Wall clock time and date at job start Tue Mar 31 2020 22:34:23 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 1.31625 * 1 3 3 Si 1.86800 * 120.00362 * 2 1 4 4 H 1.48501 * 109.46758 * 269.72203 * 3 2 1 5 5 H 1.48499 * 109.47026 * 29.72051 * 3 2 1 6 6 H 1.48496 * 109.47474 * 149.72086 * 3 2 1 7 7 C 1.38803 * 119.99820 * 179.72030 * 2 1 3 8 8 H 1.08001 * 120.00210 * 0.28248 * 7 2 1 9 9 S 1.76201 * 120.00168 * 180.27733 * 7 2 1 10 10 C 1.80999 * 100.00238 * 180.02562 * 9 7 2 11 11 C 1.50693 * 109.47143 * 180.02562 * 10 9 7 12 12 O 1.21278 * 120.00265 * 359.97438 * 11 10 9 13 13 N 1.34779 * 120.00194 * 180.02562 * 11 10 9 14 14 C 1.46495 * 120.00259 * 179.97438 * 13 11 10 15 15 C 1.53003 * 109.47318 * 179.97438 * 14 13 11 16 16 H 1.09006 * 112.84873 * 43.80478 * 15 14 13 17 17 C 1.53775 * 113.61791 * 175.00026 * 15 14 13 18 18 C 1.53781 * 87.08297 * 139.98468 * 17 15 14 19 19 H 1.09008 * 113.61601 * 220.02353 * 18 17 15 20 20 N 1.46491 * 113.61848 * 89.11898 * 18 17 15 21 21 C 1.34775 * 120.00405 * 155.00437 * 20 18 17 22 22 O 1.21553 * 119.99738 * 359.97438 * 21 20 18 23 23 C 1.47873 * 119.99996 * 180.02562 * 21 20 18 24 24 N 1.34549 * 126.04389 * 179.97438 * 23 21 20 25 25 C 1.30880 * 107.26703 * 179.97438 * 24 23 21 26 26 N 1.34588 * 107.62212 * 0.02562 * 25 24 23 27 27 H 0.96998 * 125.74170 * 180.02562 * 26 25 24 28 28 N 1.28851 * 108.50357 * 359.72922 * 26 25 24 29 29 C 1.53782 * 87.08071 * 334.56802 * 18 17 15 30 30 H 0.97004 * 119.99711 * 0.02562 * 1 2 3 31 31 H 1.08998 * 109.47342 * 300.00378 * 10 9 7 32 32 H 1.09001 * 109.47104 * 59.99990 * 10 9 7 33 33 H 0.97010 * 119.99644 * 359.97438 * 13 11 10 34 34 H 1.08992 * 109.47267 * 299.99796 * 14 13 11 35 35 H 1.09001 * 109.47023 * 59.99818 * 14 13 11 36 36 H 1.08994 * 113.61418 * 254.53035 * 17 15 14 37 37 H 1.09001 * 113.61188 * 25.43627 * 17 15 14 38 38 H 0.97005 * 119.99751 * 334.99725 * 20 18 17 39 39 H 1.07996 * 126.18671 * 179.97438 * 25 24 23 40 40 H 1.08998 * 113.61732 * 270.88714 * 29 18 17 41 41 H 1.08995 * 113.61670 * 139.98233 * 29 18 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 1.3163 0.0000 0.0000 3 14 2.2504 1.6177 0.0000 4 1 2.5037 2.0429 -1.4001 5 1 1.4449 2.6543 0.6941 6 1 3.5449 1.4418 0.7059 7 6 2.0102 -1.2021 0.0059 8 1 1.4702 -2.1374 0.0058 9 16 3.7722 -1.2022 0.0133 10 6 4.0865 -2.9846 0.0182 11 6 5.5729 -3.2326 0.0255 12 8 6.3439 -2.2965 0.0268 13 7 6.0455 -4.4948 0.0296 14 6 7.4905 -4.7359 0.0362 15 6 7.7562 -6.2427 0.0405 16 1 7.1187 -6.7869 -0.6564 17 6 9.2459 -6.6059 -0.0752 18 6 8.9754 -7.7132 