Wall clock time and date at job start Tue Mar 31 2020 21:04:49 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 1.52995 * 1 3 3 H 1.08997 * 109.47519 * 2 1 4 4 C 1.53005 * 109.47370 * 239.99888 * 2 1 3 5 5 N 1.46504 * 109.47229 * 185.00175 * 4 2 1 6 6 C 1.34772 * 119.99977 * 179.97438 * 5 4 2 7 7 O 1.21287 * 119.99617 * 359.97438 * 6 5 4 8 8 C 1.50695 * 120.00207 * 179.97438 * 6 5 4 9 9 S 1.81003 * 109.47293 * 180.02562 * 8 6 5 10 10 C 1.76201 * 99.99773 * 180.02562 * 9 8 6 11 11 H 1.07994 * 120.00109 * 359.97438 * 10 9 8 12 12 C 1.38796 * 119.99696 * 180.02562 * 10 9 8 13 13 N 1.31629 * 120.00344 * 359.97438 * 12 10 9 14 14 Si 1.86804 * 120.00117 * 179.97438 * 12 10 9 15 15 H 1.48500 * 109.46985 * 59.99696 * 14 12 10 16 16 H 1.48501 * 109.47488 * 180.02562 * 14 12 10 17 17 H 1.48507 * 109.46829 * 299.99736 * 14 12 10 18 18 N 1.46498 * 109.47341 * 119.99854 * 2 1 3 19 19 C 1.46508 * 119.99856 * 59.99840 * 18 2 1 20 20 C 1.34781 * 120.00285 * 240.00497 * 18 2 1 21 21 O 1.21473 * 119.99743 * 2.34012 * 20 18 2 22 22 C 1.48457 * 120.00071 * 182.34597 * 20 18 2 23 23 C 1.39535 * 120.54749 * 172.92995 * 22 20 18 24 24 C 1.38764 * 118.25928 * 179.97438 * 23 22 20 25 25 N 1.32198 * 119.14733 * 0.02562 * 24 23 22 26 26 C 1.31877 * 121.04006 * 359.97438 * 25 24 23 27 27 N 1.31585 * 121.91996 * 0.02562 * 26 25 24 28 28 H 1.09000 * 109.47170 * 180.02562 * 1 2 3 29 29 H 1.09001 * 109.47385 * 299.99999 * 1 2 3 30 30 H 1.09001 * 109.46990 * 60.00375 * 1 2 3 31 31 H 1.09007 * 109.46551 * 304.99983 * 4 2 1 32 32 H 1.08997 * 109.47250 * 64.99956 * 4 2 1 33 33 H 0.97000 * 120.00016 * 359.97438 * 5 4 2 34 34 H 1.08996 * 109.47269 * 300.00679 * 8 6 5 35 35 H 1.09006 * 109.46928 * 60.00206 * 8 6 5 36 36 H 0.96999 * 120.00231 * 180.02562 * 13 12 10 37 37 H 1.09003 * 109.46601 * 263.84990 * 19 18 2 38 38 H 1.09000 * 109.47092 * 23.85244 * 19 18 2 39 39 H 1.08998 * 109.46766 * 143.85608 * 19 18 2 40 40 H 1.08000 * 120.86812 * 359.97438 * 23 22 20 41 41 H 1.07996 * 120.42262 * 179.97438 * 24 23 22 42 42 H 1.08005 * 119.04026 * 180.28281 * 26 25 24 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 1.5299 0.0000 0.0000 3 1 1.8933 1.0276 0.0000 4 6 2.0400 -0.7213 -1.2492 5 7 3.5001 -0.8264 -1.1905 6 6 4.1731 -1.4292 -2.1906 7 8 3.5698 -1.8851 -3.1389 8 6 5.6750 -1.5369 -2.1305 9 16 6.2783 -2.3903 -3.6083 10 6 8.0101 -2.3774 -3.2834 11 1 8.3863 -1.9242 -2.3782 12 6 8.8907 -2.9489 -4.1913 13 7 8.4322 -3.5010 -5.2947 14 14 10.7267 -2.9347 -3.8472 15 1 10.9984 -3.6587 -2.5795 16 1 11.4446 -3.6022 -4.9627 17 1 11.1968 -1.5312 -3.7263 18 7 2.0183 -0.6906 1.1962 