Wall clock time and date at job start Wed Apr 1 2020 05:10:24 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 C 2 2 C 1.52998 * 1 3 3 H 1.08996 * 110.91791 * 2 1 4 4 C 1.54916 * 111.00097 * 236.10397 * 2 1 3 5 5 N 1.47425 * 104.82925 * 204.91608 * 4 2 1 6 6 C 1.36938 * 125.64396 * 204.16470 * 5 4 2 7 7 H 1.07994 * 120.00714 * 354.83108 * 6 5 4 8 8 C 1.38817 * 119.99760 * 174.83686 * 6 5 4 9 9 N 1.31621 * 120.00093 * 7.06129 * 8 6 5 10 10 Si 1.86802 * 120.00053 * 187.05912 * 8 6 5 11 11 H 1.48501 * 109.46907 * 94.98523 * 10 8 6 12 12 H 1.48496 * 109.47377 * 214.98668 * 10 8 6 13 13 H 1.48501 * 109.47212 * 334.98993 * 10 8 6 14 14 C 1.47022 * 108.70707 * 24.12744 * 5 4 2 15 15 C 1.54328 * 107.26739 * 358.93998 * 14 5 4 16 16 H 1.09003 * 110.71839 * 96.16964 * 15 14 5 17 17 N 1.46494 * 110.71857 * 219.26461 * 15 14 5 18 18 C 1.34778 * 120.00383 * 271.16024 * 17 15 14 19 19 O 1.21608 * 119.99909 * 0.02562 * 18 17 15 20 20 C 1.47435 * 120.00302 * 180.02562 * 18 17 15 21 21 C 1.41290 * 126.41356 * 0.02562 * 20 18 17 22 22 N 1.30447 * 108.02333 * 179.97438 * 21 20 18 23 23 N 1.39933 * 108.89295 * 0.02562 * 22 21 20 24 24 C 1.46506 * 125.75176 * 180.02562 * 23 22 21 25 25 C 1.53000 * 109.47032 * 304.97316 * 24 23 22 26 26 C 1.54273 * 110.03499 * 292.16918 * 25 24 23 27 27 C 1.54881 * 104.19720 * 217.10579 * 26 25 24 28 28 C 1.54893 * 102.74902 * 37.93707 * 27 26 25 29 29 C 1.53866 * 110.03592 * 175.00086 * 25 24 23 30 30 C 1.34257 * 108.49829 * 359.74959 * 23 22 21 31 31 H 1.09005 * 109.46766 * 296.09740 * 1 2 3 32 32 H 1.08995 * 109.47196 * 56.09190 * 1 2 3 33 33 H 1.08998 * 109.47513 * 176.09814 * 1 2 3 34 34 H 1.08996 * 110.36701 * 86.07726 * 4 2 1 35 35 H 1.09001 * 110.46014 * 323.80132 * 4 2 1 36 36 H 0.96998 * 120.00290 * 180.02562 * 9 8 6 37 37 H 1.08999 * 109.88197 * 239.52607 * 14 5 4 38 38 H 1.08997 * 110.01106 * 118.42458 * 14 5 4 39 39 H 0.97008 * 120.00158 * 91.15854 * 17 15 14 40 40 H 1.07997 * 125.98686 * 359.97438 * 21 20 18 41 41 H 1.08993 * 109.47027 * 64.97106 * 24 23 22 42 42 H 1.09001 * 109.47348 * 184.97465 * 24 23 22 43 43 H 1.09003 * 110.01384 * 53.60745 * 25 24 23 44 44 H 1.09000 * 110.48371 * 335.78520 * 26 25 24 45 45 H 1.08997 * 110.48475 * 98.42416 * 26 25 24 46 46 H 1.09003 * 110.75690 * 279.62807 * 27 26 25 47 47 H 1.08996 * 110.76025 * 156.25085 * 27 26 25 48 48 H 1.09005 * 110.48798 * 203.37715 * 28 27 26 49 49 H 1.09001 * 110.59543 * 80.79564 * 28 27 26 50 50 H 1.09000 * 