0.9570 19 1 9.7705 -7.8268 1.6940 20 7 8.5664 -8.9862 0.3586 21 6 8.7766 -10.1408 1.0213 22 8 9.3059 -10.1258 2.1154 23 6 8.3642 -11.4258 0.4170 24 7 8.5149 -12.6442 0.9676 25 6 8.0250 -13.5156 0.1229 26 7 7.5733 -12.8361 -0.9474 27 1 7.1575 -13.2262 -1.7322 28 7 7.7805 -11.5795 -0.7513 29 6 7.7967 -6.8572 1.4497 30 1 -0.4850 0.8401 -0.0004 31 1 3.6398 -3.4299 0.9071 32 1 3.6473 -3.4335 -0.8728 33 1 5.4288 -5.2437 0.0282 34 1 7.9372 -4.2904 -0.8525 35 1 7.9296 -4.2874 0.9274 36 1 9.5280 -6.9844 -1.0577 37 1 9.9150 -5.8254 0.2869 38 1 8.1442 -8.9982 -0.5146 39 1 7.9904 -14.5863 0.2596 40 1 8.0695 -6.1453 2.2287 41 1 6.9088 -7.4384 1.6983 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 ZINC001679117827.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 22:34:23 Heat of formation + Delta-G solvation = 4.203990 kcal Electronic energy + Delta-G solvation = -25043.146827 eV Core-core repulsion = 21085.631867 eV Total energy + Delta-G solvation = -3957.514959 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.60 seconds Orbital eigenvalues (eV) -44.48019 -41.38881 -40.52772 -39.31444 -35.81554 -34.67124 -34.46451 -34.40152 -32.39115 -31.33195 -28.45801 -27.80389 -26.67197 -25.95297 -23.97285 -23.37382 -21.97137 -21.69759 -20.40439 -19.85441 -19.72265 -18.57256 -17.81864 -17.44000 -17.37860 -17.09771 -16.94918 -16.69554 -15.95609 -15.84061 -15.79760 -15.54468 -15.08146 -14.99013 -14.89608 -14.57627 -13.95451 -13.55795 -13.39724 -13.33537 -13.25785 -13.02267 -12.88236 -12.66954 -12.00343 -11.87412 -11.80433 -11.68054 -11.63317 -11.39858 -11.27229 -11.16773 -10.92286 -10.80444 -10.52850 -10.18112 -10.05163 -8.98949 -8.51330 -6.21964 0.22230 1.00402 1.13170 1.31706 1.47692 1.57240 1.58576 1.59770 1.99611 2.19942 2.24367 2.29658 2.72950 2.86962 3.16144 3.47655 3.51797 3.56714 3.81703 3.85681 3.95607 4.04674 4.24225 4.33172 4.48310 4.58435 4.67651 4.80923 4.84220 4.87410 4.89223 5.06199 5.11791 5.17120 5.23520 5.45285 5.58373 5.70911 5.91986 6.11545 6.30134 6.50493 6.91974 6.93951 7.06599 7.23074 8.61000 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.022011 B = 0.001679 C = 0.001599 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1271.770892 B =16669.672312 C =17503.326782 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.917 5.917 2 C 0.045 3.955 3 Si 0.915 3.085 4 H -0.262 1.262 5 H -0.259 1.259 6 H -0.237 1.237 7 C -0.529 4.529 8 H 0.062 0.938 9 S -0.177 6.177 10 C -0.112 4.112 11 C 0.533 3.467 12 O -0.565 6.565 13 N -0.710 5.710 14 C 0.130 3.870 15 C -0.111 4.111 16 H 0.114 