19 6 1.6644 -2.0932 1.4280 20 6 2.7931 -0.0355 2.0834 21 8 3.0515 1.1391 1.9131 22 6 3.3309 -0.7497 3.2686 23 6 4.2504 -0.1280 4.1143 24 6 4.7217 -0.8392 5.2087 25 7 4.2879 -2.0714 5.4112 26 6 3.4181 -2.6294 4.5918 27 7 2.9441 -1.9933 3.5420 28 1 -0.3633 -1.0277 0.0005 29 1 -0.3634 0.5138 0.8900 30 1 -0.3633 0.5138 -0.8900 31 1 1.6053 -1.7199 -1.2951 32 1 1.7517 -0.1584 -2.1370 33 1 3.9825 -0.4622 -0.4319 34 1 6.1093 -0.5383 -2.0852 35 1 5.9637 -2.0992 -1.2424 36 1 9.0476 -3.9007 -5.9291 37 1 0.8001 -2.1451 2.0902 38 1 1.4230 -2.5689 0.4775 39 1 2.5067 -2.6090 1.8890 40 1 4.5864 0.8802 3.9221 41 1 5.4344 -0.3920 5.8857 42 1 3.0819 -3.6364 4.7906 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001756005381.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 21:04:49 Heat of formation + Delta-G solvation = -25.505199 kcal Electronic energy + Delta-G solvation = -26468.485212 eV Core-core repulsion = 22575.107877 eV Total energy + Delta-G solvation = -3893.377335 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 338.120 amu Computer time = 0.67 seconds Orbital eigenvalues (eV) -42.40530 -41.11481 -40.33113 -37.89856 -35.67090 -34.78758 -34.60412 -33.18684 -32.65987 -30.90068 -28.03322 -27.76419 -26.97499 -26.53429 -25.41493 -23.09333 -21.81228 -20.89203 -19.82717 -19.18044 -18.56618 -17.91646 -17.62004 -17.42687 -16.91397 -16.89382 -16.54299 -16.50370 -16.21174 -15.83160 -15.51485 -15.05409 -14.86210 -14.78943 -14.54323 -14.27344 -14.06285 -13.93230 -13.48664 -13.21098 -13.19804 -13.06830 -12.91296 -12.88139 -12.62258 -12.07480 -11.95421 -11.78511 -11.75787 -11.57875 -11.15193 -11.04215 -10.83963 -10.32958 -10.20424 -10.17666 -9.80289 -8.69483 -8.36716 -6.15302 -0.63127 -0.11496 1.23100 1.42218 1.43673 1.52828 1.53821 1.54894 1.64019 2.21297 2.25739 2.71962 2.76035 2.97264 3.18878 3.27844 3.34515 3.57805 3.73557 3.86842 3.97559 4.03687 4.16386 4.21416 4.24347 4.42728 4.49406 4.54956 4.58370 4.71348 4.75571 4.80071 4.93904 5.08255 5.21233 5.27688 5.36196 5.38941 5.48109 5.72377 6.09660 6.17145 6.33296 6.75205 6.93093 7.04310 7.12828 8.72294 Molecular weight = 338.12amu Principal moments of inertia in cm(-1) A = 0.010676 B = 0.002969 C = 0.002484 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2622.020289 B = 9427.902560 C =11269.133580 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.149 4.149 2 C 0.128 3.872 3 H 0.101 0.899 4 C 0.111 3.889 5 N -0.713 5.713 6 C 0.537 3.463 7 O -0.558 6.558 8 C -0.131 4.131 9 S -0.140 6.140 10 C -0.552 4.552 11 H 0.080 0.920 12 C 0.016 3.984 13 N -0.910 5.910 14 Si 0.997 3.003 15 H -0.262 1.262 16 H -0.276 1.276 17 H -0.263 1.263 18 N -0.582 5.582 19 C 0.074 3.926 20 C 0.562 3.438 21 O -0.554 6.554 22 C 0.112 3.888 23 C -0.172 4.172 24 C 0.157 3.843 25 N -0.521 5.521 26 C 0.285 3.715 27 N -0.492 5.492 28 H 0.074 0.926 29 H 0.066 0.934 30 H 0.087 0.913 31 H 0.075 0.925 32 H 0.082 0.918 33 H 0.404 0.596 34 H 0.103 0.897 35 H 0.103 0.897 36 H 0.272 0.728 37 H 0.072 0.928 38 H 0.068 0.932 39 H 0.103 0.897 40 H 0.167 0.833 41 H 0.209 0.791 42 H 0.230 0.770 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -14.737 6.383 24.039 28.910 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 -0.207 4.207 2 C 0.025 3.975 3 H 0.119 0.881 4 C -0.013 4.013 5 N -0.366 5.366 6 C 0.323 3.677 7 O -0.436 6.436 8 C -0.283 4.283 9 S 0.087 5.913 10 C -0.699 4.699 11 H 0.098 0.902 12 C -0.189 4.189 13 N -0.546 5.546 14 Si 0.819 3.181 15 H -0.187 1.187 16 H -0.201 1.201 17 H -0.187 1.187 18 N -0.313 5.313 19 C -0.068 4.068 20 C 0.349 3.651 21 O -0.432 6.432 22 C -0.035 4.035 23 C -0.195 4.195 24 C -0.010 4.010 25 N -0.235 5.235 26 C -0.002 4.002 27 N -0.209 5.209 28 H 0.093 0.907 29 H 0.085 0.915 30 H 0.106 0.894 31 H 0.093 0.907 32 H 0.100 0.900 33 H 0.239 0.761 34 H 0.122 0.878 35 H 0.121 0.879 36 H 0.081 0.919 37 H 0.091 0.909 38 H 0.086 0.914 39 H 0.121 0.879 40 H 0.185 0.815 41 H 0.226 0.774 42 H 0.246 0.754 Dipole moment (debyes) X Y Z Total from point charges -15.955 5.237 22.343 27.950 hybrid contribution 2.154 1.318 0.983 2.710 sum -13.801 6.554 23.326 27.884 Atomic orbital electron populations 1.22004 0.90958 1.03959 1.03826 1.21478 0.96848 0.97314 0.81868 0.88103 1.21879 0.79153 1.01931 0.98377 1.45719 1.08068 1.59756 1.23061 1.19954 0.88742 0.77016 0.82034 1.90692 1.70252 1.48297 1.34324 1.23365 0.95054 1.05506 1.04346 1.85484 1.05669 1.74848 1.25287 1.23169 0.91829 1.44720 1.10208 0.90209 1.26103 1.05174 0.93668 0.93933 1.70163 1.37542 1.36337 1.10550 0.85026 0.75714 0.79084 0.78314 1.18668 1.20139 1.18745 1.47923 1.48032 1.14052 1.21321 1.22461 1.03539 0.79036 1.01779 1.18150 0.78757 0.85752 0.82477 1.90796 1.60299 1.16015 1.76057 1.21542 0.95137 0.91558 0.95244 1.23170 0.96932 1.03827 0.95530 1.23941 0.94541 0.88706 0.93793 1.68452 1.11810 1.12513 1.30715 1.25769 0.88549 1.01214 0.84672 1.68868 1.26000 1.07298 1.18774 0.90740 0.91458 0.89446 0.90660 0.90016 0.76107 0.87837 0.87891 0.91874 0.90909 0.91371 0.87914 0.81505 0.77396 0.75411 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 C -0.15 -1.74 9.19 71.98 0.66 -1.07 16 2 C 0.13 2.16 2.79 44.99 0.13 2.28 16 3 H 0.10 1.96 6.90 -2.39 -0.02 1.95 16 4 C 0.11 2.39 4.94 