Wall clock time and date at job start Tue Mar 31 2020 14:38:11 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 1.30678 * 1 3 3 Si 1.86797 * 119.99940 * 2 1 4 4 H 1.48500 * 109.47155 * 180.02562 * 3 2 1 5 5 H 1.48508 * 109.47148 * 299.99812 * 3 2 1 6 6 H 1.48494 * 109.47198 * 59.99903 * 3 2 1 7 7 C 1.40041 * 119.99982 * 180.02562 * 2 1 3 8 8 H 1.08001 * 120.00230 * 180.02562 * 7 2 1 9 9 C 1.46374 * 119.99962 * 359.97438 * 7 2 1 10 10 O 1.21688 * 120.00531 * 0.02562 * 9 7 2 11 11 N 1.34785 * 120.00128 * 179.97438 * 9 7 2 12 12 C 1.46502 * 120.00157 * 179.97438 * 11 9 7 13 13 C 1.50699 * 109.47140 * 180.02562 * 12 11 9 14 14 C 1.38306 * 119.96204 * 270.27680 * 13 12 11 15 15 C 1.38265 * 120.14784 * 180.27606 * 14 13 12 16 16 C 1.38133 * 120.07407 * 359.44555 * 15 14 13 17 17 C 1.38886 * 119.92263 * 0.28038 * 16 15 14 18 18 N 1.39676 * 120.07123 * 180.02562 * 17 16 15 19 19 S 1.65593 * 120.00331 * 44.99714 * 18 17 16 20 20 O 1.42103 * 104.28001 * 181.06911 * 19 18 17 21 21 O 1.42103 * 104.27687 * 308.92709 * 19 18 17 22 22 C 1.81400 * 104.44947 * 65.00038 * 19 18 17 23 23 C 1.53007 * 117.49691 * 253.74688 * 22 19 18 24 24 C 1.53001 * 117.50087 * 185.08869 * 22 19 18 25 25 C 1.38089 * 119.96065 * 90.00010 * 13 12 11 26 26 H 0.97002 * 119.99946 * 0.02562 * 1 2 3 27 27 H 0.97005 * 119.99617 * 0.02562 * 11 9 7 28 28 H 1.08996 * 109.46913 * 60.00038 * 12 11 9 29 29 H 1.08999 * 109.46912 * 300.00568 * 12 11 9 30 30 H 1.08001 * 119.92853 * 0.02562 * 14 13 12 31 31 H 1.08002 * 119.96572 * 179.72711 * 15 14 13 32 32 H 1.08000 * 120.03792 * 180.29780 * 16 15 14 33 33 H 0.97002 * 119.99614 * 224.99177 * 18 17 16 34 34 H 1.08994 * 115.55152 * 39.41802 * 22 19 18 35 35 H 1.08996 * 117.50250 * 0.02562 * 23 22 19 36 36 H 1.09000 * 117.49726 * 145.01993 * 23 22 19 37 37 H 1.08993 * 117.50404 * 214.98291 * 24 22 19 38 38 H 1.09006 * 117.49471 * 0.02562 * 24 22 19 39 39 H 1.07998 * 120.03755 * 0.02562 * 25 13 12 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 1.3068 0.0000 0.0000 3 14 2.2407 1.6177 0.0000 4 1 3.7007 1.3464 -0.0006 5 1 1.8820 2.3964 -1.2126 6 1 1.8820 2.3964 1.2124 7 6 2.0070 -1.2128 -0.0005 8 1 3.0870 -1.2128 -0.0001 9 6 1.2751 -2.4804 -0.0005 10 8 0.0582 -2.4805 -0.0005 11 7 1.9490 -3.6477 -0.0016 12 6 1.2165 -4.9165 -0.0010 13 6 2.1958 -6.0619 -0.0018 14 6 2.6481 -6.5832 -1.2003 15 6 3.5422 -7.6378 -1.2055 16 6 3.9955 -8.1669 -0.0128 17 6 3.5476 -7.6421 1.1926 18 7 4.0043 -8.1743 2.4005 19 16 5.6154 -8.4972 2.6065 20 8 5.6992 -9.0402 3.9171 21 8 5.9658 -9.2726 1.4685 22 6 6.4152 -6.8704 2.5393 23 6 7.2056 -6.5235 1.2759 24 6 7.9442 -6.8327 2.5806 25 6 2.6448 -6.5861 1.1942 26 1 -0.4850 0.8401 -0.0004 27 1 2.9190 -3.6477 -0.0020 28 1 0.5888 -4.9740 -0.8903 29 1 0.5908 -4.9743 0.8896 30 1 2.2990 -6.1681 -2.1343 31 1 3.8901 -8.0454 -2.1432 32 1 4.6976 -8.9875 -0.0176 33 1 3.3778 -8.3548 3.1186 34 1 5.8783 -6.0617 3.0349 35 1 7.2447 -7.2726 0.4851 36 1 7.1889 -5.4865 0.9407 37 1 8.4132 -5.9990 3.1031 38 1 8.4695 -7.7854 2.6478 39 1 2.2943 -6.1759 2.1298 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 ZINC000890862548.