Wall clock time and date at job start Wed Apr 1 2020 03:08:36 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 1.30639 * 1 3 3 Si 1.86799 * 120.00059 * 2 1 4 4 H 1.48495 * 109.47167 * 239.99916 * 3 2 1 5 5 H 1.48503 * 109.47177 * 359.97438 * 3 2 1 6 6 H 1.48504 * 109.47157 * 119.99783 * 3 2 1 7 7 C 1.40307 * 120.00103 * 179.97438 * 2 1 3 8 8 H 1.08002 * 119.99974 * 189.79831 * 7 2 1 9 9 C 1.40539 * 120.00064 * 9.79080 * 7 2 1 10 10 C 1.44186 * 123.71257 * 23.63543 * 9 7 2 11 11 C 1.32762 * 114.42960 * 180.26715 * 10 9 7 12 12 S 1.75474 * 111.36311 * 359.75287 * 11 10 9 13 13 C 1.39549 * 123.71483 * 203.44012 * 9 7 2 14 14 C 1.46234 * 125.22965 * 0.02562 * 13 9 7 15 15 O 1.21759 * 120.00290 * 359.72561 * 14 13 9 16 16 N 1.34780 * 120.00020 * 179.71877 * 14 13 9 17 17 C 1.46494 * 120.00121 * 180.02562 * 16 14 13 18 18 H 1.08997 * 109.47190 * 325.00513 * 17 16 14 19 19 C 1.52995 * 109.47245 * 205.00104 * 17 16 14 20 20 C 1.50703 * 109.47084 * 65.00388 * 19 17 16 21 21 C 1.38241 * 119.99543 * 269.72531 * 20 19 17 22 22 C 1.38230 * 119.99406 * 179.76535 * 21 20 19 23 23 C 1.38234 * 120.00307 * 0.50782 * 22 21 20 24 24 C 1.38239 * 120.00010 * 359.74710 * 23 22 21 25 25 C 1.38227 * 119.99757 * 359.97438 * 24 23 22 26 26 C 1.50708 * 109.47039 * 84.99883 * 17 16 14 27 27 O 1.20823 * 119.99660 * 359.73072 * 26 17 16 28 28 O 1.34228 * 120.00045 * 179.97438 * 26 17 16 29 29 H 0.96995 * 119.99967 * 0.02562 * 1 2 3 30 30 H 1.07998 * 122.78794 * 0.02562 * 10 9 7 31 31 H 1.08000 * 124.32146 * 179.75638 * 11 10 9 32 32 H 0.97001 * 119.99628 * 0.02562 * 16 14 13 33 33 H 1.09004 * 109.47073 * 184.99638 * 19 17 16 34 34 H 1.08994 * 109.47362 * 304.99747 * 19 17 16 35 35 H 1.08001 * 119.99844 * 359.97438 * 21 20 19 36 36 H 1.08005 * 119.99426 * 180.23139 * 22 21 20 37 37 H 1.07998 * 120.00005 * 179.72644 * 23 22 21 38 38 H 1.07999 * 119.99632 * 179.97438 * 24 23 22 39 39 H 1.08002 * 119.99907 * 179.97438 * 25 24 23 40 40 H 0.96698 * 117.00162 * 180.02562 * 28 26 17 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 1.3064 0.0000 0.0000 3 14 2.2404 1.6177 0.0000 4 1 3.0941 1.6964 -1.2124 5 1 1.2754 2.7465 -0.0006 6 1 3.0941 1.6964 1.2126 7 6 2.0079 -1.2151 0.0005 8 1 3.0761 -1.2218 0.1597 9 6 1.3206 -2.4234 -0.2059 10 6 0.0554 -2.5175 -0.8910 11 6 -0.4320 -3.7494 -0.9772 12 16 0.6391 -4.9151 -0.2202 13 6 1.7894 -3.6648 0.2262 14 6 3.0426 -3.8894 0.9455 15 8 3.7713 -2.9497 1.2073 16 7 3.3910 -5.1367 1.3190 17 6 4.6462 -5.3617 2.0401 18 1 5.4037 -4.6675 1.6763 19 6 5.1174 -6.7986 1.8076 20 6 5.4553 -6.9870 