Wall clock time and date at job start Wed Apr 1 2020 05:42:11 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 1.31513 * 1 3 3 Si 1.86802 * 119.99860 * 2 1 4 4 H 1.48500 * 109.47359 * 239.99997 * 3 2 1 5 5 H 1.48503 * 109.47385 * 0.02562 * 3 2 1 6 6 H 1.48501 * 109.47117 * 120.00218 * 3 2 1 7 7 C 1.37879 * 120.00372 * 180.02562 * 2 1 3 8 8 H 1.07995 * 119.99941 * 180.02562 * 7 2 1 9 9 C 1.50696 * 119.99642 * 359.97438 * 7 2 1 10 10 C 1.52998 * 109.47162 * 179.97438 * 9 7 2 11 11 S 1.80999 * 109.47571 * 180.02562 * 10 9 7 12 12 C 1.76196 * 100.00313 * 180.02562 * 11 10 9 13 13 N 1.31026 * 118.46505 * 0.02562 * 12 11 10 14 14 C 1.34811 * 121.60821 * 179.97438 * 13 12 11 15 15 C 1.39818 * 121.61651 * 180.02562 * 14 13 12 16 16 C 1.36636 * 119.66255 * 179.97438 * 15 14 13 17 17 C 1.38905 * 120.97295 * 359.97438 * 16 15 14 18 18 C 1.36759 * 120.73022 * 359.97438 * 17 16 15 19 19 C 1.39412 * 119.51224 * 0.02562 * 18 17 16 20 20 C 1.46920 * 121.88448 * 180.02562 * 19 18 17 21 21 O 1.21722 * 121.25248 * 359.94474 * 20 19 18 22 22 N 1.35347 * 117.49230 * 179.97438 * 20 19 18 23 23 C 1.46499 * 119.77032 * 179.97438 * 22 20 19 24 24 C 1.53003 * 109.47015 * 270.02124 * 23 22 20 25 25 C 1.50699 * 109.47292 * 180.02562 * 24 23 22 26 26 O 1.20825 * 119.99849 * 0.02562 * 25 24 23 27 27 O 1.34227 * 120.00349 * 179.97438 * 25 24 23 28 28 H 0.96999 * 120.00054 * 359.97438 * 1 2 3 29 29 H 1.09005 * 109.46953 * 60.00031 * 9 7 2 30 30 H 1.09001 * 109.47158 * 300.00051 * 9 7 2 31 31 H 1.09005 * 109.47007 * 60.00253 * 10 9 7 32 32 H 1.08993 * 109.47431 * 300.00439 * 10 9 7 33 33 H 1.07993 * 120.17146 * 359.97438 * 15 14 13 34 34 H 1.08001 * 119.51149 * 180.28156 * 16 15 14 35 35 H 1.08001 * 119.62882 * 180.02562 * 17 16 15 36 36 H 1.08003 * 120.24267 * 180.02562 * 18 17 16 37 37 H 1.09001 * 109.47620 * 30.01523 * 23 22 20 38 38 H 1.08996 * 109.47284 * 150.02475 * 23 22 20 39 39 H 1.09006 * 109.46871 * 300.00290 * 24 23 22 40 40 H 1.09001 * 109.47243 * 59.99893 * 24 23 22 41 41 H 0.96696 * 117.00543 * 180.02562 * 27 25 24 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 1.6178 0.0000 4 1 3.1029 1.6965 -1.2125 5 1 1.2841 2.7465 0.0006 6 1 3.1029 1.6964 1.2125 7 6 2.0046 -1.1940 -0.0005 8 1 3.0846 -1.1939 -0.0001 9 6 1.2511 -2.4991 -0.0005 10 6 2.2453 -3.6620 -0.0018 11 16 1.3405 -5.2296 -0.0026 12 6 2.6902 -6.3621 -0.0032 13 7 3.9090 -5.8811 -0.0025 14 6 4.9877 -6.6897 -0.0024 15 6 6.2883 -6.1767 -0.0012 16 6 7.3531 -7.0330 -0.0006 17 6 7.1637 -8.4091 -0.0008 18 6 5.9038 -8.9411 -0.0009 19 6 4.7992 -8.0906 -0.0015 20 6 3.4232 -8.6056 -0.0012 21 8 3.1965 -9.8016 -0.0014 22 7 2.4171 -7.7002 -0.0013 23 6 1.0258 -8.1588 -0.0015 24 6 0.5418 -8.3189 -1.4442 25 6 -0.8896 -8.7900 -1.4445 26 8 -1.4639 -8.9781 -0.3983 27 8 -1.5269 -8.9999 -2.6071 28 1 -0.4850 0.8400 0.0004 29 1 0.6241 -2.5566 -0.8903 30 1 0.6248 -2.5570 0.8897 31 1 2.8727 -3.6047 0.8878 32 1 2.8714 -3.6039 -0.8922 33 1 6.4506 -5.1090 -0.0006 34 1 8.3567 -6.6341 0.0050 35 1 8.0209 -9.0660 0.0001 36 1 5.7656 -10.0123 -0.0006 37 1 0.9591 -9.1177 0.5124 38 1 0.4020 -7.4272 0.5118 39 1 0.6085 -7.3600 -1.9582 40 1 1.1657 -9.0505 -1.9577 41 1 -2.4443 -9.3014 -2.5567 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC001601067079.mol2 41 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 05:42:11 Heat of formation + Delta-G solvation = -104.815673 kcal Electronic energy + Delta-G solvation = -27239.530871 eV Core-core repulsion = 23209.506962 eV Total energy + Delta-G solvation = -4030.023909 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 348.098 amu Computer time = 0.70 seconds Orbital eigenvalues (eV) -42.79711 -41.31552 -39.74670 -38.69223 -37.26861 -36.14929 -35.69637 -33.02859 -32.90202 -32.03960 -31.14730 -27.37369 -27.08464 -26.23306 -24.61504 -23.38779 -22.83169 -22.23400 -20.18932 -20.03162 -19.43013 -18.64989 -18.58414 -17.76026 -17.33924 -17.14573 -17.03549 -16.51239 -16.36878 -15.99379 -15.64750 -15.61911 -15.27422 -14.94805 -14.86603 -14.65686 -14.59623 -14.08197 -13.89340 -13.66754 -13.25808 -12.98808 -12.87385 -12.79247 -12.64677 -12.57585 -12.52295 -12.16751 -11.95685 -11.83782 -11.69849 -11.38117 -11.25962 -11.13312 -11.06866 -10.56119 -10.23416 -9.80703 -8.69696 -8.20267 -6.31749 -0.70701 -0.26411 -0.14113 0.94647 0.99574 1.08623 1.23179 1.46045 1.47415 1.55490 1.60285 2.11610 2.44093 2.88173 2.96472 3.14518 3.20751 3.38164 3.58963 3.71196 3.99721 4.06749 4.22822 4.28756 4.29932 4.31892 4.37557 4.40648 4.42685 4.57773 4.80654 4.89528 4.95353 5.07589 5.14384 5.41356 5.42104 5.44230 5.50019 5.52722 5.76753 5.79563 6.14860 6.37732 6.55028 6.81247 6.90217 7.37474 8.90989 Molecular weight = 348.10amu Principal moments of inertia in cm(-1) A = 0.007771 B = 0.003638 C = 0.002544 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 3602.289793 B = 7695.568403 C =11001.555453 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.929 5.929 2 C 0.007 3.993 3 Si 0.965 3.035 4 H -0.266 1.266 5 H -0.285 1.285 6 H -0.267 1.267 7 C -0.537 4.537 8 H 0.067 0.933 9 C 0.040 3.960 10 C -0.067 4.067 11 S -0.005 6.005 12 C 0.364 3.636 13 N -0.538 5.538 14 C 0.148 3.852 15 C -0.125 4.125 16 C -0.057 