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 14:38:11 Heat of formation + Delta-G solvation = -83.255470 kcal Electronic energy + Delta-G solvation = -24620.357524 eV Core-core repulsion = 20847.720816 eV Total energy + Delta-G solvation = -3772.636707 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 324.098 amu Computer time = 0.60 seconds Orbital eigenvalues (eV) -40.75204 -39.25965 -38.45479 -37.82027 -37.23433 -36.50687 -35.05267 -34.40543 -32.08047 -30.18957 -28.73099 -26.50805 -24.58600 -23.54955 -23.48571 -22.73416 -21.69629 -20.33967 -19.43178 -18.94252 -18.52898 -17.74943 -17.41522 -17.21719 -16.69224 -16.33865 -16.15749 -15.91552 -15.80229 -14.98832 -14.74595 -14.57214 -14.39728 -14.21652 -13.81046 -13.55576 -13.40756 -13.30452 -13.05284 -13.03292 -12.74538 -12.61423 -12.59727 -12.32973 -12.26381 -12.12903 -12.04993 -11.97609 -11.62601 -11.36920 -10.94201 -10.08364 -9.70289 -9.49235 -9.34261 -8.28181 -6.84734 -0.91700 0.27537 0.39143 1.41211 1.41691 1.45032 1.59310 2.19360 2.25394 2.48053 2.62659 2.68533 3.16195 3.35840 3.50203 3.62348 3.75736 3.77822 3.85542 3.95443 4.01755 4.29343 4.37560 4.50206 4.57827 4.68953 4.75581 4.80747 4.88399 5.02387 5.03634 5.06620 5.33185 5.35519 5.54252 5.67488 5.81862 5.88367 6.09249 6.21744 6.27277 6.87854 7.55339 8.49593 8.68024 Molecular weight = 324.10amu Principal moments of inertia in cm(-1) A = 0.015938 B = 0.003061 C = 0.002780 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1756.374381 B = 9145.366453 C =10070.735103 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.822 5.822 2 C 0.029 3.971 3 Si 0.997 3.003 4 H -0.246 1.246 5 H -0.269 1.269 6 H -0.270 1.270 7 C -0.571 4.571 8 H 0.088 0.912 9 C 0.538 3.462 10 O -0.633 6.633 11 N -0.747 5.747 12 C 0.174 3.826 13 C -0.081 4.081 14 C -0.113 4.113 15 C -0.090 4.090 16 C -0.153 4.153 17 C 0.142 3.858 18 N -1.052 6.052 19 S 2.650 3.350 20 O -0.983 6.983 21 O -0.965 6.965 22 C -0.688 4.688 23 C -0.123 4.123 24 C -0.124 4.124 25 C -0.118 4.118 26 H 0.274 0.726 27 H 0.395 0.605 28 H 0.045 0.955 29 H 0.042 0.958 30 H 0.131 0.869 31 H 0.157 0.843 32 H 0.161 0.839 33 H 0.432 0.568 34 H 0.169 0.831 35 H 0.121 0.879 36 H 0.123 0.877 37 H 0.132 0.868 38 H 0.117 0.883 39 H 0.130 0.870 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 17.020 -15.139 2.279 22.892 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 -0.452 5.452 2 C -0.186 4.186 3 Si 0.817 3.183 4 H -0.169 1.169 5 H -0.194 1.194 6 H -0.195 1.195 7 C -0.608 4.608 8 H 0.106 0.894 9 C 0.342 3.658 10 O -0.520 6.520 11 N -0.402 5.402 12 C 0.050 3.950 13 C -0.083 4.083 14 C -0.133 4.133 15 C -0.108 4.108 16 C -0.174 4.174 17 C 0.047 3.953 18 N -0.803 5.803 19 S 2.746 3.254 20 O -0.973 6.973 21 O -0.955 6.955 22 C -0.800 4.800 23 C -0.161 4.161 24 C -0.162 4.162 25 C -0.141 4.141 26 H 0.084 0.916 27 H 0.228 0.772 28 H 0.064 0.936 29 H 0.060 0.940 30 H 0.149 0.851 31 H 0.175 0.825 32 H 0.178 0.822 33 H 0.270 0.730 34 H 0.187 0.813 35 H 0.140 0.860 36 H 0.141 0.859 37 H 0.151 0.849 38 H 0.135 0.865 39 H 0.148 0.852 Dipole moment (debyes) X Y Z Total from point charges 16.473 -15.962 2.358 23.059 hybrid contribution -0.478 1.397 0.564 1.581 sum 15.995 -14.565 2.922 21.829 Atomic orbital electron populations 1.70197 1.09544 1.28870 1.36574 1.26965 0.95497 1.04943 0.91225 0.84978 0.79407 0.75460 0.78475 1.16880 1.19413 1.19479 1.21446 0.94740 0.89962 1.54610 0.89375 1.18639 0.86819 0.84288 0.76053 1.90560 1.16262 1.87903 