Wall clock time and date at job start Tue Mar 31 2020 13:39:52 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 1.86804 * 119.99792 * 2 1 4 4 H 1.48507 * 109.47128 * 179.97438 * 3 2 1 5 5 H 1.48501 * 109.47154 * 299.99303 * 3 2 1 6 6 H 1.48499 * 109.47230 * 59.99896 * 3 2 1 7 7 C 1.37877 * 120.00129 * 179.97438 * 2 1 3 8 8 H 1.07998 * 119.99916 * 180.02562 * 7 2 1 9 9 C 1.50694 * 120.00109 * 0.02562 * 7 2 1 10 10 H 1.09006 * 109.52396 * 60.07795 * 9 7 2 11 11 C 1.53033 * 109.49944 * 180.16156 * 9 7 2 12 12 C 1.53042 * 109.53872 * 181.31639 * 11 9 7 13 13 C 1.53188 * 109.31498 * 298.63312 * 12 11 9 14 14 N 1.46930 * 108.77348 * 54.63648 * 13 12 11 15 15 C 1.34772 * 120.63433 * 126.36887 * 14 13 12 16 16 O 1.21571 * 120.00580 * 174.98149 * 15 14 13 17 17 N 1.34783 * 119.99704 * 354.98766 * 15 14 13 18 18 C 1.38374 * 119.99681 * 185.10751 * 17 15 14 19 19 N 1.30126 * 124.74063 * 359.69966 * 18 17 15 20 20 C 1.30875 * 117.28597 * 179.76574 * 19 18 17 21 21 C 1.36718 * 114.01902 * 0.51311 * 20 19 18 22 22 C 1.46312 * 126.12088 * 179.72624 * 21 20 19 23 23 N 1.34772 * 120.00207 * 180.02562 * 22 21 20 24 24 O 1.21740 * 119.99948 * 0.03513 * 22 21 20 25 25 S 1.70914 * 124.73979 * 179.97438 * 18 17 15 26 26 C 1.46925 * 118.73752 * 306.39098 * 14 13 12 27 27 H 0.97000 * 119.99804 * 0.02562 * 1 2 3 28 28 H 1.09001 * 109.46353 * 61.30081 * 11 9 7 29 29 H 1.08998 * 109.44860 * 301.32875 * 11 9 7 30 30 H 1.09007 * 109.49649 * 178.68103 * 12 11 9 31 31 H 1.09004 * 109.49862 * 58.59052 * 12 11 9 32 32 H 1.08996 * 109.58982 * 294.84703 * 13 12 11 33 33 H 1.09000 * 109.70915 * 174.49073 * 13 12 11 34 34 H 0.96992 * 119.99763 * 5.10972 * 17 15 14 35 35 H 1.08001 * 122.99259 * 180.26539 * 20 19 18 36 36 H 0.97002 * 120.00139 * 0.02562 * 23 22 21 37 37 H 0.97001 * 119.99869 * 180.02562 * 23 22 21 38 38 H 1.09000 * 109.58877 * 173.39536 * 26 14 13 39 39 H 1.09005 * 109.58879 * 293.82264 * 26 14 13 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 3.7092 1.3465 0.0006 5 1 1.8904 2.3964 -1.2126 6 1 1.8903 2.3965 1.2125 7 6 2.0045 -1.1940 0.0005 8 1 3.0845 -1.1940 0.0010 9 6 1.2511 -2.4991 0.0005 10 1 0.6255 -2.5586 -0.8901 11 6 2.2450 -3.6627 0.0052 12 6 1.4812 -4.9885 -0.0279 13 6 0.6024 -5.0983 1.2220 14 7 -0.2565 -3.9089 1.3022 15 6 -1.5932 -4.0337 1.4202 16 8 -2.2845 -3.0461 1.5773 17 7 -2.1636 -5.2536 1.3642 18 6 -3.5420 -5.3742 1.3790 19 7 -4.3730 -4.3753 1.4505 20 6 -5.6511 -4.6569 1.4495 21 6 -5.9262 -5.9945 1.3826 22 6 -7.2572 -6.6018 1.3709 23 7 -7.3862 -7.9415 1.3022 24 8 -8.2484 -5.8968 1.4231 25 16 -4.3909 -6.8561 1.3127 26 6 0.3696 -2.5807 1.2508 27 1 -0.4850 0.8401 -0.0004 28 1 2.8536 -3.6169 0.9084 29 1 2.8896 -3.5930 -0.8710 30 1 2.1900 -5.8164 -0.0482 31 1 0.8535 -5.0246 -0.9183 32 1 1.2337 -5.1536 2.1089 33 1 -0.0173 -5.9927 1.1583 34 1 -1.6079 -6.0469 1.3135 35 1 -6.4200 -3.9003 1.5012 36 1 -6.5965 -8.5033 1.2609 37 1 -8.2687 -8.3441 1.2940 38 1 -0.4035 -1.8138 1.2034 39 1 0.9820 -2.4307 2.1400 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC001364182009.