Wall clock time and date at job start Tue Mar 31 2020 05:14:11 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 1.31636 * 1 3 3 Si 1.86797 * 119.99839 * 2 1 4 4 H 1.48500 * 109.47063 * 269.99785 * 3 2 1 5 5 H 1.48501 * 109.47398 * 30.00401 * 3 2 1 6 6 H 1.48503 * 109.46949 * 150.00271 * 3 2 1 7 7 C 1.38801 * 119.99918 * 180.02562 * 2 1 3 8 8 H 1.08000 * 119.99811 * 359.97438 * 7 2 1 9 9 S 1.76192 * 119.99985 * 180.02562 * 7 2 1 10 10 C 1.81006 * 100.00024 * 179.97438 * 9 7 2 11 11 C 1.52997 * 109.47197 * 179.97438 * 10 9 7 12 12 C 1.52992 * 109.47110 * 180.02562 * 11 10 9 13 13 N 1.46902 * 109.47320 * 179.97438 * 12 11 10 14 14 C 1.44683 * 111.00290 * 167.65129 * 13 12 11 15 15 C 1.50955 * 116.82969 * 199.51568 * 14 13 12 16 16 C 1.53767 * 110.79810 * 287.40520 * 15 14 13 17 17 C 1.51964 * 106.80646 * 78.83260 * 16 15 14 18 18 O 1.33765 * 127.47338 * 116.19545 * 17 16 15 19 19 C 1.34653 * 109.18833 * 180.21430 * 18 17 16 20 20 C 1.34893 * 108.46411 * 359.89641 * 19 18 17 21 21 C 1.34030 * 123.99830 * 296.22282 * 17 16 15 22 22 C 1.47555 * 110.99871 * 293.95282 * 13 12 11 23 23 H 0.96993 * 119.99712 * 359.97438 * 1 2 3 24 24 H 1.08999 * 109.46764 * 59.99566 * 10 9 7 25 25 H 1.09003 * 109.46962 * 299.99907 * 10 9 7 26 26 H 1.08998 * 109.47150 * 59.99469 * 11 10 9 27 27 H 1.09003 * 109.47134 * 299.99857 * 11 10 9 28 28 H 1.09001 * 109.47564 * 60.00212 * 12 11 10 29 29 H 1.08994 * 109.47146 * 299.99787 * 12 11 10 30 30 H 1.09004 * 107.99772 * 77.65143 * 14 13 12 31 31 H 1.09001 * 107.96891 * 321.35953 * 14 13 12 32 32 H 1.09004 * 109.21010 * 167.06411 * 15 14 13 33 33 H 1.08993 * 109.21010 * 47.74826 * 15 14 13 34 34 H 1.09006 * 109.98099 * 198.15344 * 16 15 14 35 35 H 1.08997 * 109.98654 * 319.41400 * 16 15 14 36 36 H 1.08005 * 125.76649 * 179.85220 * 19 18 17 37 37 H 1.08002 * 126.79361 * 179.97438 * 20 19 18 38 38 H 1.09007 * 109.94217 * 34.47474 * 22 13 12 39 39 H 1.09001 * 110.01379 * 273.27018 * 22 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 1.3164 0.0000 0.0000 3 14 2.2503 1.6177 0.0000 4 1 2.4978 2.0464 -1.4001 5 1 1.4478 2.6527 0.7001 6 1 3.5479 1.4401 0.7000 7 6 2.0104 -1.2021 -0.0005 8 1 1.4703 -2.1373 -0.0005 9 16 3.7723 -1.2021 0.0001 10 6 4.0866 -2.9847 -0.0001 11 6 5.5957 -3.2364 -0.0002 12 6 5.8613 -4.7431 -0.0011 13 7 7.3103 -4.9849 -0.0019 14 6 7.6047 -6.3719 0.2862 15 6 9.0017 -6.6869 0.7637 16 6 10.0124 -6.5686 -0.3890 17 6 10.2943 -5.0870 -0.5758 18 8 11.4587 -4.4519 -0.4019 19 6 11.2915 -3.1417 -0.6635 20 6 10.0045 -2.9363 -1.0113 21 6 9.3725 -4.1906 -0.9541 22 6 7.9234 -4.5197 -1.2608 23 1 -0.4849 0.8400 0.0004 24 1 3.6439 -3.4314 -0.8904 25 1 3.6433 -3.4319 0.8896 26 1 6.0387 -2.7895 0.8897 27 1 6.0386 -2.7893 -0.8902 28 1 5.4184 -5.1897 -0.8914 29 1 5.4184 -5.1906 0.8885 30 1 7.4203 -6.9504 -0.6191 31 1 6.9038 -6.7133 1.0480 32 1 9.0252 -7.7027 1.1586 33 1 9.2762 -5.9890 1.5546 34 1 10.9327 -7.0935 -0.1328 35 1 9.5873 -6.9863 -1.3016 36 1 12.0582 -2.3832 -0.6041 37 1 9.5495 -1.9944 -1.2804 38 1 7.4074 -3.6286 -1.6185 39 1 7.8720 -5.3062 -2.0137 RHF calculation, no. of doubly occupied orbitals= 50 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 ZINC000288674626.