Wall clock time and date at job start Tue Mar 31 2020 14:30:18 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 1.31558 * 1 3 3 Si 1.86794 * 120.00111 * 2 1 4 4 H 1.48502 * 109.46991 * 179.97438 * 3 2 1 5 5 H 1.48499 * 109.47417 * 299.99926 * 3 2 1 6 6 H 1.48506 * 109.47217 * 60.00451 * 3 2 1 7 7 C 1.38804 * 119.99610 * 180.02562 * 2 1 3 8 8 H 1.08005 * 119.99775 * 180.02562 * 7 2 1 9 9 S 1.76205 * 120.00248 * 359.97438 * 7 2 1 10 10 C 1.76195 * 99.99901 * 185.65626 * 9 7 2 11 11 C 1.39110 * 120.19106 * 6.85682 * 10 9 7 12 12 C 1.37910 * 120.04977 * 180.02562 * 11 10 9 13 13 C 1.38660 * 120.43889 * 359.97438 * 12 11 10 14 14 C 1.37809 * 120.38295 * 0.02562 * 13 12 11 15 15 C 1.39678 * 119.93418 * 0.02562 * 14 13 12 16 16 C 1.47433 * 120.21285 * 180.02562 * 15 14 13 17 17 O 1.21606 * 120.00088 * 179.97438 * 16 15 14 18 18 N 1.34783 * 119.99777 * 359.97438 * 16 15 14 19 19 C 1.46498 * 119.99450 * 179.97438 * 18 16 15 20 20 C 1.53007 * 109.46662 * 180.02562 * 19 18 16 21 21 O 1.42895 * 109.47368 * 64.99885 * 20 19 18 22 22 C 1.42897 * 114.00049 * 179.97438 * 21 20 19 23 23 C 1.50702 * 109.47172 * 180.02562 * 22 21 20 24 24 N 1.34769 * 120.00018 * 180.02562 * 23 22 21 25 25 O 1.21284 * 119.99887 * 0.02562 * 23 22 21 26 26 H 0.96997 * 119.99773 * 359.97438 * 1 2 3 27 27 H 1.07997 * 119.97733 * 359.97438 * 11 10 9 28 28 H 1.08007 * 119.78572 * 179.97438 * 12 11 10 29 29 H 1.08006 * 119.80903 * 180.02562 * 13 12 11 30 30 H 1.07994 * 120.02855 * 179.72374 * 14 13 12 31 31 H 0.97003 * 119.99723 * 0.02562 * 18 16 15 32 32 H 1.09000 * 109.47061 * 299.99762 * 19 18 16 33 33 H 1.09003 * 109.47311 * 60.00209 * 19 18 16 34 34 H 1.08998 * 109.47106 * 185.00446 * 20 19 18 35 35 H 1.09001 * 109.46528 * 304.99995 * 20 19 18 36 36 H 1.08997 * 109.47015 * 299.99739 * 22 21 20 37 37 H 1.09000 * 109.47005 * 60.00377 * 22 21 20 38 38 H 0.96998 * 120.00450 * 359.97438 * 24 23 22 39 39 H 0.97004 * 120.00330 * 179.97438 * 24 23 22 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 1.3156 0.0000 0.0000 3 14 2.2496 1.6177 0.0000 4 1 3.7096 1.3463 0.0006 5 1 1.8909 2.3964 -1.2125 6 1 1.8909 2.3964 1.2126 7 6 2.0095 -1.2021 -0.0005 8 1 3.0896 -1.2022 -0.0001 9 16 1.1285 -2.7281 -0.0005 10 6 2.4709 -3.8565 0.1697 11 6 3.7583 -3.3824 0.4005 12 6 4.8070 -4.2682 0.5328 13 6 4.5889 -5.6343 0.4379 14 6 3.3210 -6.1235 0.2096 15 6 2.2475 -5.2405 0.0721 16 6 0.8884 -5.7572 -0.1717 17 8 -0.0435 -4.9850 -0.2904 18 7 0.6787 -7.0855 -0.2631 19 6 -0.6719 -7.5989 -0.5048 20 6 -0.6334 -9.1274 -0.5638 21 8 -0.2555 -9.6440 0.7137 22 6 -0.1897 -11.0705 0.7674 23 6 0.2150 -11.5029 2.1532 24 7 0.3427 -12.8135 2.4398 25 8 0.4257 -10.6713 3.0106 26 1 -0.4850 0.8400 0.0004 27 1 3.9367 -2.3199 0.4753 28 1 5.8048 -3.8955 0.7115 29 1 5.4176 -6.3189 0.5435 30 1 3.1584 -7.1883 0.1322 31 1 1.4221 -7.7015 -0.1681 32 1 -1.3307 -7.2834 0.3042 33 1 -1.0454 -7.2077 -1.4512 34 1 -1.6200 -9.5056 -0.8314 35 1 0.0924 -9.4438 -1.3129 36 1 -1.1673 -11.4886 0.5278 37 1 0.5452 -11.4277 0.0459 38 1 0.1738 -13.4786 1.7543 39 1 0.6035 -13.0919 3.3317 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 ZINC001116361523.