Wall clock time and date at job start Tue Mar 31 2020 13:42:16 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 1.30648 * 1 3 3 Si 1.86804 * 119.99619 * 2 1 4 4 H 1.48496 * 109.47163 * 85.13505 * 3 2 1 5 5 H 1.48499 * 109.46685 * 205.13202 * 3 2 1 6 6 H 1.48499 * 109.47327 * 325.13044 * 3 2 1 7 7 C 1.40306 * 120.00263 * 179.97438 * 2 1 3 8 8 H 1.08000 * 119.99969 * 189.92788 * 7 2 1 9 9 C 1.40544 * 119.99778 * 9.93310 * 7 2 1 10 10 C 1.44182 * 123.71478 * 23.30874 * 9 7 2 11 11 C 1.32772 * 114.42738 * 179.76392 * 10 9 7 12 12 S 1.75468 * 111.36100 * 0.49277 * 11 10 9 13 13 C 1.39540 * 123.71232 * 203.60885 * 9 7 2 14 14 C 1.46243 * 125.22909 * 359.97438 * 13 9 7 15 15 O 1.21762 * 120.00234 * 0.02562 * 14 13 9 16 16 N 1.34780 * 120.00075 * 180.02562 * 14 13 9 17 17 C 1.46496 * 119.99806 * 179.97438 * 16 14 13 18 18 H 1.08998 * 109.47676 * 34.99743 * 17 16 14 19 19 C 1.53006 * 109.47378 * 275.00065 * 17 16 14 20 20 C 1.52997 * 109.46901 * 65.00048 * 19 17 16 21 21 O 1.42909 * 109.47236 * 180.02562 * 20 19 17 22 22 C 1.53001 * 109.47229 * 155.00163 * 17 16 14 23 23 C 1.54271 * 110.03107 * 57.16342 * 22 17 16 24 24 C 1.54885 * 104.19626 * 217.10884 * 23 22 17 25 25 C 1.54891 * 102.74913 * 37.94204 * 24 23 22 26 26 C 1.53878 * 110.03104 * 300.00218 * 22 17 16 27 27 H 0.96998 * 119.99715 * 0.02562 * 1 2 3 28 28 H 1.08000 * 122.78643 * 0.02562 * 10 9 7 29 29 H 1.07996 * 124.31539 * 180.23550 * 11 10 9 30 30 H 0.96995 * 119.99985 * 0.02562 * 16 14 13 31 31 H 1.09002 * 109.47333 * 185.00193 * 19 17 16 32 32 H 1.09004 * 109.46781 * 305.00747 * 19 17 16 33 33 H 1.09002 * 109.47245 * 300.00199 * 20 19 17 34 34 H 1.08994 * 109.47464 * 60.00275 * 20 19 17 35 35 H 0.96694 * 114.00005 * 179.97438 * 21 20 19 36 36 H 1.09000 * 110.01866 * 178.60608 * 22 17 16 37 37 H 1.08999 * 110.48822 * 335.79282 * 23 22 17 38 38 H 1.09003 * 110.48371 * 98.42960 * 23 22 17 39 39 H 1.09007 * 110.75311 * 279.62860 * 24 23 22 40 40 H 1.08997 * 110.75781 * 156.26201 * 24 23 22 41 41 H 1.08996 * 110.48222 * 203.37807 * 25 24 23 42 42 H 1.08997 * 110.59305 * 80.79298 * 25 24 23 43 43 H 1.09004 * 110.02786 * 238.56941 * 26 22 17 44 44 H 1.08996 * 110.03027 * 359.94662 * 26 22 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 1.3065 0.0000 0.0000 3 14 2.2404 1.6178 0.0000 4 1 2.3850 2.1059 1.3950 5 1 3.5856 1.4127 -0.5946 6 1 1.4931 2.6208 -0.8004 7 6 2.0081 -1.2151 0.0005 8 1 3.0759 -1.2219 0.1618 9 6 1.3212 -2.4232 -0.2089 10 6 0.0542 -2.5156 -0.8908 11 6 -0.4274 -3.7489 -0.9899 12 16 0.6420 -4.9154 -0.2318 13 6 1.7874 -3.6646 0.2256 14 6 3.0377 -3.8897 0.9500 15 8 3.7633 -2.9496 1.2189 16 7 3.3868 -5.1378 1.3200 17 6 4.6396 -5.3634 2.0451 18 1 4.8310 -4.5215 2.7105 19 6 