4.057 17 C -0.131 4.131 18 C -0.049 4.049 19 C -0.227 4.227 20 C 0.550 3.450 21 O -0.533 6.533 22 N -0.525 5.525 23 C 0.102 3.898 24 C -0.129 4.129 25 C 0.501 3.499 26 O -0.542 6.542 27 O -0.507 6.507 28 H 0.265 0.735 29 H 0.008 0.992 30 H 0.006 0.994 31 H 0.087 0.913 32 H 0.090 0.910 33 H 0.144 0.856 34 H 0.170 0.830 35 H 0.168 0.832 36 H 0.141 0.859 37 H 0.109 0.891 38 H 0.111 0.889 39 H 0.126 0.874 40 H 0.122 0.878 41 H 0.433 0.567 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 9.483 -18.686 -3.532 21.250 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 -0.569 5.569 2 C -0.192 4.192 3 Si 0.789 3.211 4 H -0.191 1.191 5 H -0.211 1.211 6 H -0.192 1.192 7 C -0.577 4.577 8 H 0.085 0.915 9 C 0.001 3.999 10 C -0.215 4.215 11 S 0.232 5.768 12 C -0.009 4.009 13 N -0.264 5.264 14 C 0.034 3.966 15 C -0.145 4.145 16 C -0.076 4.076 17 C -0.150 4.150 18 C -0.069 4.069 19 C -0.234 4.234 20 C 0.344 3.656 21 O -0.410 6.410 22 N -0.249 5.249 23 C -0.021 4.021 24 C -0.168 4.168 25 C 0.344 3.656 26 O -0.433 6.433 27 O -0.321 6.321 28 H 0.074 0.926 29 H 0.027 0.973 30 H 0.024 0.976 31 H 0.105 0.895 32 H 0.109 0.891 33 H 0.161 0.839 34 H 0.188 0.812 35 H 0.185 0.815 36 H 0.159 0.841 37 H 0.128 0.872 38 H 0.129 0.871 39 H 0.144 0.856 40 H 0.140 0.860 41 H 0.295 0.705 Dipole moment (debyes) X Y Z Total from point charges 8.473 -18.641 -3.274 20.737 hybrid contribution 0.350 0.202 0.147 0.430 sum 8.823 -18.439 -3.127 20.679 Atomic orbital electron populations 1.70069 1.07724 1.28066 1.51035 1.25888 0.95695 1.03101 0.94478 0.85505 0.78265 0.78077 0.79257 1.19061 1.21060 1.19208 1.21443 0.93739 0.91099 1.51421 0.91520 1.18785 0.93660 0.91019 0.96482 1.23675 1.00702 0.90980 1.06166 1.85906 1.03812 0.98621 1.88422 1.25161 0.97961 0.85264 0.92543 1.69000 0.95976 1.35429 1.26018 1.19038 0.93551 0.88502 0.95487 1.20936 0.89278 1.01857 1.02447 1.21486 1.00090 0.93065 0.92926 1.21349 0.97104 0.95954 1.00588 1.20964 0.91335 1.00050 0.94519 1.20667 0.93289 0.94948 1.14531 1.18657 0.85532 0.85467 0.75953 1.90820 1.84889 1.14441 1.50887 1.46389 1.09635 1.05056 1.63844 1.21776 0.78567 1.04101 0.97612 1.21575 0.90613 1.06250 0.98330 1.22820 0.89022 0.72697 0.81109 1.90755 1.68742 1.49544 1.34258 1.84468 1.34179 1.79311 1.34188 0.92597 0.97345 0.97607 0.89452 0.89120 0.83870 0.81231 0.81461 0.84094 0.87227 0.87138 0.85618 0.86024 0.70476 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 -53.92 13.29 21.45 0.28 -53.64 16 2 C 0.01 0.40 5.46 84.66 0.46 0.86 16 3 Si 0.96 42.19 29.54 68.60 2.03 44.21 16 4 H -0.27 -11.14 7.11 99.48 0.71 -10.44 16 