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 13:39:52 Heat of formation + Delta-G solvation = -32.599791 kcal Electronic energy + Delta-G solvation = -24795.372408 eV Core-core repulsion = 21057.225047 eV Total energy + Delta-G solvation = -3738.147361 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 324.104 amu Computer time = 0.59 seconds Orbital eigenvalues (eV) -41.97980 -40.89864 -39.91448 -38.48470 -36.26263 -35.18512 -34.79551 -33.46154 -31.57952 -30.75410 -27.56886 -26.87954 -25.72133 -23.91454 -23.48477 -22.35153 -21.12148 -20.65765 -19.91077 -19.05541 -18.46948 -18.24665 -17.31037 -17.05909 -17.01891 -16.64556 -16.12838 -16.06920 -15.56243 -15.30430 -15.23777 -15.18505 -14.82122 -14.52203 -14.29209 -13.91339 -13.57465 -12.92309 -12.74573 -12.69704 -12.31158 -12.22177 -12.06808 -11.92276 -11.65997 -11.62375 -11.38471 -11.00108 -10.89728 -10.84136 -10.54053 -10.49253 -10.46668 -9.61860 -9.21789 -8.10823 -6.27726 -0.85113 -0.34898 0.32013 1.33651 1.38445 1.41743 1.45780 1.53136 2.04971 2.24627 2.40736 2.44252 2.63800 3.18294 3.42281 3.94739 3.97004 4.13850 4.19000 4.27688 4.59548 4.62289 4.73339 4.78931 4.83411 5.06569 5.12270 5.20770 5.27569 5.30092 5.52939 5.54445 5.67905 5.79548 5.91551 6.03250 6.24311 6.33728 6.55913 6.85370 6.92360 7.17360 7.41840 7.45107 8.92162 Molecular weight = 324.10amu Principal moments of inertia in cm(-1) A = 0.021477 B = 0.002973 C = 0.002663 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1303.426960 B = 9417.251645 C =10511.649758 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.915 5.915 2 C 0.009 3.991 3 Si 0.955 3.045 4 H -0.258 1.258 5 H -0.285 1.285 6 H -0.285 1.285 7 C -0.532 4.532 8 H 0.064 0.936 9 C 0.038 3.962 10 H -0.014 1.014 11 C -0.106 4.106 12 C -0.126 4.126 13 C 0.103 3.897 14 N -0.615 5.615 15 C 0.687 3.313 16 O -0.576 6.576 17 N -0.625 5.625 18 C 0.282 3.718 19 N -0.536 5.536 20 C 0.149 3.851 21 C -0.349 4.349 22 C 0.612 3.388 23 N -0.825 5.825 24 O -0.577 6.577 25 S 0.290 5.710 26 C 0.143 3.857 27 H 0.258 0.742 28 H 0.060 0.940 29 H 0.052 0.948 30 H 0.110 0.890 31 H 0.051 0.949 32 H 0.090 0.910 33 H 0.104 0.896 34 H 0.437 0.563 35 H 0.182 0.818 36 H 0.413 0.587 37 H 0.420 0.580 38 H 0.074 0.926 39 H 0.041 0.959 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -4.606 -25.469 3.125 26.070 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 -0.553 5.553 2 C -0.191 4.191 3 Si 0.781 3.219 4 H -0.182 1.182 5 H -0.211 1.211 6 H -0.211 1.211 7 C -0.571 4.571 8 H 0.082 0.918 9 C 0.018 3.982 10 H 0.004 0.996 11 C -0.144 4.144 12 C -0.164 4.164 13 C -0.018 4.018 14 N -0.352 5.352 15 C 0.386 3.614 16 O -0.449 6.449 17 N -0.282 5.282 18 C -0.083 4.083 19 N -0.257 5.257 20 C -0.012 4.012 21 C -0.476 4.476 22 C 0.396 3.604 23 N -0.390 5.390 24 O -0.459 6.459 25 S 0.542 5.458 26 C 0.020 3.980 27 H 0.067 0.933 28 H 0.079 0.921 29 H 0.071 0.929 30 H 0.128 0.872 31 H 0.070 0.930 32 H 0.108 0.892 33 H 0.122 0.878 34 H 0.281 0.719 35 H 0.199 0.801 36 H 0.244 0.756 37 H 0.253 0.747 38 H 0.092 0.908 39 H 0.059 0.941 Dipole moment (debyes) X Y Z Total from point charges -5.002 -24.595 3.237 25.307 hybrid contribution -0.172 1.790 -0.139 1.804 sum -5.174 -22.805 3.098 23.588 Atomic orbital electron populations 1.70094 1.07427 1.27121 1.50698 1.25898 0.95491 1.02950 0.94735 0.85544 0.79419 0.79653 0.77284 1.18182 1.21100 1.21078 1.21549 0.93351 0.91387 1.50791 0.91763 1.18936 0.93113 0.93973 0.92147 0.99578 1.21516 0.97622 0.94087 