110.03726 * 238.57623 * 29 25 24 51 51 H 1.09003 * 110.02933 * 359.95135 * 29 25 24 52 52 H 1.08002 * 126.29788 * 180.24811 * 30 23 22 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 1 1.9191 1.0181 0.0000 4 6 2.0852 -0.8066 -1.2005 5 7 3.4270 -1.2430 -0.7735 6 6 4.4643 -1.5653 -1.6075 7 1 4.3103 -1.5904 -2.6761 8 6 5.7138 -1.8598 -1.0792 9 7 5.8692 -1.9659 0.2235 10 14 7.1747 -2.1055 -2.2172 11 1 7.9220 -0.8287 -2.3459 12 1 8.0699 -3.1486 -1.6554 13 1 6.6934 -2.5343 -3.5550 14 6 3.4675 -1.2742 0.6958 15 6 2.0862 -0.8080 1.2021 16 1 1.4468 -1.6633 1.4207 17 7 2.2285 0.0459 2.3839 18 6 2.2520 -0.5043 3.6140 19 8 2.1554 -1.7096 3.7429 20 6 2.3946 0.3552 4.8034 21 6 2.5160 1.7628 4.8114 22 7 2.6207 2.1519 6.0520 23 7 2.5726 1.0284 6.8848 24 6 2.6576 1.0428 8.3474 25 6 3.9324 1.7714 8.7771 26 6 5.1732 0.9485 8.3730 27 6 6.1655 1.1577 9.5437 28 6 5.2366 1.1569 10.7833 29 6 3.9729 1.9039 10.3095 30 6 2.4295 -0.0643 6.1181 31 1 -0.3633 0.4521 0.9230 32 1 -0.3633 0.5733 -0.8528 33 1 -0.3634 -1.0252 -0.0699 34 1 2.1559 -0.1719 -2.0837 35 1 1.4523 -1.6703 -1.4045 36 1 6.7424 -2.1713 0.5926 37 1 4.2426 -0.5998 1.0597 38 1 3.6661 -2.2885 1.0420 39 1 2.3059 1.0074 2.2811 40 1 2.5211 2.4042 3.9425 41 1 1.7889 1.5584 8.7567 42 1 2.6813 0.0187 8.7200 43 1 3.9716 2.7583 8.3158 44 1 4.9160 -0.1061 8.2747 45 1 5.5958 1.3275 7.4425 46 1 6.6804 2.1136 9.4476 47 1 6.8800 0.3363 9.5960 48 1 5.7056 1.6878 11.6118 49 1 4.9893 0.1366 11.0765 50 1 4.0324 2.9550 10.5920 51 1 3.0838 1.4499 10.7470 52 1 2.3572 -1.0843 6.4658 RHF calculation, no. of doubly occupied orbitals= 66 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). 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 ZINC001080680806.mol2 52 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 05:10:24 Heat of formation + Delta-G solvation = 26.809628 kcal Electronic energy + Delta-G solvation = -30415.292972 eV Core-core repulsion = 26415.327407 eV Total energy + Delta-G solvation = -3999.965565 eV No. of doubly occupied orbitals = 66 Molecular weight (most abundant/longest-lived isotopes) = 346.211 amu Computer time = 1.20 seconds Orbital eigenvalues (eV) -42.39261 -40.60917 -39.28491 -38.84481 -35.57866 -34.62092 -34.05133 -32.15115 -31.46269 -30.64942 -29.62062 -29.22724 -27.35937 -26.22156 -25.31333 -23.79044 -22.25769 -21.88440 -21.58741 -21.37993 -20.93551 -20.28149 -18.91264 -18.83316 -17.33773 -17.24364 -16.82667 -16.56350 -16.27439 -16.04251 -15.71705 -15.45375 -15.37085 -15.10063 -14.69157 -14.33811 -14.28558 -14.20327 -14.07941 -13.78464 -13.68038 -13.31867 -13.29216 -13.00940 -12.84567 -12.57454 -12.27425 -12.19748 -12.12279 -12.05338 -11.98608 -11.95187 -11.93581 -11.85210 -11.62453 -11.59553 -11.40942 -11.31251 -10.85257 -10.71080 -10.51829 -10.02296 -9.57598 -8.90153 -7.83911 -5.20894 0.56359 1.19554 1.39673 1.44644 1.47134 1.56294 2.32197 2.51388 2.55510 3.33474 3.36597 3.57111 3.62539 3.64083 3.77722 3.81057 3.85675 4.10542 4.14133 4.15576 4.15947 4.28315 4.33371 4.43958 4.50192 4.53303 4.60283 4.65112 4.72788 4.76678 4.77736 4.81555 4.83387 4.91887 4.96761 5.04717 5.10312 5.11711 5.21373 5.25427 5.28808 5.35598 5.39543 5.43703 5.45378 5.46875 5.54006 5.67124 5.84662 5.89491 6.18447 6.52252 6.74021 7.07902 7.40685 7.77517 8.42046 9.25422 Molecular weight = 346.21amu Principal moments of inertia in cm(-1) A = 0.011751 B = 0.002450 C = 0.002112 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2382.118765 B =11427.805502 C =13253.752386 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.128 4.128 2 C -0.093 4.093 3 H 0.093 0.907 4 C 0.132 3.868 5 N -0.628 5.628 6 C -0.241 4.241 7 H 0.088 0.912 8 C -0.070 4.070 9 N -0.951 5.951 10 Si 0.980 3.020 11 H -0.285 1.285 12 H -0.299 1.299 13 H -0.264 1.264 14 C 0.188 3.812 15 C 0.139 3.861 16 H 0.073 0.927 17 N -0.698 5.698 18 C 0.590 3.410 19 O -0.598 6.598 20 C -0.311 4.311 21 C 0.085 3.915 22 N -0.311 5.311 23 N -0.350 5.350 24 C 0.128 3.872 25 C -0.098 4.098 26 C -0.123 4.123 27 C -0.127 4.127 28 C -0.121 4.121 29 C -0.111 4.111 30 C 0.130 3.870 31 H 0.067 0.933 32 H 0.078 0.922 33 H 0.050 0.950 34 H 0.056 0.944 35 H 0.025 0.975 36 H 0.243 0.757 37 H 0.018 0.982 38 H -0.014 1.014 39 H 0.411 0.589 40 H 0.211 0.789 41 H 0.106 0.894 42 H 0.123 0.877 43 H 0.070 0.930 44 H 0.064 0.936 45 H 0.038 0.962 46 H 0.063 0.937 47 H 0.066 0.934 48 H 0.074 0.926 49 H 0.073 0.927 50 H 0.073 0.927 51 H 0.087 0.913 52 H 0.200 0.800 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -9.672 11.640 20.822 25.741 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 C -0.186 4.186 2 C -0.113 4.113 3 H 0.111 0.889 4 C 0.007 3.993 5 N -0.355 5.355 6 C -0.370 4.370 7 H 0.106 0.894 8 C -0.263 4.263 9 N -0.599 5.599 10 Si 0.808 3.192 11 H -0.212 1.212 12 H -0.226 1.226 13 H -0.188 1.188 14 C 0.062 3.938 15 C 0.033 3.967 16 H 0.091 0.909 17 N -0.348 5.348 18 C 0.380 3.620 19 O -0.480 6.480 20 C -0.326 4.326 21 C -0.103 