0.886 17 C -0.120 4.120 18 C 0.115 3.885 19 H 0.095 0.905 20 N -0.679 5.679 21 C 0.613 3.387 22 O -0.555 6.555 23 C 0.120 3.880 24 N -0.517 5.517 25 C 0.219 3.781 26 N -0.378 5.378 27 H 0.473 0.527 28 N -0.273 5.273 29 C -0.146 4.146 30 H 0.277 0.723 31 H 0.112 0.888 32 H 0.114 0.886 33 H 0.416 0.584 34 H 0.065 0.935 35 H 0.062 0.938 36 H 0.093 0.907 37 H 0.110 0.890 38 H 0.419 0.581 39 H 0.282 0.718 40 H 0.095 0.905 41 H 0.069 0.931 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 18.679 -30.968 -5.361 36.560 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 -0.555 5.555 2 C -0.160 4.160 3 Si 0.737 3.263 4 H -0.186 1.186 5 H -0.184 1.184 6 H -0.161 1.161 7 C -0.677 4.677 8 H 0.080 0.920 9 S 0.050 5.950 10 C -0.263 4.263 11 C 0.319 3.681 12 O -0.443 6.443 13 N -0.364 5.364 14 C 0.007 3.993 15 C -0.130 4.130 16 H 0.132 0.868 17 C -0.158 4.158 18 C 0.010 3.990 19 H 0.113 0.887 20 N -0.331 5.331 21 C 0.396 3.604 22 O -0.429 6.429 23 C -0.160 4.160 24 N -0.242 5.242 25 C -0.078 4.078 26 N -0.104 5.104 27 H 0.325 0.675 28 N -0.116 5.116 29 C -0.184 4.184 30 H 0.086 0.914 31 H 0.130 0.870 32 H 0.132 0.868 33 H 0.252 0.748 34 H 0.083 0.917 35 H 0.080 0.920 36 H 0.112 0.888 37 H 0.128 0.872 38 H 0.256 0.744 39 H 0.297 0.703 40 H 0.114 0.886 41 H 0.088 0.912 Dipole moment (debyes) X Y Z Total from point charges 20.251 -28.792 -4.531 35.490 hybrid contribution -2.041 -1.150 -0.710 2.448 sum 18.210 -29.942 -5.241 35.434 Atomic orbital electron populations 1.70017 1.07296 1.29006 1.49157 1.25572 0.95285 1.02274 0.92896 0.85859 0.80646 0.79569 0.80243 1.18631 1.18375 1.16118 1.22471 0.90308 0.96684 1.58238 0.91969 1.84710 1.06365 1.06376 1.97583 1.23280 0.96171 0.99478 1.07376 1.19934 0.89277 0.83545 0.75385 1.90689 1.59310 1.43926 1.50418 1.45757 1.09020 1.06545 1.75042 1.21448 0.79676 0.96136 1.02042 1.22837 0.98684 0.93178 0.98258 0.86789 1.23268 0.95578 0.96933 1.00026 1.21934 0.98058 0.81738 0.97306 0.88727 1.45295 1.61180 1.04226 1.22438 1.16564 0.78094 0.81916 0.83849 1.90817 1.43983 1.86842 1.21277 1.23610 1.05865 0.94897 0.91607 1.71269 1.22462 0.99250 1.31249 1.27657 0.94687 1.02635 0.82813 1.45190 1.42705 1.02832 1.19668 0.67504 1.74149 1.17688 1.01748 1.18055 1.23543 0.98799 0.98858 0.97219 0.91383 0.87021 0.86821 0.74774 0.91654 0.92004 0.88797 0.87189 0.74356 0.70293 0.88624 0.91230 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 -0.92 -55.84 13.97 21.65 0.30 -55.53 16 2 C 0.05 2.65 5.50 84.86 0.47 3.12 16 3 Si 0.91 45.08 27.74 68.60 1.90 46.98 16 4 H -0.26 -12.54 7.11 99.48 