0.3511 21 6 4.4831 -7.4137 -0.5343 22 6 4.7917 -7.5819 -1.8711 23 6 6.0751 -7.3335 -2.3208 24 6 7.0486 -6.9120 -1.4344 25 6 6.7385 -6.7383 -0.0987 26 6 4.4259 -5.1375 3.5140 27 8 3.3337 -4.8174 3.9197 28 8 5.4441 -5.2887 4.3755 29 1 -0.4850 0.8400 -0.0004 30 1 -0.4554 -1.6568 -1.2967 31 1 -1.3683 -4.0019 -1.4526 32 1 2.8107 -5.8854 1.1102 33 1 6.0021 -6.9934 2.4139 34 1 4.3243 -7.4912 2.0892 35 1 3.4816 -7.6123 -0.1820 36 1 4.0312 -7.9116 -2.5635 37 1 6.3173 -7.4692 -3.3645 38 1 8.0513 -6.7184 -1.7857 39 1 7.4991 -6.4093 0.5939 40 1 5.2542 -5.1344 5.3110 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 ZINC001601078990.mol2 40 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 03:08:36 Heat of formation + Delta-G solvation = -106.093193 kcal Electronic energy + Delta-G solvation = -27404.626199 eV Core-core repulsion = 23467.284282 eV Total energy + Delta-G solvation = -3937.341917 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 345.087 amu Computer time = 0.71 seconds Orbital eigenvalues (eV) -41.69764 -40.19699 -39.78785 -37.93274 -37.10846 -36.28584 -34.92331 -33.35852 -31.70498 -31.05523 -30.19181 -27.88978 -26.04131 -24.24723 -23.43603 -22.74978 -22.00837 -21.52545 -20.63686 -19.46716 -19.09847 -18.03438 -17.79551 -17.50964 -17.23071 -16.72934 -16.46801 -16.02638 -15.86003 -15.75693 -15.35177 -15.19673 -14.43956 -14.24296 -14.20494 -14.00642 -13.95929 -13.71627 -13.66342 -13.19201 -13.14850 -12.89063 -12.76851 -12.69175 -12.52245 -12.12162 -12.08200 -12.05978 -11.80062 -11.64257 -11.44247 -11.07919 -10.47966 -10.18199 -9.73003 -9.58089 -9.36462 -8.94169 -8.86951 -6.46279 0.29513 0.45602 0.58473 1.15206 1.31478 1.34525 1.36359 1.43759 1.75725 1.79811 2.01803 2.15297 2.44869 2.64140 2.92880 3.31957 3.75519 3.77307 3.94133 4.15003 4.21825 4.34348 4.35653 4.39366 4.49381 4.68399 4.78046 4.81688 4.89029 4.99250 5.18939 5.23018 5.26705 5.38014 5.47678 5.55653 5.59274 5.63076 5.69614 5.74047 5.82113 6.18918 6.37334 6.54278 6.67939 6.88525 6.94805 7.66053 8.06362 Molecular weight = 345.09amu Principal moments of inertia in cm(-1) A = 0.009882 B = 0.004029 C = 0.003663 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2832.744092 B = 6947.684060 C = 7642.485369 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.793 5.793 2 C 0.035 3.965 3 Si 0.989 3.011 4 H -0.254 1.254 5 H -0.249 1.249 6 H -0.272 1.272 7 C -0.417 4.417 8 H 0.084 0.916 9 C 0.113 3.887 10 C -0.129 4.129 11 C -0.191 4.191 12 S 0.011 5.989 13 C -0.464 4.464 14 C 0.601 3.399 15 O -0.601 6.601 16 N -0.711 