Wall clock time and date at job start Tue Mar 31 2020 22:35:25 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 1.31632 * 1 3 3 Si 1.86810 * 119.99738 * 2 1 4 4 H 1.48501 * 109.46719 * 180.02562 * 3 2 1 5 5 H 1.48495 * 109.46906 * 299.99928 * 3 2 1 6 6 H 1.48501 * 109.46912 * 60.00077 * 3 2 1 7 7 C 1.38796 * 120.00007 * 179.97438 * 2 1 3 8 8 H 1.07999 * 119.99586 * 180.02562 * 7 2 1 9 9 S 1.76194 * 120.00350 * 359.97438 * 7 2 1 10 10 C 1.80997 * 100.00172 * 179.97438 * 9 7 2 11 11 C 1.50696 * 109.47029 * 179.97438 * 10 9 7 12 12 O 1.21289 * 120.00358 * 0.02562 * 11 10 9 13 13 N 1.34776 * 120.00218 * 179.97438 * 11 10 9 14 14 C 1.46497 * 120.00208 * 180.02562 * 13 11 10 15 15 H 1.09002 * 109.52827 * 325.07968 * 14 13 11 16 16 C 1.53039 * 109.49824 * 205.00216 * 14 13 11 17 17 C 1.53044 * 109.53044 * 178.67671 * 16 14 13 18 18 C 1.53196 * 109.31105 * 61.37118 * 17 16 14 19 19 N 1.46930 * 108.77694 * 305.36890 * 18 17 16 20 20 C 1.34772 * 120.62812 * 233.63383 * 19 18 17 21 21 O 1.21558 * 119.99853 * 172.78686 * 20 19 18 22 22 C 1.47869 * 120.00154 * 352.78346 * 20 19 18 23 23 N 1.34544 * 126.04935 * 351.83236 * 22 20 19 24 24 C 1.30871 * 107.27132 * 179.89747 * 23 22 20 25 25 N 1.34586 * 107.62333 * 0.35785 * 24 23 22 26 26 H 0.97001 * 125.74735 * 179.73172 * 25 24 23 27 27 N 1.28847 * 108.50137 * 359.77555 * 25 24 23 28 28 C 1.46925 * 118.73962 * 53.60272 * 19 18 17 29 29 H 0.96997 * 120.00197 * 359.97438 * 1 2 3 30 30 H 1.08996 * 109.47027 * 60.00390 * 10 9 7 31 31 H 1.08998 * 109.47148 * 299.99925 * 10 9 7 32 32 H 0.97000 * 119.99687 * 359.97438 * 13 11 10 33 33 H 1.09001 * 109.46363 * 58.66127 * 16 14 13 34 34 H 1.09006 * 109.46321 * 298.69183 * 16 14 13 35 35 H 1.08994 * 109.49849 * 181.31908 * 17 16 14 36 36 H 1.09000 * 109.49847 * 301.38867 * 17 16 14 37 37 H 1.09001 * 109.58625 * 65.15087 * 18 17 16 38 38 H 1.08996 * 109.58932 * 185.58082 * 18 17 16 39 39 H 1.08002 * 126.19033 * 180.13102 * 24 23 22 40 40 H 1.09009 * 109.58353 * 66.18297 * 28 19 18 41 41 H 1.08998 * 109.58890 * 186.60686 * 28 19 18 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 1.3163 0.0000 0.0000 3 14 2.2503 1.6179 0.0000 4 1 3.7103 1.3465 -0.0006 5 1 1.8915 2.3965 -1.2125 6 1 1.8915 2.3965 1.2125 7 6 2.0103 -1.2020 0.0005 8 1 3.0903 -1.2019 0.0010 9 16 1.1294 -2.7279 0.0019 10 6 2.5160 -3.8913 0.0013 11 6 1.9876 -5.3026 0.0030 12 8 0.7912 -5.5023 0.0040 13 7 2.8443 -6.3430 0.0024 14 6 2.3306 -7.7150 0.0035 15 1 1.4146 -7.7606 0.5926 16 6 3.3766 -8.6516 0.6123 17 6 2.8277 -10.0799 0.6441 18 6 2.5384 -10.5433 -0.7871 19 7 1.6463 -9.5681 -1.4289 20 6 0.4922 -9.9654 -2.0003 21 8 -0.2987 -9.1388 -2.4111 22 6 0.1881 -11.4069 -2.1277 23 7 1.0313 -12.4206 -1.8604 24 6 0.3862 -13.5348 -2.0950 25 7 -0.8506 -13.2091 -2.5140 26 1 -1.5476 -13.8356 -2.7641 27 7 -0.9526 -11.9247 -2.5278 28 6 2.0359 -8.1514 -1.4351 29 1 -0.4850 0.8400 0.0004 30 1 3.1252 -3.7309 0.8908 31 1 3.1239 -3.7317 -0.8892 32 1 3.8011 -6.1834 0.0005 33 1 3.6065 -8.3283 1.6276 34 1 4.2837 -8.6245 0.0085 35 1 3.5638 -10.7425 1.0992 36 1 1.9073 -10.1031 1.2275 37 1 3.4719 -10.6076 -1.3462 38 1 2.0557 -11.5203 -0.7644 39 1 0.7769 -14.5348 -1.9775 40 1 2.9285 -8.0207 -2.0470 41 1 1.2217 -7.5503 -1.8398 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 ZINC001071096011.mol2 41 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 22:35:25 Heat of formation + Delta-G solvation = -0.274063 kcal Electronic energy + Delta-G solvation = -26345.494357 eV Core-core repulsion = 22387.785214 eV Total energy + Delta-G solvation = -3957.709142 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.55 seconds Orbital eigenvalues (eV) -44.53986 -41.45190 -40.44808 -38.50424 -35.88722 -34.59985 -34.56660 -33.34712 -32.50126 -31.83820 -29.77271 -27.67948 -27.30533 -24.95688 -24.22474 -23.70987 -22.04599 -21.71629 -20.61795 -19.82234 -19.50580 -18.13264 -17.82519 -17.58989 -17.51643 -17.07785 -16.88184 -16.59103 -16.02137 -15.89005 -15.59964 -15.43344 -15.12967 -14.78170 -14.51616 -14.30791 -14.16899 -13.85921 -13.56241 -13.21476 -13.16087 -12.91741 -12.66502 -12.57934 -12.27540 -12.02414 -11.76757 -11.75605 -11.63792 -11.58202 -11.16119 -11.04744 -10.86408 -10.73871 -10.42520 -10.25878 -9.66961 -8.67678 -8.34483 -6.13223 0.23866 1.11153 1.23230 1.35619 1.41699 1.48754 1.58620 1.61307 2.03913 2.13916 2.26964 2.34297 2.94087 2.99547 3.32339 3.48039 3.68005 3.78160 3.94653 4.00912 4.03404 4.15163 4.23389 4.32002 4.50109 4.51806 4.61740 4.73309 4.79419 4.86828 4.98817 5.03874 5.13899 5.21950 5.38864 5.42035 5.45303 5.63579 5.95950 6.17746 6.20216 6.51029 6.78598 7.03913 7.06392 7.25326 8.75163 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.025552 B = 0.002119 C = 0.001994 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1095.540630 B =13209.486002 C =14039.540334 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.913 5.913 2 C 0.009 3.991 3 Si 1.002 2.998 4 H -0.254 1.254 5 H -0.275 1.275 6 H -0.274 1.274 7 C -0.542 4.542 8 H 0.086 0.914 9 S -0.161 6.161 10 C -0.126 4.126 11 C 0.531 3.469 12 O -0.566 6.566 13 N -0.703 5.703 14 C 0.138 3.862 15 H 0.053 0.947 16 C -0.118 4.118 17 C -0.125 4.125 18 C 0.074 3.926 19 N -0.584 5.584 20 C 0.597 3.403 21 O -0.572 6.572 22 C 0.132 3.868 23 N -0.496 5.496 24 C 0.227 3.773 25 N -0.383 5.383 26 H 0.472 0.528 27 N -0.286 5.286 28 C 0.104 3.896 29 H 0.270 0.730 30 H 0.115 0.885 31 H 0.113 0.887 32 H 0.422 0.578 33 H 0.085 0.915 34 H 0.101 0.899 35 H 0.119 0.881 36 H 0.049 0.951 37 H 0.091 0.909 38 H 0.143 0.857 39 H 0.293 0.707 40 H 0.099 0.901 41 H 0.050 0.950 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 12.507 -35.870 -1.270 38.010 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 -0.550 5.550 2 C -0.195 4.195 3 Si 0.824 3.176 4 H -0.177 1.177 5 H -0.201 1.201 6 H -0.199 1.199 7 C -0.690 4.690 8 H 0.104 0.896 9 S 0.066 5.934 10 C -0.277 4.277 11 C 0.317 3.683 12 O -0.443 6.443 13 N -0.358 5.358 14 C 0.032 3.968 15 H 0.072 0.928 16 C -0.156 4.156 17 C -0.164 4.164 18 C -0.046 4.046 19 N -0.316 5.316 20 C 0.382 3.618 21 O -0.449 6.449 22 C -0.148 4.148 23 N -0.224 5.224 24 C -0.068 4.068 25 N -0.108 5.108 26 H 0.323 0.677 27 N -0.127 5.127 28 C -0.020 4.020 29 H 0.079 0.921 30 H 0.133 0.867 31 H 0.131 0.869 32 H 0.260 0.740 33 H 0.104 0.896 34 H 0.120 0.880 35 H 0.137 0.863 36 H 0.068 0.932 37 H 0.109 0.891 38 H 0.159 0.841 39 H 0.308 0.692 40 H 0.117 0.883 41 H 0.068 0.932 Dipole moment (debyes) X Y Z Total from point charges 9.857 -35.156 -1.522 36.544 hybrid contribution 0.890 1.169 -0.313 1.502 sum 10.747 -33.987 -1.835 35.693 Atomic orbital electron populations 1.70212 1.08106 1.28526 1.48168 1.26202 0.95995 1.03538 0.93792 0.84856 0.78668 0.76083 0.78007 1.17733 1.20059 1.19914 1.23237 0.95393 0.91762 1.58632 0.89623 1.85739 1.10961 0.99629 1.97059 1.23351 1.03376 0.93852 1.07110 1.20234 0.86278 0.86978 0.74797 1.90742 1.17799 1.86068 1.49723 1.45666 1.10427 1.04126 1.75574 1.21221 0.98953 0.81408 0.95193 0.92838 1.21853 0.97388 0.93785 1.02530 1.21922 1.02146 0.95998 0.96290 1.22987 0.94912 0.94068 0.92618 1.47831 1.20090 1.08692 1.55000 1.16943 0.81617 0.84895 0.78336 1.90860 1.48730 1.54050 1.51237 1.23221 0.89093 0.95159 1.07309 1.71014 1.30777 0.97581 1.23011 1.27898 0.82133 1.02035 0.94778 1.45249 1.15668 1.03728 1.46188 0.67670 1.74320 1.24203 0.94605 1.19564 1.22000 1.01099 0.80801 0.98091 0.92054 0.86701 0.86916 0.73968 0.89603 0.88027 0.86250 0.93163 0.89060 0.84059 0.69196 0.88261 0.93158 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 -57.98 13.22 21.65 0.29 -57.69 16 2 C 0.01 0.53 5.49 84.86 0.47 1.00 16 3 Si 1.00 44.67 29.55 68.60 2.03 46.70 16 4 H -0.25 -10.46 7.11 99.48 0.71 -9.75 16 5 H -0.28 -11.94 7.11 99.48 