18246 1.38875 0.85254 0.78249 0.79875 0.76643 1.18607 1.19209 1.18442 1.21145 1.11097 0.97473 0.96765 1.20599 0.98017 0.95334 0.94925 0.90457 0.92292 0.92094 0.88034 0.91287 0.90018 0.86514 0.90037 0.91367 0.91865 0.90319 0.90013 0.94095 0.87841 0.88328 0.90237 0.89253 0.87420 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 C -0.16 -3.07 7.82 71.98 0.56 -2.50 16 2 C 0.06 1.31 2.09 42.61 0.09 1.40 16 3 H 0.05 1.01 6.47 -2.39 -0.02 0.99 16 4 C -0.10 -1.86 4.91 29.06 0.14 -1.71 16 5 C -0.08 -1.65 5.97 72.77 0.43 -1.21 16 6 S -0.28 -8.35 21.11 -56.49 -1.19 -9.54 16 7 C -0.06 -1.91 6.84 72.54 0.50 -1.41 16 8 C 0.02 0.77 5.04 87.14 0.44 1.21 16 9 N -0.50 -14.65 4.00 -889.99 -3.56 -18.20 16 10 C 0.12 3.80 3.90 85.56 0.33 4.13 16 11 C -0.20 -8.00 4.74 -19.68 -0.09 -8.09 16 12 C -0.09 -4.15 7.62 22.22 0.17 -3.98 16 13 C -0.19 -9.79 8.70 22.73 0.20 -9.59 16 14 C 0.08 4.49 5.58 -21.29 -0.12 4.37 16 15 C -0.50 -27.84 9.05 23.46 0.21 -27.63 16 16 H 0.07 3.82 7.91 -2.91 -0.02 3.80 16 17 C 0.04 1.94 5.14 85.26 0.44 2.38 16 18 N -0.82 -43.43 10.95 21.83 0.24 -43.19 16 19 Si 0.98 38.88 29.60 68.60 2.03 40.91 16 20 H -0.26 -10.02 7.11 99.48 0.71 -9.32 16 21 H -0.27 -10.07 7.11 99.48 0.71 -9.36 16 22 H -0.26 -10.17 7.11 99.48 0.71 -9.46 16 23 C -0.25 -12.39 9.80 22.73 0.22 -12.17 16 24 C -0.07 -3.11 9.67 22.22 0.21 -2.90 16 25 H 0.08 1.10 8.07 -2.39 -0.02 1.08 16 26 H 0.06 1.18 5.88 -2.39 -0.01 1.17 16 27 H 0.06 1.22 7.59 -2.39 -0.02 1.20 16 28 H 0.10 1.35 8.04 -2.39 -0.02 1.33 16 29 H 0.07 1.54 8.12 -2.38 -0.02 1.52 16 30 H 0.08 1.58 7.97 -2.48 -0.02 1.56 16 31 H 0.12 1.97 8.14 -2.49 -0.02 1.95 16 32 H 0.08 2.43 8.14 -2.39 -0.02 2.41 16 33 H 0.07 2.76 8.14 -2.39 -0.02 2.74 16 34 H 0.06 1.67 6.41 -2.39 -0.02 1.66 16 35 H 0.08 2.84 3.88 -2.39 -0.01 2.84 16 36 H 0.08 2.44 6.91 -2.39 -0.02 2.42 16 37 H 0.04 1.20 6.62 -2.39 -0.02 1.18 16 38 H 0.10 4.08 7.41 -2.91 -0.02 4.06 16 39 H 0.10 5.42 6.15 -2.91 -0.02 5.40 16 40 H 0.29 13.68 8.30 -92.71 -0.77 12.91 16 41 H 0.09 4.38 8.06 -2.91 -0.02 4.36 16 42 H 0.11 4.30 8.06 -2.91 -0.02 4.28 16 Total: -1.00 -59.29 330.10 2.26 -57.03 By element: Atomic # 1 Polarization: 29.71 SS G_CDS: 1.00 Total: 30.71 kcal Atomic # 6 Polarization: -61.45 SS G_CDS: 3.74 Total: -57.71 kcal Atomic # 7 Polarization: -58.07 SS G_CDS: -3.32 Total: -61.39 kcal Atomic # 14 Polarization: 38.88 SS G_CDS: 2.03 Total: 40.91 kcal Atomic # 16 Polarization: -8.35 SS G_CDS: -1.19 Total: -9.54 kcal Total: -59.29 2.26 -57.03 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. ZINC000335073612.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 80.857 kcal (2) G-P(sol) polarization free energy of solvation -59.288 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 21.569 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.262 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -57.025 kcal (6) G-S(sol) free energy of system = (1) + (5) 23.832 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 4.93 seconds