1.01158 1.21923 0.99073 0.98325 0.97080 1.22047 0.93762 0.86017 1.00002 1.47793 1.03051 1.09778 1.74554 1.16215 0.83097 0.83075 0.79047 1.91049 1.62154 1.37355 1.54369 1.42205 1.01951 1.09618 1.74465 1.24107 0.89735 0.95183 0.99318 1.66416 1.02966 1.33865 1.22464 1.22351 0.90948 0.94839 0.93034 1.25741 0.98323 0.97553 1.25940 1.16552 0.85629 0.83256 0.74980 1.43446 1.14071 1.05168 1.76332 1.90886 1.39310 1.63033 1.52649 1.82743 0.92917 1.02247 1.67854 1.21695 0.96834 0.81301 0.98147 0.93279 0.92134 0.92931 0.87173 0.92972 0.89199 0.87773 0.71890 0.80068 0.75563 0.74655 0.90815 0.94064 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 -56.12 11.39 21.45 0.24 -55.88 16 2 C 0.01 0.49 5.30 84.65 0.45 0.94 16 3 Si 0.96 44.38 29.54 68.60 2.03 46.41 16 4 H -0.26 -11.23 7.11 99.48 0.71 -10.52 16 5 H -0.28 -13.18 7.11 99.48 0.71 -12.48 16 6 H -0.28 -13.20 7.11 99.48 0.71 -12.49 16 7 C -0.53 -28.74 8.56 25.60 0.22 -28.52 16 8 H 0.06 3.32 7.74 -2.91 -0.02 3.30 16 9 C 0.04 1.83 2.25 -11.47 -0.03 1.81 16 10 H -0.01 -0.79 8.14 -2.38 -0.02 -0.81 16 11 C -0.11 -3.76 5.11 30.62 0.16 -3.61 16 12 C -0.13 -3.14 6.08 30.67 0.19 -2.95 16 13 C 0.10 2.41 6.43 86.36 0.56 2.96 16 14 N -0.62 -23.04 2.97 -836.92 -2.49 -25.53 16 15 C 0.69 27.50 8.25 179.05 1.48 28.98 16 16 O -0.58 -30.44 14.39 -3.94 -0.06 -30.50 16 17 N -0.62 -16.99 5.29 -327.69 -1.73 -18.72 16 18 C 0.28 7.87 7.98 179.28 1.43 9.30 16 19 N -0.54 -19.45 8.57 -200.28 -1.72 -21.17 16 20 C 0.15 4.52 11.15 84.48 0.94 5.46 16 21 C -0.35 -7.87 6.50 24.01 0.16 -7.71 16 22 C 0.61 13.02 8.05 86.34 0.69 13.71 16 23 N -0.83 -8.47 8.87 -176.63 -1.57 -10.04 16 24 O -0.58 -17.45 17.70 -4.48 -0.08 -17.53 16 25 S 0.29 4.32 22.33 -56.49 -1.26 3.06 16 26 C 0.14 6.93 5.39 86.36 0.47 7.39 16 27 H 0.26 15.40 8.31 -92.71 -0.77 14.62 16 28 H 0.06 2.03 8.14 -2.39 -0.02 2.02 16 29 H 0.05 1.85 8.14 -2.39 -0.02 1.83 16 30 H 0.11 1.80 8.14 -2.38 -0.02 1.78 16 31 H 0.05 1.42 8.14 -2.39 -0.02 1.40 16 32 H 0.09 1.80 8.14 -2.39 -0.02 1.78 16 33 H 0.10 1.42 5.56 -2.39 -0.01 1.40 16 34 H 0.44 7.03 6.28 -92.71 -0.58 6.45 16 35 H 0.18 5.47 8.06 -2.91 -0.02 5.44 16 36 H 0.41 1.75 8.00 -92.71 -0.74 1.01 16 37 H 0.42 2.91 8.93 -92.71 -0.83 2.08 16 38 H 0.07 4.41 5.15 -2.39 -0.01 4.40 16 39 H 0.04 1.97 8.14 -2.38 -0.02 1.95 16 Total: -1.00 -88.04 338.45 -0.93 -88.97 By element: Atomic # 1 Polarization: 14.17 SS G_CDS: -1.01 Total: 13.17 kcal Atomic # 6 Polarization: 21.05 SS G_CDS: 6.71 Total: 27.76 kcal Atomic # 7 Polarization: -124.07 SS G_CDS: -7.26 Total: -131.33 kcal Atomic # 8 Polarization: -47.89 SS G_CDS: -0.14 Total: -48.03 kcal Atomic # 14 Polarization: 44.38 SS G_CDS: 2.03 Total: 46.41 kcal Atomic # 16 Polarization: 4.32 SS G_CDS: -1.26 Total: 3.06 kcal Total: -88.04 -0.93 -88.97 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. ZINC001364182009.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 56.369 kcal (2) G-P(sol) polarization free energy of solvation -88.036 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -31.666 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.933 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -88.969 kcal (6) G-S(sol) free energy of system = (1) + (5) -32.600 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.59 seconds