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 14:30:18 Heat of formation + Delta-G solvation = -120.649586 kcal Electronic energy + Delta-G solvation = -23912.153313 eV Core-core repulsion = 20137.895075 eV Total energy + Delta-G solvation = -3774.258238 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) -40.99916 -40.52319 -39.07877 -38.47619 -35.71325 -34.75891 -34.66659 -32.50083 -31.78269 -30.47446 -28.30203 -27.83713 -25.01221 -23.59752 -23.05621 -21.82874 -21.61983 -19.96268 -18.83575 -18.58047 -18.01705 -17.58636 -17.27583 -17.05034 -16.97703 -16.71353 -15.98095 -15.91988 -15.58841 -15.33813 -15.21777 -15.02664 -14.67296 -14.29209 -14.10572 -13.63289 -13.37819 -13.28422 -13.00153 -12.96235 -12.84448 -12.54592 -12.29870 -12.03249 -11.48616 -11.41591 -11.27154 -10.97280 -10.72381 -10.59406 -10.41390 -10.11346 -9.89941 -9.74755 -8.46045 -8.44421 -6.23673 0.04485 0.53951 1.26901 1.35736 1.46032 1.63496 1.65420 2.02598 2.11243 2.19255 2.33659 2.88078 3.04948 3.16762 3.25983 3.89579 3.98314 4.02148 4.11497 4.23696 4.26990 4.33934 4.39291 4.52106 4.61694 4.62554 4.68263 4.85439 4.93361 5.11600 5.37013 5.46030 5.53223 5.57811 5.67112 5.87462 6.10558 6.11764 6.16939 6.54017 6.65185 6.96347 7.38474 7.39275 8.61445 Molecular weight = 324.10amu Principal moments of inertia in cm(-1) A = 0.020150 B = 0.002721 C = 0.002522 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1389.234373 B =10286.444009 C =11100.322610 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.906 5.906 2 C 0.022 3.978 3 Si 0.996 3.004 4 H -0.257 1.257 5 H -0.269 1.269 6 H -0.270 1.270 7 C -0.601 4.601 8 H 0.095 0.905 9 S 0.062 5.938 10 C -0.072 4.072 11 C -0.175 4.175 12 C -0.069 4.069 13 C -0.158 4.158 14 C -0.055 4.055 15 C -0.183 4.183 16 C 0.543 3.457 17 O -0.558 6.558 18 N -0.710 5.710 19 C 0.117 3.883 20 C 0.061 3.939 21 O -0.400 6.400 22 C 0.040 3.960 23 C 0.507 3.493 24 N -0.832 5.832 25 O -0.590 6.590 26 H 0.276 0.724 27 H 0.120 0.880 28 H 0.151 0.849 29 H 0.166 0.834 30 H 0.156 0.844 31 H 0.411 0.589 32 H 0.048 0.952 33 H 0.087 0.913 34 H 0.098 0.902 35 H 0.090 0.910 36 H 0.113 0.887 37 H 0.118 0.882 38 H 0.422 0.578 39 H 0.409 0.591 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 4.841 -29.735 -2.665 30.244 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 -0.541 5.541 2 C -0.183 4.183 3 Si 0.817 3.183 4 H -0.180 1.180 5 H -0.194 1.194 6 H -0.195 1.195 7 C -0.747 4.747 8 H 0.112 0.888 9 S 0.320 5.680 10 C -0.190 4.190 11 C -0.200 4.200 12 C -0.090 4.090 13 C -0.181 4.181 14 C -0.074 4.074 15 C -0.196 4.196 16 C 0.332 3.668 17 O -0.439 6.439 18 N -0.364 5.364 19 C -0.006 4.006 20 C -0.016 4.016 21 O -0.320 6.320 22 C -0.039 4.039 23 C 0.292 3.708 24 N -0.398 5.398 25 O -0.470 6.470 26 H 0.085 0.915 27 H 0.138 0.862 28 H 0.169 0.831 29 H 0.183 0.817 30 H 0.174 0.826 31 H 0.249 0.751 32 H 0.066 0.934 33 H 0.105 0.895 34 H 0.116 0.884 35 H 0.108 0.892 36 H 0.131 0.869 37 H 0.136 0.864 38 H 0.254 0.746 39 H 0.240 0.760 Dipole moment (debyes) X Y Z Total from point charges 2.678 -28.271 -2.328 28.493 hybrid contribution 1.500 0.817 0.267 1.729 sum 4.178 -27.454 -2.061 27.846 Atomic orbital electron populations 1.70147 1.08066 1.29105 1.46794 1.26184 0.95892 1.03513 0.92736 0.84959 0.78763 0.76189 0.78412 1.18038 1.19443 1.19530 1.24281 0.97064 0.94353 1.59020 0.88775 1.84943 1.06539 0.95459 1.81022 1.22990 0.99767 0.97292 