5.7907 -5.4954 1.0458 20 6 5.9822 -4.1676 0.3102 21 8 7.0570 -4.2910 -0.6236 22 6 4.5285 -6.6486 2.8677 23 6 4.1872 -7.8379 1.9462 24 6 3.2237 -8.7084 2.7906 25 6 2.3711 -7.6509 3.5349 26 6 3.3737 -6.5298 3.8778 27 1 -0.4850 0.8401 -0.0004 28 1 -0.4585 -1.6537 -1.2917 29 1 -1.3604 -4.0014 -1.4716 30 1 2.8090 -5.8868 1.1055 31 1 6.7067 -5.7512 1.5784 32 1 5.5582 -6.2796 0.3253 33 1 5.0662 -3.9118 -0.2224 34 1 6.2147 -3.3834 1.0306 35 1 7.2349 -3.4850 -1.1272 36 1 5.4651 -6.8383 3.3919 37 1 3.6914 -7.4888 1.0405 38 1 5.0884 -8.3983 1.6971 39 1 3.7791 -9.3243 3.4980 40 1 2.5974 -9.3265 2.1474 41 1 1.9469 -8.0748 4.4450 42 1 1.5807 -7.2710 2.8876 43 1 3.7499 -6.6625 4.8922 44 1 2.8931 -5.5561 3.7825 RHF calculation, no. of doubly occupied orbitals= 58 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 ZINC000889121253.mol2 44 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 13:42:16 Heat of formation + Delta-G solvation = -107.828812 kcal Electronic energy + Delta-G solvation = -26079.542686 eV Core-core repulsion = 22507.099404 eV Total energy + Delta-G solvation = -3572.443282 eV No. of doubly occupied orbitals = 58 Molecular weight (most abundant/longest-lived isotopes) = 323.134 amu Computer time = 0.67 seconds Orbital eigenvalues (eV) -41.04453 -39.08043 -37.91544 -37.59074 -35.34216 -34.89386 -32.59142 -30.71088 -29.92499 -29.47251 -27.98025 -25.38392 -24.02150 -22.60389 -22.09790 -21.09490 -20.61410 -20.23967 -19.26047 -18.37768 -17.67191 -17.32921 -16.86059 -16.54987 -16.24693 -15.85082 -15.51587 -15.25401 -14.84838 -14.80392 -14.22807 -14.20206 -14.03572 -13.87527 -13.79720 -13.51285 -13.14847 -12.93440 -12.76496 -12.64365 -12.25081 -12.08230 -12.01731 -11.94454 -11.85708 -11.72900 -11.47820 -11.44704 -11.42141 -11.30621 -11.05516 -10.88047 -10.25809 -9.81983 -9.32914 -8.92994 -8.84612 -6.43112 0.32900 1.32291 1.33836 1.37257 1.47658 1.80403 1.99110 2.16309 2.60133 2.62958 3.18651 3.34613 3.69619 3.74272 3.88027 4.09998 4.19040 4.35580 4.38778 4.44664 4.56845 4.62109 4.68977 4.70908 4.81976 4.85259 4.88968 4.96126 5.01922 5.06177 5.07969 5.12571 5.20773 5.29621 5.30624 5.37221 5.41474 5.48246 5.53689 5.59624 5.83668 5.91383 6.41716 6.61266 6.74743 6.75650 7.03031 7.82318 8.08915 Molecular weight = 323.13amu Principal moments of inertia in cm(-1) A = 0.012363 B = 0.004773 C = 0.003971 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2264.209091 B = 5864.752098 C = 7049.810566 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.796 5.796 2 C 0.036 3.964 3 Si 0.988 3.012 4 H -0.265 1.265 5 H -0.264 1.264 6 H -0.251 1.251 7 C -0.415 4.415 8 H 0.086 0.914 9 C 0.112 3.888 10 C -0.129 4.129 11 C -0.195 4.195 12 S 0.003 5.997 13 C -0.464 