Wall clock time and date at job start Tue Mar 31 2020 19:56:15 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 1.31610 * 1 3 3 Si 1.86807 * 119.99691 * 2 1 4 4 H 1.48495 * 109.46851 * 269.99717 * 3 2 1 5 5 H 1.48498 * 109.47211 * 29.99846 * 3 2 1 6 6 H 1.48504 * 109.46845 * 149.99993 * 3 2 1 7 7 C 1.38810 * 120.00534 * 179.97438 * 2 1 3 8 8 H 1.08004 * 120.00296 * 180.02562 * 7 2 1 9 9 N 1.36936 * 119.99670 * 359.97438 * 7 2 1 10 10 C 1.47422 * 125.65168 * 347.73936 * 9 7 2 11 11 C 1.54904 * 104.83408 * 204.16166 * 10 9 7 12 12 C 1.55158 * 101.58196 * 322.99057 * 11 10 9 13 13 C 1.47024 * 125.64631 * 167.77710 * 9 7 2 14 14 H 1.08996 * 109.88368 * 59.49095 * 13 9 7 15 15 C 1.53003 * 109.88640 * 298.47952 * 13 9 7 16 16 C 1.52995 * 109.47455 * 175.33744 * 15 13 9 17 17 C 1.52991 * 109.47244 * 184.98110 * 16 15 13 18 18 N 1.46502 * 109.47193 * 180.02562 * 17 16 15 19 19 C 1.34780 * 119.99986 * 179.97438 * 18 17 16 20 20 O 1.21277 * 119.99933 * 0.02562 * 19 18 17 21 21 C 1.50696 * 119.99924 * 180.02562 * 19 18 17 22 22 C 1.53000 * 109.47215 * 179.97438 * 21 19 18 23 23 C 1.50701 * 109.47240 * 179.97438 * 22 21 19 24 24 N 1.29025 * 124.91336 * 90.00313 * 23 22 21 25 25 C 1.31788 * 117.12425 * 179.97438 * 24 23 22 26 26 C 1.33642 * 114.49688 * 359.97438 * 25 24 23 27 27 S 1.70979 * 124.91725 * 269.69519 * 23 22 21 28 28 H 0.97000 * 120.00612 * 0.02562 * 1 2 3 29 29 H 1.09001 * 110.36535 * 85.31967 * 10 9 7 30 30 H 1.09003 * 110.45818 * 323.05002 * 10 9 7 31 31 H 1.09000 * 111.00574 * 81.06505 * 11 10 9 32 32 H 1.09004 * 111.00705 * 204.91296 * 11 10 9 33 33 H 1.08997 * 110.72047 * 153.87056 * 12 11 10 34 34 H 1.09005 * 110.71779 * 277.13547 * 12 11 10 35 35 H 1.09001 * 109.46865 * 295.33761 * 15 13 9 36 36 H 1.09004 * 109.46730 * 55.33475 * 15 13 9 37 37 H 1.09001 * 109.47121 * 304.98531 * 16 15 13 38 38 H 1.09002 * 109.46956 * 64.98089 * 16 15 13 39 39 H 1.08998 * 109.47227 * 299.99736 * 17 16 15 40 40 H 1.09002 * 109.47162 * 60.00104 * 17 16 15 41 41 H 0.97000 * 119.99771 * 359.97438 * 18 17 16 42 42 H 1.09007 * 109.46926 * 299.99681 * 21 19 18 43 43 H 1.08997 * 109.47499 * 59.99792 * 21 19 18 44 44 H 1.08995 * 109.47095 * 300.00477 * 22 21 19 45 45 H 1.09002 * 109.46989 * 60.00061 * 22 21 19 46 46 H 1.08001 * 122.74633 * 180.02562 * 25 24 23 47 47 H 1.08000 * 126.03278 * 179.97438 * 26 25 24 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 1.3161 0.0000 0.0000 3 14 2.2500 1.6178 0.0000 4 1 2.4975 2.0464 -1.4001 5 1 1.4474 2.6527 0.7000 6 1 3.5476 1.4403 0.7001 7 6 2.0103 -1.2021 0.0005 8 1 3.0903 -1.2020 0.0010 9 7 1.3256 -2.3880 0.0016 10 6 -0.1177 -2.5467 0.2567 11 6 -0.2742 -4.0047 0.7559 12 6 0.7699 -4.7474 -0.1191 13 6 1.9084 -3.7140 -0.2507 14 1 2.6857 -3.9233 0.4842 15 6 2.4995 -3.7630 -1.6611 16 6 3.2046 -5.1042 -1.8724 17 6 3.9010 -5.1052 -3.2346 18 7 4.5757 -6.3898 -3.4372 19 6 5.2591 -6.6198 -4.5758 20 8 5.3159 -5.7633 -5.4325 21 6 5.9526 -7.9414 -4.7844 22 6 6.6481 -7.9429 -6.1472 23 6 7.3422 -9.2642 -6.3556 24 7 6.8060 -10.3015 -6.9045 25 6 7.5555 -11.3804 -7.0100 26 6 8.7928 -11.2454 -6.5235 27 16 8.9564 -9.6035 -5.9055 28 1 -0.4851 0.8400 -0.0004 29 1 -0.6840 -2.3977 -0.6627 30 1 -0.4485 -1.8457 1.0230 31 1 -0.0246 -4.0843 1.8140 32 1 -1.2805 -4.3774 0.5645 33 1 1.1227 -5.6483 0.3827 34 1 0.3523 -4.9879 -1.0969 35 1 1.7001 -3.6533 -2.3940 36 1 3.2175 -2.9518 -1.7824 37 1 3.9444 -5.2536 -1.0859 38 1 2.4709 -5.9096 -1.8388 39 1 3.1612 -4.9559 -4.0210 40 1 4.6347 -4.2998 -3.2682 41 1 4.5305 -7.0747 -2.7518 42 1 6.6927 -8.0914 -3.9983 43 1 5.2185 -8.7463 -4.7508 44 1 5.9079 -7.7929 -6.9331 45 1 7.3823 -7.1379 -6.1813 46 1 7.1991 -12.2981 -7.4541 47 1 9.5582 -12.0072 -6.5136 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC001663124096.mol2 47 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 19:56:15 Heat of formation + Delta-G solvation = -10.255364 kcal Electronic energy + Delta-G solvation = -25450.789342 eV Core-core repulsion = 21759.332295 eV Total energy + Delta-G solvation = -3691.457048 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 337.157 amu Computer time = 0.75 seconds Orbital eigenvalues (eV) -40.94543 -40.44153 -39.45622 -36.73743 -34.92092 -34.67330 -33.61112 -31.26544 -30.80195 -29.47951 -27.31395 -26.55137 -25.43725 -23.99789 -22.66918 -21.84900 -21.43267 -20.83533 -20.66258 -19.00738 -18.70787 -17.93749 -17.06424 -16.97529 -16.88037 -16.38070 -16.11821 -15.93193 -15.68828 -15.43612 -15.00145 -14.75229 -14.40675 -14.06510 -13.81255 -13.67268 -13.64290 -13.52895 -13.16087 -13.08022 -12.96229 -12.73925 -12.64427 -12.40973 -12.23148 -12.15948 -11.98921 -11.81064 -11.66654 -11.50868 -11.30489 -11.15483 -10.95076 -10.65210 -10.60733 -10.36370 -10.08623 -9.82598 -8.77896 -7.83146 -5.18756 -0.25956 0.42459 0.81915 1.44543 1.46345 1.54351 1.63441 1.84800 2.21169 2.50718 3.18157 3.34528 3.69088 3.73439 3.96028 3.99011 4.03143 4.10603 4.18027 4.27253 4.30191 4.37420 4.42656 4.45856 4.56665 4.58010 4.64417 4.82437 4.83061 4.84161 4.88751 4.99838 5.01301 5.06018 5.15927 5.24433 5.25397 5.36148 5.45586 5.52334 5.54344 5.69955 5.72188 5.81931 6.29179 6.57956 6.79087 7.14206 7.27327 7.84380 8.50778 9.27484 Molecular weight = 337.16amu Principal moments of inertia in cm(-1) A = 0.020775 B = 0.001653 C = 0.001572 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1347.443169 B =16932.913768 C =17808.546351 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.951 5.951 2 C -0.068 4.068 3 Si 0.971 3.029 4 H -0.290 1.290 5 H -0.295 1.295 6 H -0.268 1.268 7 C -0.228 4.228 8 H 0.077 0.923 9 N -0.620 5.620 10 C 0.172 3.828 11 C -0.138 4.138 12 C -0.111 4.111 13 C 0.152 3.848 14 H 0.036 0.964 15 C -0.113 4.113 16 C -0.107 4.107 17 C 0.124 3.876 18 N -0.715 5.715 19 C 0.510 3.490 20 O -0.589 6.589 21 C -0.121 4.121 22 C -0.028 4.028 23 C 0.035 3.965 24 N -0.503 5.503 25 C 0.018 3.982 26 C -0.253 4.253 27 S 0.146 5.854 28 H 0.245 0.755 29 H -0.012 1.012 30 H 0.034 0.966 31 H 0.063 0.937 32 H 0.080 0.920 33 H 0.097 0.903 34 H 0.070 0.930 35 H 0.040 