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 05:14:11 Heat of formation + Delta-G solvation = -12.540874 kcal Electronic energy + Delta-G solvation = -19393.612275 eV Core-core repulsion = 16427.746939 eV Total energy + Delta-G solvation = -2965.865335 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 281.119 amu Computer time = 0.43 seconds Orbital eigenvalues (eV) -43.55579 -39.54413 -35.86819 -34.68802 -34.28017 -33.22598 -30.91297 -28.16149 -27.70849 -26.65211 -25.10901 -22.49894 -22.21101 -21.52674 -20.29009 -19.60733 -18.21888 -17.15364 -17.05451 -16.73726 -16.47905 -16.01835 -15.92787 -15.42580 -15.08719 -14.90475 -14.49021 -14.13993 -13.80637 -13.70631 -13.55522 -13.43641 -13.09233 -12.91950 -12.58481 -12.55404 -12.34328 -12.12415 -11.97790 -11.78749 -11.58963 -11.45373 -11.16345 -10.59591 -10.55803 -9.21720 -9.16529 -8.99142 -8.52369 -6.23404 0.88040 1.12421 1.31459 1.47751 1.68389 1.76058 2.15206 2.24673 2.68707 2.85741 2.96617 3.76588 3.88631 3.90153 4.01299 4.05368 4.12398 4.23412 4.32815 4.38157 4.48028 4.52727 4.56338 4.66832 4.74664 4.78216 4.82248 4.89831 4.98991 5.03896 5.17056 5.19684 5.27595 5.31724 5.41721 5.66936 5.69535 6.08524 6.09719 6.27952 6.30903 6.91976 8.60827 Molecular weight = 281.12amu Principal moments of inertia in cm(-1) A = 0.028036 B = 0.003425 C = 0.003111 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 998.469185 B = 8172.960237 C = 8998.430662 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.923 5.923 2 C 0.038 3.962 3 Si 0.925 3.075 4 H -0.261 1.261 5 H -0.262 1.262 6 H -0.230 1.230 7 C -0.522 4.522 8 H 0.051 0.949 9 S -0.223 6.223 10 C -0.068 4.068 11 C -0.084 4.084 12 C 0.075 3.925 13 N -0.555 5.555 14 C 0.057 3.943 15 C -0.106 4.106 16 C -0.033 4.033 17 C -0.023 4.023 18 O -0.186 6.186 19 C -0.052 4.052 20 C -0.217 4.217 21 C -0.185 4.185 22 C 0.125 3.875 23 H 0.277 0.723 24 H 0.066 0.934 25 H 0.067 0.933 26 H 0.066 0.934 27 H 0.067 0.933 28 H 0.042 0.958 29 H 0.083 0.917 30 H 0.036 0.964 31 H 0.076 0.924 32 H 0.107 0.893 33 H 0.056 0.944 34 H 0.097 0.903 35 H 0.099 0.901 36 H 0.233 0.767 37 H 0.151 0.849 38 H 0.079 0.921 39 H 0.056 0.944 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 23.769 -13.495 -1.352 27.366 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 -0.561 5.561 2 C -0.167 4.167 3 Si 0.746 3.254 4 H -0.186 1.186 5 H -0.187 1.187 6 H -0.154 1.154 7 C -0.669 4.669 8 H 0.069 0.931 9 S 0.005 5.995 10 C -0.217 4.217 11 C -0.123 4.123 12 C -0.054 4.054 13 N -0.279 5.279 14 C -0.070 4.070 15 C -0.144 4.144 16 C -0.070 4.070 17 C -0.074 4.074 18 O -0.083 6.083 19 C -0.118 4.118 20 C -0.237 4.237 21 C -0.186 4.186 22 C -0.002 4.002 23 H 0.086 0.914 24 H 0.085 0.915 25 H 0.085 0.915 26 H 0.085 0.915 27 H 0.085 0.915 28 H 0.060 0.940 29 H 0.101 0.899 30 H 0.054 0.946 31 H 0.095 0.905 32 H 0.125 0.875 33 H 0.075 0.925 34 H 0.116 0.884 35 H 0.118 0.882 36 H 0.249 0.751 37 H 0.169 0.831 38 H 0.098 0.902 39 H 0.074 0.926 Dipole moment (debyes) X Y Z Total from point charges 24.753 -12.423 -0.887 27.710 hybrid contribution -1.883 -0.264 -0.715 2.031 sum 22.870 -12.688 -1.601 26.203 Atomic orbital electron populations 1.70039 1.07636 1.29109 1.49320 1.25774 0.95406 1.02737 0.92750 0.85716 0.80736 0.78680 0.80234 1.18555 1.18690 1.15375 1.22347 0.90085 0.96259 1.58236 