1.57265 1.45829 1.09201 1.04019 1.81144 1.19774 0.92804 0.82215 1.00226 1.19697 0.98083 0.96481 0.93997 1.21307 0.97575 0.96883 0.97495 1.21290 0.95723 0.95046 0.98772 1.22076 1.02698 1.01428 0.91204 1.17273 0.98974 0.94073 0.85018 1.53099 1.27223 1.78591 1.21339 1.03708 0.72571 0.76262 0.72832 1.93576 1.85403 1.77527 1.40844 1.93511 1.82906 1.66946 1.52140 1.32313 1.07870 1.23626 1.16146 1.23054 0.97503 1.05784 0.89769 1.23082 0.86420 1.06173 1.00572 1.21067 0.99271 0.95405 0.98328 0.91595 0.77161 0.93628 0.93978 0.85146 0.82522 0.82161 0.72954 0.81330 0.86046 0.85869 0.84939 0.86459 0.85218 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 -0.82 -49.84 11.83 21.83 0.26 -49.58 16 2 C 0.03 1.57 5.50 85.30 0.47 2.04 16 3 Si 1.00 40.01 29.56 68.60 2.03 42.04 16 4 H -0.25 -9.03 7.11 99.48 0.71 -8.32 16 5 H -0.27 -10.43 7.11 99.48 0.71 -9.72 16 6 H -0.27 -10.46 7.11 99.48 0.71 -9.76 16 7 C -0.57 -31.67 9.54 24.83 0.24 -31.43 16 8 H 0.09 4.35 7.85 -2.91 -0.02 4.33 16 9 C 0.54 30.65 7.75 86.36 0.67 31.32 16 10 O -0.63 -42.02 15.02 -4.31 -0.06 -42.08 16 11 N -0.75 -32.56 5.54 -471.14 -2.61 -35.17 16 12 C 0.17 6.57 5.79 85.63 0.50 7.07 16 13 C -0.08 -2.28 5.25 -19.88 -0.10 -2.38 16 14 C -0.11 -2.70 9.70 22.29 0.22 -2.48 16 15 C -0.09 -1.75 10.04 22.25 0.22 -1.53 16 16 C -0.15 -3.16 9.19 22.40 0.21 -2.95 16 17 C 0.14 3.04 6.13 38.21 0.23 3.27 16 18 N -1.05 -19.06 5.67 -51.37 -0.29 -19.35 16 19 S 2.65 49.30 5.75 -56.49 -0.32 48.97 16 20 O -0.98 -24.21 18.08 -127.65 -2.31 -26.52 16 21 O -0.96 -21.04 14.24 -127.65 -1.82 -22.86 16 22 C -0.69 -9.95 6.44 30.60 0.20 -9.75 16 23 C -0.12 -1.54 10.17 30.62 0.31 -1.23 16 24 C -0.12 -1.35 10.30 30.62 0.32 -1.04 16 25 C -0.12 -2.92 9.62 22.40 0.22 -2.70 16 26 H 0.27 15.00 8.29 -92.71 -0.77 14.23 16 27 H 0.39 14.87 8.44 -92.70 -0.78 14.08 16 28 H 0.05 1.84 8.09 -2.39 -0.02 1.82 16 29 H 0.04 1.70 8.08 -2.39 -0.02 1.68 16 30 H 0.13 2.99 8.06 -2.91 -0.02 2.97 16 31 H 0.16 2.14 8.06 -2.91 -0.02 2.11 16 32 H 0.16 3.24 5.50 -2.91 -0.02 3.23 16 33 H 0.43 6.46 8.92 -96.75 -0.86 5.59 16 34 H 0.17 2.24 8.14 -2.39 -0.02 2.22 16 35 H 0.12 1.46 7.68 -2.39 -0.02 1.44 16 36 H 0.12 1.38 8.14 -2.39 -0.02 1.36 16 37 H 0.13 1.03 8.14 -2.39 -0.02 1.01 16 38 H 0.12 1.01 8.14 -2.38 -0.02 0.99 16 39 H 0.13 3.10 8.06 -2.91 -0.02 3.08 16 Total: -1.00 -82.01 352.00 -1.98 -83.99 By element: Atomic # 1 Polarization: 32.89 SS G_CDS: -0.54 Total: 32.35 kcal Atomic # 6 Polarization: -15.48 SS G_CDS: 3.69 Total: -11.80 kcal Atomic # 7 Polarization: -101.45 SS G_CDS: -2.65 Total: -104.10 kcal Atomic # 8 Polarization: -87.27 SS G_CDS: -4.19 Total: -91.46 kcal Atomic # 14 Polarization: 40.01 SS G_CDS: 2.03 Total: 42.04 kcal Atomic # 16 Polarization: 49.30 SS G_CDS: -0.32 Total: 48.97 kcal Total: -82.01 -1.98 -83.99 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. ZINC000890862548.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 0.734 kcal (2) G-P(sol) polarization free energy of solvation -82.005 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -81.272 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.984 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -83.989 kcal (6) G-S(sol) free energy of system = (1) + (5) -83.255 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.60 seconds