0.98980 1.21457 0.92216 1.00959 1.05402 1.21541 0.98561 0.93747 0.95167 1.21320 0.97396 0.95237 1.04133 1.21418 0.91649 0.99161 0.95209 1.19533 0.94330 0.92140 1.13628 1.18521 0.88537 0.83023 0.76736 1.90773 1.44889 1.57008 1.51205 1.45588 1.11389 1.05513 1.73950 1.21474 0.83745 0.93614 1.01790 1.22883 1.02749 0.90876 0.85046 1.88054 1.90647 1.20070 1.33204 1.22454 1.04863 0.82657 0.93963 1.20947 0.76086 0.83261 0.90531 1.43574 1.71892 1.06243 1.18098 1.90814 1.51494 1.53652 1.51013 0.91524 0.86235 0.83132 0.81690 0.82648 0.75084 0.93374 0.89487 0.88422 0.89232 0.86888 0.86404 0.74625 0.75969 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 -56.96 13.22 21.65 0.29 -56.67 16 2 C 0.02 1.30 5.49 84.87 0.47 1.77 16 3 Si 1.00 45.13 29.55 68.60 2.03 47.15 16 4 H -0.26 -10.98 7.11 99.48 0.71 -10.28 16 5 H -0.27 -11.72 7.11 99.48 0.71 -11.01 16 6 H -0.27 -11.79 7.11 99.48 0.71 -11.08 16 7 C -0.60 -36.19 9.00 67.96 0.61 -35.58 16 8 H 0.09 5.36 4.98 -2.91 -0.01 5.34 16 9 S 0.06 3.72 18.56 -56.49 -1.05 2.67 16 10 C -0.07 -3.58 6.14 23.04 0.14 -3.43 16 11 C -0.18 -7.66 9.22 22.40 0.21 -7.45 16 12 C -0.07 -2.23 10.03 22.29 0.22 -2.00 16 13 C -0.16 -4.26 10.02 22.27 0.22 -4.04 16 14 C -0.05 -1.64 9.53 22.52 0.21 -1.42 16 15 C -0.18 -7.62 5.89 -19.95 -0.12 -7.73 16 16 C 0.54 22.82 7.75 86.66 0.67 23.49 16 17 O -0.56 -29.10 13.77 -4.05 -0.06 -29.15 16 18 N -0.71 -21.08 5.45 -466.34 -2.54 -23.62 16 19 C 0.12 2.92 6.06 86.38 0.52 3.44 16 20 C 0.06 0.84 6.07 71.98 0.44 1.27 16 21 O -0.40 -7.76 9.82 -129.94 -1.28 -9.04 16 22 C 0.04 0.37 6.42 71.24 0.46 0.83 16 23 C 0.51 8.14 8.18 87.66 0.72 8.86 16 24 N -0.83 -4.65 8.87 -173.54 -1.54 -6.19 16 25 O -0.59 -18.00 17.34 15.99 0.28 -17.72 16 26 H 0.28 15.91 8.31 -92.71 -0.77 15.14 16 27 H 0.12 5.61 5.03 -2.91 -0.01 5.59 16 28 H 0.15 3.69 8.06 -2.91 -0.02 3.67 16 29 H 0.17 2.89 8.06 -2.91 -0.02 2.86 16 30 H 0.16 3.26 6.40 -2.91 -0.02 3.24 16 31 H 0.41 9.50 6.50 -92.71 -0.60 8.89 16 32 H 0.05 1.48 8.14 -2.39 -0.02 1.46 16 33 H 0.09 2.12 8.14 -2.39 -0.02 2.10 16 34 H 0.10 0.80 8.14 -2.39 -0.02 0.78 16 35 H 0.09 0.72 8.14 -2.39 -0.02 0.70 16 36 H 0.11 0.33 8.14 -2.39 -0.02 0.31 16 37 H 0.12 0.24 8.14 -2.39 -0.02 0.22 16 38 H 0.42 -1.23 8.83 -92.71 -0.82 -2.04 16 39 H 0.41 2.25 8.93 -92.71 -0.83 1.42 16 Total: -1.00 -97.05 351.67 -0.21 -97.26 By element: Atomic # 1 Polarization: 18.42 SS G_CDS: -1.11 Total: 17.31 kcal Atomic # 6 Polarization: -26.77 SS G_CDS: 4.78 Total: -22.00 kcal Atomic # 7 Polarization: -82.69 SS G_CDS: -3.80 Total: -86.48 kcal Atomic # 8 Polarization: -54.86 SS G_CDS: -1.05 Total: -55.91 kcal Atomic # 14 Polarization: 45.13 SS G_CDS: 2.03 Total: 47.15 kcal Atomic # 16 Polarization: 3.72 SS G_CDS: -1.05 Total: 2.67 kcal Total: -97.05 -0.21 -97.26 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. ZINC001116361523.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 -23.388 kcal (2) G-P(sol) polarization free energy of solvation -97.055 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -120.442 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.207 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -97.262 kcal (6) G-S(sol) free energy of system = (1) + (5) -120.650 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.60 seconds