4.103 22 N -0.131 5.131 23 N -0.128 5.128 24 C 0.009 3.991 25 C -0.118 4.118 26 C -0.160 4.160 27 C -0.164 4.164 28 C -0.159 4.159 29 C -0.149 4.149 30 C -0.023 4.023 31 H 0.086 0.914 32 H 0.097 0.903 33 H 0.069 0.931 34 H 0.074 0.926 35 H 0.043 0.957 36 H 0.053 0.947 37 H 0.036 0.964 38 H 0.004 0.996 39 H 0.247 0.753 40 H 0.228 0.772 41 H 0.125 0.875 42 H 0.141 0.859 43 H 0.089 0.911 44 H 0.083 0.917 45 H 0.057 0.943 46 H 0.082 0.918 47 H 0.084 0.916 48 H 0.093 0.907 49 H 0.092 0.908 50 H 0.091 0.909 51 H 0.105 0.895 52 H 0.217 0.783 Dipole moment (debyes) X Y Z Total from point charges -9.419 11.769 21.857 26.551 hybrid contribution 1.374 -0.953 -1.351 2.149 sum -8.045 10.816 20.507 24.540 Atomic orbital electron populations 1.21646 0.91695 1.02241 1.03005 1.22532 0.97284 0.98941 0.92526 0.88909 1.21866 0.85186 0.95775 0.96460 1.44751 1.09730 1.78995 1.01990 1.19511 0.88279 1.39269 0.89963 0.89404 1.25754 1.00583 1.02523 0.97437 1.70270 1.22297 1.55906 1.11464 0.85039 0.79031 0.76937 0.78227 1.21191 1.22608 1.18838 1.21118 0.92913 0.96350 0.83463 1.22013 0.96288 0.93628 0.84796 0.90888 1.45474 1.73963 1.10794 1.04537 1.17683 0.74638 0.86605 0.83118 1.90738 1.53340 1.16712 1.87181 1.20161 1.24985 0.94377 0.93079 1.24388 0.96387 0.93270 0.96238 1.77067 1.25248 1.09296 1.01475 1.48779 1.52702 1.03298 1.07974 1.22454 1.00056 1.04728 0.71891 1.22026 0.92920 0.99213 0.97594 1.22419 0.95962 0.99721 0.97931 1.22503 0.97560 1.01610 0.94755 1.22366 0.95245 1.01157 0.97121 1.22122 0.99240 1.01614 0.91951 1.23204 0.94554 0.94411 0.90164 0.91378 0.90320 0.93067 0.92581 0.95719 0.94742 0.96379 0.99591 0.75272 0.77246 0.87544 0.85904 0.91123 0.91697 0.94341 0.91842 0.91562 0.90721 0.90786 0.90869 0.89479 0.78314 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 C -0.13 -3.06 9.31 71.98 0.67 -2.39 16 2 C -0.09 -2.99 3.26 -9.40 -0.03 -3.02 16 3 H 0.09 2.74 8.01 -2.39 -0.02 2.72 16 4 C 0.13 5.33 6.70 86.86 0.58 5.91 16 5 N -0.63 -33.46 3.39 -691.97 -2.35 -35.81 16 6 C -0.24 -13.93 10.27 84.03 0.86 -13.07 16 7 H 0.09 4.77 7.84 -2.91 -0.02 4.75 16 8 C -0.07 -4.17 5.48 84.86 0.46 -3.70 16 9 N -0.95 -60.71 10.36 21.65 0.22 -60.49 16 10 Si 0.98 47.35 29.56 68.60 2.03 49.38 16 11 H -0.29 -13.46 7.11 99.48 0.71 -12.75 16 12 H -0.30 -14.70 7.11 99.48 0.71 -13.99 16 13 H -0.26 -11.89 7.11 99.48 0.71 -11.19 16 14 C 0.19 10.05 5.13 86.73 0.45 10.49 16 15 C 0.14 5.53 2.74 46.18 0.13 5.66 16 16 H 0.07 3.14 7.52 -2.39 -0.02 3.12 16 