0.71 -11.84 16 5 H -0.26 -11.99 7.11 99.48 0.71 -11.29 16 6 H -0.24 -11.69 6.74 99.48 0.67 -11.02 16 7 C -0.53 -30.83 10.04 67.96 0.68 -30.15 16 8 H 0.06 3.81 8.03 -2.91 -0.02 3.79 16 9 S -0.18 -8.93 18.55 -56.49 -1.05 -9.97 16 10 C -0.11 -4.16 6.16 71.23 0.44 -3.72 16 11 C 0.53 17.80 7.85 87.65 0.69 18.49 16 12 O -0.56 -23.77 15.86 -3.02 -0.05 -23.82 16 13 N -0.71 -15.45 5.56 -463.08 -2.57 -18.02 16 14 C 0.13 2.32 5.51 86.38 0.48 2.80 16 15 C -0.11 -1.19 3.63 -10.27 -0.04 -1.23 16 16 H 0.11 0.91 8.14 -2.38 -0.02 0.89 16 17 C -0.12 -1.07 7.39 31.12 0.23 -0.84 16 18 C 0.11 1.53 4.32 45.52 0.20 1.72 16 19 H 0.09 1.60 7.47 -2.38 -0.02 1.58 16 20 N -0.68 -9.51 5.26 -442.89 -2.33 -11.84 16 21 C 0.61 13.12 7.83 86.79 0.68 13.80 16 22 O -0.55 -16.50 16.69 -3.88 -0.06 -16.56 16 23 C 0.12 2.21 7.96 137.13 1.09 3.30 16 24 N -0.52 -9.20 11.41 -193.02 -2.20 -11.40 16 25 C 0.22 1.06 13.14 180.30 2.37 3.43 16 26 N -0.38 -1.19 6.93 -60.37 -0.42 -1.61 16 27 H 0.47 -2.91 8.96 -219.80 -1.97 -4.88 16 28 N -0.27 -3.17 11.98 -52.44 -0.63 -3.80 16 29 C -0.15 -1.92 7.43 31.12 0.23 -1.68 16 30 H 0.28 15.58 8.31 -92.71 -0.77 14.81 16 31 H 0.11 3.82 8.14 -2.40 -0.02 3.80 16 32 H 0.11 3.83 8.14 -2.39 -0.02 3.81 16 33 H 0.42 6.48 8.47 -92.70 -0.79 5.70 16 34 H 0.07 1.27 8.14 -2.39 -0.02 1.25 16 35 H 0.06 1.25 7.84 -2.39 -0.02 1.23 16 36 H 0.09 0.62 8.14 -2.39 -0.02 0.60 16 37 H 0.11 0.91 8.10 -2.39 -0.02 0.89 16 38 H 0.42 4.00 8.40 -92.70 -0.78 3.22 16 39 H 0.28 -2.01 8.06 -2.91 -0.02 -2.03 16 40 H 0.10 1.34 7.89 -2.39 -0.02 1.32 16 41 H 0.07 1.01 8.14 -2.39 -0.02 0.99 16 Total: -1.00 -91.66 372.05 -2.05 -93.72 By element: Atomic # 1 Polarization: 5.28 SS G_CDS: -2.46 Total: 2.82 kcal Atomic # 6 Polarization: 1.52 SS G_CDS: 7.51 Total: 9.03 kcal Atomic # 7 Polarization: -94.35 SS G_CDS: -7.85 Total: -102.20 kcal Atomic # 8 Polarization: -40.26 SS G_CDS: -0.11 Total: -40.38 kcal Atomic # 14 Polarization: 45.08 SS G_CDS: 1.90 Total: 46.98 kcal Atomic # 16 Polarization: -8.93 SS G_CDS: -1.05 Total: -9.97 kcal Total: -91.66 -2.05 -93.72 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. ZINC001679117827.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 97.920 kcal (2) G-P(sol) polarization free energy of solvation -91.663 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 6.257 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.053 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -93.716 kcal (6) G-S(sol) free energy of system = (1) + (5) 4.204 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.60 seconds