0.93092 1.83893 1.07509 1.10499 1.97567 1.23069 1.00122 0.94934 1.03581 1.21231 0.91458 0.96672 1.02899 1.21971 0.86861 0.94889 1.01633 1.60477 1.10894 1.21889 1.34685 1.21261 0.98176 0.86826 1.00785 1.21369 0.92758 1.03147 0.97100 1.20761 1.00906 0.84837 1.00540 1.22871 0.82993 0.97149 1.04376 1.83949 1.34351 1.21000 1.68989 1.24711 0.99265 0.83005 1.04863 1.21822 0.95024 0.99082 1.07742 1.20246 0.96853 0.93571 1.07970 1.20827 0.89498 1.00211 0.89646 0.91392 0.91541 0.91451 0.91522 0.91478 0.94014 0.89878 0.94582 0.90539 0.87481 0.92505 0.88418 0.88242 0.75073 0.83093 0.90246 0.92556 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 -0.92 -57.29 13.97 21.65 0.30 -56.99 16 2 C 0.04 2.25 5.50 84.86 0.47 2.72 16 3 Si 0.93 44.63 27.74 68.60 1.90 46.54 16 4 H -0.26 -12.18 7.11 99.48 0.71 -11.48 16 5 H -0.26 -11.96 7.11 99.48 0.71 -11.25 16 6 H -0.23 -10.77 6.74 99.48 0.67 -10.10 16 7 C -0.52 -31.12 10.04 67.95 0.68 -30.44 16 8 H 0.05 3.29 8.03 -2.91 -0.02 3.27 16 9 S -0.22 -10.88 19.41 -56.49 -1.10 -11.98 16 10 C -0.07 -2.61 5.67 71.98 0.41 -2.20 16 11 C -0.08 -2.53 5.20 30.59 0.16 -2.37 16 12 C 0.08 1.81 4.93 86.30 0.43 2.24 16 13 N -0.55 -12.48 4.33 -906.93 -3.93 -16.41 16 14 C 0.06 0.98 4.84 86.05 0.42 1.39 16 15 C -0.11 -1.50 5.77 30.19 0.17 -1.33 16 16 C -0.03 -0.48 6.03 30.51 0.18 -0.29 16 17 C -0.02 -0.49 6.54 25.13 0.16 -0.33 16 18 O -0.19 -4.14 10.66 -0.86 -0.01 -4.15 16 19 C -0.05 -1.00 12.10 67.05 0.81 -0.19 16 20 C -0.22 -4.93 10.91 22.07 0.24 -4.69 16 21 C -0.18 -4.35 5.64 -19.92 -0.11 -4.47 16 22 C 0.13 2.82 5.48 85.76 0.47 3.29 16 23 H 0.28 15.81 8.31 -92.71 -0.77 15.04 16 24 H 0.07 2.54 8.14 -2.40 -0.02 2.52 16 25 H 0.07 2.59 8.14 -2.39 -0.02 2.57 16 26 H 0.07 2.15 8.14 -2.39 -0.02 2.13 16 27 H 0.07 2.04 6.25 -2.39 -0.01 2.02 16 28 H 0.04 0.95 8.12 -2.39 -0.02 0.93 16 29 H 0.08 1.89 7.68 -2.39 -0.02 1.87 16 30 H 0.04 0.55 7.54 -2.38 -0.02 0.53 16 31 H 0.08 1.21 7.53 -2.39 -0.02 1.19 16 32 H 0.11 0.93 8.14 -2.38 -0.02 0.91 16 33 H 0.06 1.05 7.92 -2.39 -0.02 1.03 16 34 H 0.10 1.07 8.14 -2.38 -0.02 1.05 16 35 H 0.10 1.20 7.88 -2.39 -0.02 1.18 16 36 H 0.23 2.53 8.06 -2.91 -0.02 2.50 16 37 H 0.15 3.19 8.06 -2.91 -0.02 3.17 16 38 H 0.08 1.94 5.88 -2.38 -0.01 1.92 16 39 H 0.06 1.14 7.76 -2.39 -0.02 1.12 16 Total: -1.00 -70.17 325.45 2.65 -67.52 By element: Atomic # 1 Polarization: 11.16 SS G_CDS: 0.99 Total: 12.14 kcal Atomic # 6 Polarization: -41.16 SS G_CDS: 4.49 Total: -36.67 kcal Atomic # 7 Polarization: -69.78 SS G_CDS: -3.63 Total: -73.40 kcal Atomic # 8 Polarization: -4.14 SS G_CDS: -0.01 Total: -4.15 kcal Atomic # 14 Polarization: 44.63 SS G_CDS: 1.90 Total: 46.54 kcal Atomic # 16 Polarization: -10.88 SS G_CDS: -1.10 Total: -11.98 kcal Total: -70.17 2.65 -67.52 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. ZINC000288674626.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 54.976 kcal (2) G-P(sol) polarization free energy of solvation -70.166 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -15.190 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.649 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.517 kcal (6) G-S(sol) free energy of system = (1) + (5) -12.541 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.43 seconds