5.711 17 C 0.168 3.832 18 H 0.111 0.889 19 C -0.068 4.068 20 C -0.094 4.094 21 C -0.120 4.120 22 C -0.130 4.130 23 C -0.130 4.130 24 C -0.129 4.129 25 C -0.123 4.123 26 C 0.467 3.533 27 O -0.544 6.544 28 O -0.502 6.502 29 H 0.301 0.699 30 H 0.141 0.859 31 H 0.177 0.823 32 H 0.402 0.598 33 H 0.127 0.873 34 H 0.094 0.906 35 H 0.122 0.878 36 H 0.133 0.867 37 H 0.138 0.862 38 H 0.141 0.859 39 H 0.140 0.860 40 H 0.425 0.575 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 9.115 -12.856 -0.773 15.778 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 -0.417 5.417 2 C -0.185 4.185 3 Si 0.808 3.192 4 H -0.178 1.178 5 H -0.173 1.173 6 H -0.197 1.197 7 C -0.448 4.448 8 H 0.102 0.898 9 C 0.101 3.899 10 C -0.162 4.162 11 C -0.325 4.325 12 S 0.267 5.733 13 C -0.582 4.582 14 C 0.399 3.601 15 O -0.487 6.487 16 N -0.363 5.363 17 C 0.060 3.940 18 H 0.129 0.871 19 C -0.105 4.105 20 C -0.094 4.094 21 C -0.138 4.138 22 C -0.148 4.148 23 C -0.148 4.148 24 C -0.147 4.147 25 C -0.140 4.140 26 C 0.308 3.692 27 O -0.433 6.433 28 O -0.314 6.314 29 H 0.112 0.888 30 H 0.159 0.841 31 H 0.194 0.806 32 H 0.238 0.762 33 H 0.145 0.855 34 H 0.113 0.887 35 H 0.140 0.860 36 H 0.151 0.849 37 H 0.156 0.844 38 H 0.159 0.841 39 H 0.158 0.842 40 H 0.287 0.713 Dipole moment (debyes) X Y Z Total from point charges 9.129 -13.609 -0.675 16.401 hybrid contribution -0.504 2.215 0.530 2.333 sum 8.625 -11.394 -0.145 14.291 Atomic orbital electron populations 1.69646 1.08791 1.31979 1.31330 1.27058 0.95818 1.04872 0.90761 0.85152 0.78972 0.74996 0.80058 1.17815 1.17271 1.19686 1.19999 0.96918 0.90772 1.37087 0.89807 1.18379 0.90923 0.92371 0.88200 1.21604 0.96387 0.97200 1.00961 1.25449 1.04172 0.96208 1.06687 1.82230 1.15864 1.11716 1.63518 1.22954 1.06140 0.97328 1.31801 1.16970 0.84329 0.81829 0.77003 1.90610 1.54765 1.42993 1.60300 1.45377 1.23128 1.08743 1.59086 1.20401 0.88657 1.01186 0.83744 0.87114 1.20817 1.04387 0.90960 0.94363 1.19735 0.94402 1.00325 0.94969 1.21231 0.98976 0.99574 0.94033 1.21394 0.97422 1.00200 0.95801 1.21466 0.93357 0.99337 1.00663 1.21440 1.00453 0.99394 0.93419 1.21339 0.96262 0.99674 0.96764 1.24440 0.81700 0.71999 0.91043 1.90743 1.28343 1.44221 1.79991 1.84459 1.40771 1.82246 1.23958 0.88769 0.84133 0.80558 0.76165 0.85504 0.88715 0.86033 0.84934 0.84398 0.84088 0.84215 0.71305 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 -0.79 -39.43 10.82 21.89 0.24 -39.20 16 2 C 0.03 1.77 5.39 85.37 0.46 2.23 16 3 Si 0.99 39.31 29.57 68.60 2.03 41.34 16 4 H -0.25 -9.80 7.11 99.48 0.71 -9.09 16 5 H -0.25 -8.76 7.11 99.48 0.71 -8.05 16 6 H -0.27 -11.29 7.11 99.48 0.71 -10.59 16 7 C -0.42 -23.97 8.52 23.33 0.20 -23.77 16 8 H 0.08 5.13 6.04 -2.91 -0.02 5.12 16 9 C 0.11 6.30 5.67 -20.89 -0.12 6.18 16 10 C -0.13 -6.41 9.04 22.60 0.20 -6.20 16 11 C -0.19 -8.10 11.07 66.64 0.74 -7.36 16 12 S 0.01 0.46 22.25 -56.49 -1.26 -0.79 16 13 C -0.46 -24.37 6.51 24.67 0.16 -24.21 16 14 C 0.60 30.79 7.59 86.32 0.65 31.45 16 15 O -0.60 -34.80 14.11 -4.54 -0.06 -34.87 16 16 N -0.71 -27.92 4.06 -450.47 -1.83 -29.75 16 17 C 0.17 5.36 2.47 44.25 0.11 5.47 16 18 H 0.11 3.86 7.57 -2.39 -0.02 3.85 16 19 C -0.07 -1.47 4.86 29.85 0.14 -1.33 16 20 C -0.09 -2.23 4.95 -19.86 -0.10 -2.33 16 21 C -0.12 -2.98 9.11 22.27 0.20 -2.78 16 22 C -0.13 -3.05 10.05 22.27 0.22 -2.83 16 23 C -0.13 -2.80 10.05 22.27 0.22 -2.57 16 24 C -0.13 -2.69 10.05 22.27 0.22 -2.47 16 25 C -0.12 -2.68 9.70 22.27 0.22 -2.46 16 26 C 0.47 15.40 7.66 71.24 0.55 15.95 16 27 O -0.54 -23.18 17.07 21.97 0.38 -22.80 16 28 O -0.50 -11.40 13.23 -51.40 -0.68 -12.08 16 29 H 0.30 13.18 8.29 -92.71 -0.77 12.41 16 30 H 0.14 6.96 6.41 -2.91 -0.02 6.94 16 31 H 0.18 5.96 8.06 -2.91 -0.02 5.93 16 32 H 0.40 14.34 6.93 -92.71 -0.64 13.69 16 33 H 0.13 2.05 7.94 -2.38 -0.02 2.03 16 34 H 0.09 1.83 8.08 -2.39 -0.02 1.81 16 35 H 0.12 2.85 7.60 -2.91 -0.02 2.83 16 36 H 0.13 2.67 8.06 -2.91 -0.02 2.65 16 37 H 0.14 2.30 8.06 -2.91 -0.02 2.27 16 38 H 0.14 2.22 8.06 -2.91 -0.02 2.20 16 39 H 0.14 2.44 8.06 -2.91 -0.02 2.41 16 40 H 0.43 6.15 9.10 -74.06 -0.67 5.47 16 Total: -1.00 -75.99 363.35 2.70 -73.28 By element: Atomic # 1 Polarization: 42.08 SS G_CDS: -0.20 Total: 41.89 kcal Atomic # 6 Polarization: -21.11 SS G_CDS: 4.09 Total: -17.02 kcal Atomic # 7 Polarization: -67.35 SS G_CDS: -1.59 Total: -68.95 kcal Atomic # 8 Polarization: -69.38 SS G_CDS: -0.37 Total: -69.75 kcal Atomic # 14 Polarization: 39.31 SS G_CDS: 2.03 Total: 41.34 kcal Atomic # 16 Polarization: 0.46 SS G_CDS: -1.26 Total: -0.79 kcal Total: -75.99 2.70 -73.28 kcal The number of atoms in the molecule is 40 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. ZINC001601078990.mol2 40 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 -32.808 kcal (2) G-P(sol) polarization free energy of solvation -75.988 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -108.796 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.703 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -73.285 kcal (6) G-S(sol) free energy of system = (1) + (5) -106.093 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.71 seconds