17 N -0.70 -23.48 5.11 -440.17 -2.25 -25.73 16 18 C 0.59 21.52 7.81 86.67 0.68 22.20 16 19 O -0.60 -27.07 16.58 -4.06 -0.07 -27.14 16 20 C -0.31 -8.89 6.13 -20.15 -0.12 -9.01 16 21 C 0.08 2.02 11.50 85.65 0.99 3.00 16 22 N -0.31 -7.42 12.24 -56.28 -0.69 -8.11 16 23 N -0.35 -7.10 3.47 -346.29 -1.20 -8.30 16 24 C 0.13 1.57 5.54 86.38 0.48 2.05 16 25 C -0.10 -1.32 3.03 -10.07 -0.03 -1.35 16 26 C -0.12 -2.09 6.19 31.67 0.20 -1.89 16 27 C -0.13 -1.76 6.91 31.88 0.22 -1.54 16 28 C -0.12 -1.16 6.83 31.67 0.22 -0.94 16 29 C -0.11 -0.96 6.46 31.31 0.20 -0.76 16 30 C 0.13 3.10 11.25 84.28 0.95 4.05 16 31 H 0.07 1.44 8.14 -2.38 -0.02 1.42 16 32 H 0.08 1.53 8.14 -2.39 -0.02 1.51 16 33 H 0.05 1.28 8.08 -2.39 -0.02 1.26 16 34 H 0.06 2.11 8.14 -2.39 -0.02 2.09 16 35 H 0.02 0.99 7.99 -2.39 -0.02 0.97 16 36 H 0.24 15.21 8.31 -92.71 -0.77 14.44 16 37 H 0.02 1.07 7.18 -2.39 -0.02 1.05 16 38 H -0.01 -0.91 7.61 -2.39 -0.02 -0.93 16 39 H 0.41 10.83 7.50 -92.70 -0.70 10.14 16 40 H 0.21 3.67 7.50 -2.91 -0.02 3.65 16 41 H 0.11 0.97 8.14 -2.39 -0.02 0.95 16 42 H 0.12 0.95 7.92 -2.39 -0.02 0.93 16 43 H 0.07 1.24 8.03 -2.39 -0.02 1.22 16 44 H 0.06 1.11 7.76 -2.39 -0.02 1.09 16 45 H 0.04 0.86 8.14 -2.39 -0.02 0.84 16 46 H 0.06 0.92 8.14 -2.39 -0.02 0.90 16 47 H 0.07 0.93 8.14 -2.39 -0.02 0.91 16 48 H 0.07 0.61 8.14 -2.38 -0.02 0.59 16 49 H 0.07 0.62 8.14 -2.39 -0.02 0.60 16 50 H 0.07 0.61 8.14 -2.39 -0.02 0.59 16 51 H 0.09 0.44 7.67 -2.39 -0.02 0.43 16 52 H 0.20 4.03 8.06 -2.91 -0.02 4.01 16 Total: -1.00 -82.00 414.97 2.79 -79.21 By element: Atomic # 1 Polarization: 21.10 SS G_CDS: 0.21 Total: 21.31 kcal Atomic # 6 Polarization: 8.78 SS G_CDS: 6.89 Total: 15.68 kcal Atomic # 7 Polarization: -132.17 SS G_CDS: -6.26 Total: -138.44 kcal Atomic # 8 Polarization: -27.07 SS G_CDS: -0.07 Total: -27.14 kcal Atomic # 14 Polarization: 47.35 SS G_CDS: 2.03 Total: 49.38 kcal Total: -82.00 2.79 -79.21 kcal The number of atoms in the molecule is 52 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. ZINC001080680806.mol2 52 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 106.017 kcal (2) G-P(sol) polarization free energy of solvation -82.001 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 24.016 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.793 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -79.208 kcal (6) G-S(sol) free energy of system = (1) + (5) 26.810 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.20 seconds