4.464 14 C 0.595 3.405 15 O -0.592 6.592 16 N -0.725 5.725 17 C 0.159 3.841 18 H 0.062 0.938 19 C -0.117 4.117 20 C 0.086 3.914 21 O -0.591 6.591 22 C -0.089 4.089 23 C -0.122 4.122 24 C -0.116 4.116 25 C -0.126 4.126 26 C -0.121 4.121 27 H 0.299 0.701 28 H 0.140 0.860 29 H 0.174 0.826 30 H 0.396 0.604 31 H 0.090 0.910 32 H 0.071 0.929 33 H 0.025 0.975 34 H 0.034 0.966 35 H 0.390 0.610 36 H 0.105 0.895 37 H 0.052 0.948 38 H 0.083 0.917 39 H 0.083 0.917 40 H 0.071 0.929 41 H 0.075 0.925 42 H 0.049 0.951 43 H 0.077 0.923 44 H 0.038 0.962 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 4.255 -10.938 3.162 12.155 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 -0.421 5.421 2 C -0.184 4.184 3 Si 0.808 3.192 4 H -0.190 1.190 5 H -0.188 1.188 6 H -0.174 1.174 7 C -0.446 4.446 8 H 0.104 0.896 9 C 0.101 3.899 10 C -0.162 4.162 11 C -0.329 4.329 12 S 0.258 5.742 13 C -0.582 4.582 14 C 0.391 3.609 15 O -0.478 6.478 16 N -0.378 5.378 17 C 0.054 3.946 18 H 0.080 0.920 19 C -0.155 4.155 20 C 0.008 3.992 21 O -0.398 6.398 22 C -0.108 4.108 23 C -0.160 4.160 24 C -0.153 4.153 25 C -0.163 4.163 26 C -0.159 4.159 27 H 0.110 0.890 28 H 0.157 0.843 29 H 0.191 0.809 30 H 0.232 0.768 31 H 0.108 0.892 32 H 0.089 0.911 33 H 0.044 0.956 34 H 0.052 0.948 35 H 0.239 0.761 36 H 0.123 0.877 37 H 0.071 0.929 38 H 0.102 0.898 39 H 0.101 0.899 40 H 0.090 0.910 41 H 0.094 0.906 42 H 0.068 0.932 43 H 0.096 0.904 44 H 0.057 0.943 Dipole moment (debyes) X Y Z Total from point charges 4.501 -12.314 3.801 13.650 hybrid contribution -0.322 2.910 -0.596 2.988 sum 4.179 -9.404 3.204 10.778 Atomic orbital electron populations 1.69664 1.08816 1.31742 1.31895 1.27026 0.95737 1.04807 0.90817 0.85101 0.79131 0.75436 0.79580 1.18998 1.18825 1.17423 1.19985 0.96933 0.90514 1.37185 0.89557 1.18355 0.90737 0.92502 0.88315 1.21644 0.96601 0.97051 1.00872 1.25426 1.04233 0.96249 1.06989 1.82353 1.16557 1.12003 1.63239 1.23139 1.06864 0.96846 1.31385 1.16881 0.83989 0.82392 0.77590 1.90615 1.54589 1.43102 1.59523 1.45797 1.23765 1.07856 1.60407 1.20845 0.82970 0.98325 0.92463 0.92029 1.21907 0.99072 0.96157 0.98398 1.22198 0.88067 0.97991 0.90924 1.86305 1.54605 1.42116 1.56790 1.22054 1.00416 0.92616 0.95684 1.22476 1.00296 0.95629 0.97612 1.22474 0.97297 0.96931 0.98619 1.22362 0.97525 0.95857 1.00577 1.22177 0.95970 0.98590 0.99176 0.88951 0.84300 0.80905 0.76772 0.89182 0.91068 0.95646 0.94750 0.76108 0.87715 0.92926 0.89824 0.89869 0.90986 0.90612 0.93179 0.90399 0.94268 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 -0.80 -38.72 10.81 21.89 0.24 -38.49 16 2 C 0.04 1.76 5.39 85.37 0.46 2.22 16 3 Si 0.99 38.26 29.57 68.60 2.03 40.29 16 4 H -0.27 -10.17 7.11 99.48 0.71 -9.46 