5 H -0.29 -12.31 7.11 99.48 0.71 -11.61 16 6 H -0.27 -11.26 7.11 99.48 0.71 -10.55 16 7 C -0.54 -28.65 9.11 25.60 0.23 -28.41 16 8 H 0.07 3.39 7.74 -2.91 -0.02 3.37 16 9 C 0.04 1.94 4.98 29.85 0.15 2.09 16 10 C -0.07 -2.59 4.72 71.98 0.34 -2.25 16 11 S 0.00 -0.15 19.82 -56.49 -1.12 -1.27 16 12 C 0.36 11.10 7.78 179.62 1.40 12.50 16 13 N -0.54 -17.14 8.95 -188.42 -1.69 -18.83 16 14 C 0.15 4.21 6.62 39.83 0.26 4.47 16 15 C -0.12 -2.78 9.99 22.28 0.22 -2.55 16 16 C -0.06 -0.86 9.95 22.05 0.22 -0.64 16 17 C -0.13 -1.94 9.97 22.08 0.22 -1.72 16 18 C -0.05 -1.04 9.63 22.21 0.21 -0.82 16 19 C -0.23 -6.23 5.89 -19.96 -0.12 -6.34 16 20 C 0.55 16.33 7.66 86.43 0.66 16.99 16 21 O -0.53 -17.08 16.31 -4.42 -0.07 -17.15 16 22 N -0.53 -14.75 2.62 -643.25 -1.69 -16.44 16 23 C 0.10 2.49 4.17 86.38 0.36 2.85 16 24 C -0.13 -2.64 6.13 29.85 0.18 -2.46 16 25 C 0.50 10.39 8.33 71.24 0.59 10.98 16 26 O -0.54 -14.44 16.74 21.97 0.37 -14.07 16 27 O -0.51 -7.74 13.42 -51.39 -0.69 -8.43 16 28 H 0.27 14.55 8.31 -92.71 -0.77 13.78 16 29 H 0.01 0.43 8.14 -2.38 -0.02 0.41 16 30 H 0.01 0.29 8.14 -2.39 -0.02 0.27 16 31 H 0.09 3.40 8.09 -2.39 -0.02 3.38 16 32 H 0.09 3.47 8.09 -2.40 -0.02 3.45 16 33 H 0.14 3.02 8.06 -2.91 -0.02 3.00 16 34 H 0.17 1.30 8.06 -2.91 -0.02 1.27 16 35 H 0.17 1.24 8.06 -2.91 -0.02 1.22 16 36 H 0.14 2.72 7.82 -2.91 -0.02 2.70 16 37 H 0.11 2.77 7.42 -2.39 -0.02 2.75 16 38 H 0.11 2.75 6.44 -2.39 -0.02 2.74 16 39 H 0.13 2.45 8.07 -2.38 -0.02 2.43 16 40 H 0.12 2.30 8.14 -2.39 -0.02 2.28 16 41 H 0.43 2.83 9.10 -74.06 -0.67 2.15 16 Total: -1.00 -70.70 372.09 3.24 -67.47 By element: Atomic # 1 Polarization: 12.19 SS G_CDS: 0.41 Total: 12.60 kcal Atomic # 6 Polarization: 0.14 SS G_CDS: 5.40 Total: 5.54 kcal Atomic # 7 Polarization: -85.81 SS G_CDS: -3.09 Total: -88.90 kcal Atomic # 8 Polarization: -39.26 SS G_CDS: -0.39 Total: -39.65 kcal Atomic # 14 Polarization: 42.19 SS G_CDS: 2.03 Total: 44.21 kcal Atomic # 16 Polarization: -0.15 SS G_CDS: -1.12 Total: -1.27 kcal Total: -70.70 3.24 -67.47 kcal The number of atoms in the molecule is 41 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. ZINC001601067079.mol2 41 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 -37.347 kcal (2) G-P(sol) polarization free energy of solvation -70.704 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -108.051 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.235 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.469 kcal (6) G-S(sol) free energy of system = (1) + (5) -104.816 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.70 seconds