0.71 -11.24 16 6 H -0.27 -11.82 7.11 99.48 0.71 -11.11 16 7 C -0.54 -31.75 9.50 67.95 0.65 -31.11 16 8 H 0.09 4.61 7.80 -2.91 -0.02 4.59 16 9 S -0.16 -9.34 20.57 -56.49 -1.16 -10.50 16 10 C -0.13 -5.13 6.16 71.23 0.44 -4.69 16 11 C 0.53 20.80 7.82 87.66 0.69 21.49 16 12 O -0.57 -28.79 15.53 -3.06 -0.05 -28.84 16 13 N -0.70 -18.29 5.08 -442.16 -2.25 -20.53 16 14 C 0.14 3.45 2.60 45.07 0.12 3.57 16 15 H 0.05 1.79 7.58 -2.39 -0.02 1.77 16 16 C -0.12 -1.59 5.35 30.62 0.16 -1.42 16 17 C -0.13 -1.50 6.08 30.67 0.19 -1.31 16 18 C 0.07 1.10 6.08 86.36 0.53 1.63 16 19 N -0.58 -14.71 2.97 -822.26 -2.44 -17.16 16 20 C 0.60 19.18 7.69 86.79 0.67 19.84 16 21 O -0.57 -24.77 16.51 -3.90 -0.06 -24.84 16 22 C 0.13 3.19 7.63 137.13 1.05 4.23 16 23 N -0.50 -7.00 7.89 -193.03 -1.52 -8.52 16 24 C 0.23 0.89 13.14 180.30 2.37 3.26 16 25 N -0.38 -2.98 6.93 -60.37 -0.42 -3.40 16 26 H 0.47 -0.66 8.96 -219.80 -1.97 -2.63 16 27 N -0.29 -6.36 12.31 -52.44 -0.65 -7.00 16 28 C 0.10 2.88 6.02 86.36 0.52 3.40 16 29 H 0.27 15.89 8.31 -92.71 -0.77 15.11 16 30 H 0.11 4.12 8.14 -2.40 -0.02 4.10 16 31 H 0.11 4.10 8.14 -2.40 -0.02 4.08 16 32 H 0.42 7.19 8.60 -92.71 -0.80 6.39 16 33 H 0.09 1.05 8.14 -2.39 -0.02 1.03 16 34 H 0.10 0.85 8.14 -2.38 -0.02 0.83 16 35 H 0.12 0.64 8.14 -2.39 -0.02 0.62 16 36 H 0.05 0.81 8.14 -2.39 -0.02 0.79 16 37 H 0.09 0.99 8.14 -2.39 -0.02 0.97 16 38 H 0.14 2.03 4.17 -16.00 -0.07 1.96 16 39 H 0.29 -2.93 8.06 -2.91 -0.02 -2.95 16 40 H 0.10 2.17 8.14 -2.38 -0.02 2.15 16 41 H 0.05 1.96 7.00 -2.39 -0.02 1.94 16 Total: -1.00 -103.13 361.08 -0.13 -103.25 By element: Atomic # 1 Polarization: 10.37 SS G_CDS: -1.72 Total: 8.65 kcal Atomic # 6 Polarization: 12.05 SS G_CDS: 7.83 Total: 19.88 kcal Atomic # 7 Polarization: -107.31 SS G_CDS: -6.99 Total: -114.31 kcal Atomic # 8 Polarization: -53.57 SS G_CDS: -0.11 Total: -53.68 kcal Atomic # 14 Polarization: 44.67 SS G_CDS: 2.03 Total: 46.70 kcal Atomic # 16 Polarization: -9.34 SS G_CDS: -1.16 Total: -10.50 kcal Total: -103.13 -0.13 -103.25 kcal The number of atoms in the molecule is 41 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. ZINC001071096011.mol2 41 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 102.980 kcal (2) G-P(sol) polarization free energy of solvation -103.128 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -0.147 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.127 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -103.255 kcal (6) G-S(sol) free energy of system = (1) + (5) -0.274 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.55 seconds