16 5 H -0.26 -10.48 7.11 99.48 0.71 -9.78 16 6 H -0.25 -8.69 7.11 99.48 0.71 -7.98 16 7 C -0.42 -22.97 8.51 23.34 0.20 -22.77 16 8 H 0.09 5.07 6.05 -2.91 -0.02 5.05 16 9 C 0.11 6.07 5.68 -20.89 -0.12 5.96 16 10 C -0.13 -6.30 9.05 22.60 0.20 -6.10 16 11 C -0.19 -8.17 11.07 66.64 0.74 -7.43 16 12 S 0.00 0.11 22.25 -56.49 -1.26 -1.14 16 13 C -0.46 -23.38 6.51 24.67 0.16 -23.22 16 14 C 0.60 28.60 6.33 86.32 0.55 29.14 16 15 O -0.59 -31.60 11.58 -4.55 -0.05 -31.65 16 16 N -0.73 -27.09 4.19 -446.88 -1.87 -28.96 16 17 C 0.16 4.98 1.80 44.99 0.08 5.06 16 18 H 0.06 2.23 7.58 -2.39 -0.02 2.21 16 19 C -0.12 -3.55 4.97 30.60 0.15 -3.40 16 20 C 0.09 3.16 5.65 71.98 0.41 3.57 16 21 O -0.59 -19.52 13.66 -148.98 -2.04 -21.56 16 22 C -0.09 -2.04 2.80 -10.07 -0.03 -2.07 16 23 C -0.12 -2.49 5.14 31.67 0.16 -2.33 16 24 C -0.12 -2.03 6.91 31.88 0.22 -1.81 16 25 C -0.13 -2.67 6.83 31.67 0.22 -2.45 16 26 C -0.12 -2.90 6.19 31.32 0.19 -2.71 16 27 H 0.30 12.83 8.29 -92.71 -0.77 12.06 16 28 H 0.14 6.81 6.39 -2.91 -0.02 6.79 16 29 H 0.17 5.84 8.06 -2.91 -0.02 5.82 16 30 H 0.40 13.78 5.91 -92.71 -0.55 13.23 16 31 H 0.09 2.34 8.14 -2.39 -0.02 2.32 16 32 H 0.07 2.12 7.44 -2.38 -0.02 2.10 16 33 H 0.03 1.12 5.64 -2.39 -0.01 1.11 16 34 H 0.03 1.35 7.84 -2.39 -0.02 1.33 16 35 H 0.39 10.03 9.12 -74.06 -0.68 9.36 16 36 H 0.10 1.96 8.14 -2.39 -0.02 1.94 16 37 H 0.05 1.27 6.10 -2.39 -0.01 1.25 16 38 H 0.08 1.43 8.14 -2.39 -0.02 1.41 16 39 H 0.08 1.19 8.14 -2.38 -0.02 1.17 16 40 H 0.07 1.19 8.14 -2.39 -0.02 1.17 16 41 H 0.08 1.38 8.14 -2.39 -0.02 1.36 16 42 H 0.05 1.24 8.14 -2.39 -0.02 1.22 16 43 H 0.08 1.57 8.14 -2.38 -0.02 1.55 16 44 H 0.04 1.20 7.38 -2.39 -0.02 1.18 16 Total: -1.00 -63.89 357.13 0.46 -63.43 By element: Atomic # 1 Polarization: 46.61 SS G_CDS: -0.19 Total: 46.42 kcal Atomic # 6 Polarization: -31.94 SS G_CDS: 3.59 Total: -28.34 kcal Atomic # 7 Polarization: -65.81 SS G_CDS: -1.63 Total: -67.45 kcal Atomic # 8 Polarization: -51.12 SS G_CDS: -2.09 Total: -53.21 kcal Atomic # 14 Polarization: 38.26 SS G_CDS: 2.03 Total: 40.29 kcal Atomic # 16 Polarization: 0.11 SS G_CDS: -1.26 Total: -1.14 kcal Total: -63.89 0.46 -63.43 kcal The number of atoms in the molecule is 44 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. ZINC000889121253.mol2 44 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 -44.398 kcal (2) G-P(sol) polarization free energy of solvation -63.888 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -108.286 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.457 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -63.431 kcal (6) G-S(sol) free energy of system = (1) + (5) -107.829 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.67 seconds