86.38 0.43 2.82 16 5 N -0.71 -19.42 5.39 -463.04 -2.49 -21.92 16 6 C 0.54 20.29 7.85 87.66 0.69 20.98 16 7 O -0.56 -25.60 15.86 -3.05 -0.05 -25.65 16 8 C -0.13 -5.43 6.16 71.23 0.44 -4.99 16 9 S -0.14 -7.85 20.57 -56.49 -1.16 -9.02 16 10 C -0.55 -31.91 9.50 67.95 0.65 -31.27 16 11 H 0.08 4.31 7.80 -2.91 -0.02 4.29 16 12 C 0.02 0.93 5.49 84.86 0.47 1.40 16 13 N -0.91 -56.00 13.22 21.65 0.29 -55.71 16 14 Si 1.00 43.79 29.55 68.60 2.03 45.82 16 15 H -0.26 -10.92 7.11 99.48 0.71 -10.21 16 16 H -0.28 -11.76 7.11 99.48 0.71 -11.05 16 17 H -0.26 -10.99 7.11 99.48 0.71 -10.29 16 18 N -0.58 -10.17 2.24 -825.29 -1.85 -12.02 16 19 C 0.07 1.07 8.38 127.77 1.07 2.14 16 20 C 0.56 11.58 7.38 86.97 0.64 12.22 16 21 O -0.55 -14.09 15.78 -3.63 -0.06 -14.15 16 22 C 0.11 1.99 6.65 41.99 0.28 2.27 16 23 C -0.17 -2.47 9.72 22.71 0.22 -2.25 16 24 C 0.16 1.80 11.31 84.76 0.96 2.76 16 25 N -0.52 -7.43 10.42 -200.09 -2.09 -9.52 16 26 C 0.28 3.69 12.27 180.92 2.22 5.91 16 27 N -0.49 -7.62 6.23 -189.14 -1.18 -8.80 16 28 H 0.07 0.76 7.67 -2.39 -0.02 0.74 16 29 H 0.07 0.79 8.14 -2.39 -0.02 0.77 16 30 H 0.09 0.85 8.14 -2.39 -0.02 0.83 16 31 H 0.08 1.64 6.87 -2.38 -0.02 1.62 16 32 H 0.08 1.82 8.14 -2.39 -0.02 1.80 16 33 H 0.40 9.99 7.87 -92.71 -0.73 9.26 16 34 H 0.10 3.97 8.14 -2.40 -0.02 3.95 16 35 H 0.10 3.91 8.14 -2.39 -0.02 3.89 16 36 H 0.27 15.55 8.31 -92.71 -0.77 14.78 16 37 H 0.07 0.88 8.14 -2.39 -0.02 0.86 16 38 H 0.07 0.99 6.54 -2.39 -0.02 0.97 16 39 H 0.10 1.67 5.25 -2.42 -0.01 1.66 16 40 H 0.17 2.12 7.75 -2.91 -0.02 2.10 16 41 H 0.21 0.85 8.06 -2.91 -0.02 0.82 16 42 H 0.23 1.41 8.06 -2.91 -0.02 1.39 16 Total: -1.00 -80.26 372.15 2.61 -77.65 By element: Atomic # 1 Polarization: 19.79 SS G_CDS: 0.33 Total: 20.12 kcal Atomic # 6 Polarization: 4.35 SS G_CDS: 8.84 Total: 13.19 kcal Atomic # 7 Polarization: -100.64 SS G_CDS: -7.32 Total: -107.96 kcal Atomic # 8 Polarization: -39.69 SS G_CDS: -0.11 Total: -39.80 kcal Atomic # 14 Polarization: 43.79 SS G_CDS: 2.03 Total: 45.82 kcal Atomic # 16 Polarization: -7.85 SS G_CDS: -1.16 Total: -9.02 kcal Total: -80.26 2.61 -77.65 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. ZINC001756005381.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 52.144 kcal (2) G-P(sol) polarization free energy of solvation -80.260 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -28.115 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.610 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -77.650 kcal (6) G-S(sol) free energy of system = (1) + (5) -25.505 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.68 seconds