0.960 36 H 0.036 0.964 37 H 0.082 0.918 38 H 0.089 0.911 39 H 0.050 0.950 40 H 0.049 0.951 41 H 0.419 0.581 42 H 0.123 0.877 43 H 0.114 0.886 44 H 0.083 0.917 45 H 0.093 0.907 46 H 0.194 0.806 47 H 0.205 0.795 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 16.822 -27.439 -8.161 33.203 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 -0.600 5.600 2 C -0.261 4.261 3 Si 0.800 3.200 4 H -0.217 1.217 5 H -0.222 1.222 6 H -0.193 1.193 7 C -0.358 4.358 8 H 0.095 0.905 9 N -0.344 5.344 10 C 0.047 3.953 11 C -0.176 4.176 12 C -0.149 4.149 13 C 0.046 3.954 14 H 0.054 0.946 15 C -0.153 4.153 16 C -0.146 4.146 17 C 0.000 4.000 18 N -0.367 5.367 19 C 0.297 3.703 20 O -0.469 6.469 21 C -0.162 4.162 22 C -0.069 4.069 23 C -0.242 4.242 24 N -0.218 5.218 25 C -0.132 4.132 26 C -0.392 4.392 27 S 0.399 5.601 28 H 0.054 0.946 29 H 0.006 0.994 30 H 0.053 0.947 31 H 0.082 0.918 32 H 0.098 0.902 33 H 0.116 0.884 34 H 0.089 0.911 35 H 0.059 0.941 36 H 0.055 0.945 37 H 0.101 0.899 38 H 0.108 0.892 39 H 0.068 0.932 40 H 0.067 0.933 41 H 0.256 0.744 42 H 0.141 0.859 43 H 0.133 0.867 44 H 0.102 0.898 45 H 0.112 0.888 46 H 0.211 0.789 47 H 0.222 0.778 Dipole moment (debyes) X Y Z Total from point charges 17.077 -26.016 -8.448 32.247 hybrid contribution -0.359 0.569 -0.410 0.788 sum 16.718 -25.447 -8.858 31.710 Atomic orbital electron populations 1.70150 1.06280 1.25040 1.58512 1.25646 0.96518 1.00936 1.03032 0.85186 0.77858 0.79693 0.77302 1.21703 1.22150 1.19284 1.19316 0.90746 0.83769 1.41970 0.90504 1.44873 1.05344 1.02156 1.82037 1.21248 0.84505 0.93418 0.96128 1.22886 0.99592 0.95766 0.99377 1.22585 0.94965 0.97288 1.00026 1.21225 0.95009 0.85234 0.93965 0.94597 1.21829 0.98851 0.96640 0.98028 1.21623 1.00013 0.97671 0.95253 1.21238 0.95636 0.85323 0.97847 1.45922 1.52653 1.18044 1.20097 1.21091 0.78350 0.89672 0.81160 1.90722 1.62912 1.48701 1.44578 1.21590 1.01691 0.94400 0.98529 1.19903 0.99682 0.89248 0.98058 1.27063 0.96458 0.99158 1.01545 1.66299 1.38134 1.00193 1.17217 1.22196 0.90640 0.97990 1.02355 1.27512 1.02918 1.00834 1.07917 1.84054 1.12495 1.07355 1.56170 0.94580 0.99392 0.94733 0.91782 0.90181 0.88428 0.91130 0.94140 0.94468 0.89925 0.89220 0.93158 0.93270 0.74369 0.85850 0.86745 0.89807 0.88830 0.78948 0.77765 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 -0.95 -58.27 10.48 21.65 0.23 -58.04 16 2 C -0.07 -3.97 5.47 84.86 0.46 -3.50 16 3 Si 0.97 46.75 29.55 68.60 2.03 48.78 16 4 H -0.29 -13.89 7.11 99.48 0.71 -13.18 16 5 H -0.29 -14.26 7.11 99.48 0.71 -13.55 16 6 H -0.27 -12.17 7.11 99.48 0.71 -11.47 16 7 C -0.23 -12.82 9.73 84.03 0.82 -12.00 16 8 H 0.08 4.15 7.83 -2.91 -0.02 4.13 16 9 N -0.62 -31.41 3.13 -668.27 -2.09 -33.50 16 10 C 0.17 8.56 5.45 86.85 0.47 9.03 16 11 C -0.14 -4.90 7.08 31.98 0.23 -4.67 16 12 C -0.11 -3.35 5.69 31.78 0.18 -3.17 16 13 C 0.15 5.75 3.16 45.34 0.14 5.89 16 14 H 0.04 1.34 8.14 -2.39 -0.02 1.32 16 15 C -0.11 -3.88 4.71 30.59 0.14 -3.73 16 16 C -0.11 -2.41 5.10 30.59 0.16 -2.25 16 17 C 0.12 2.98 5.67 86.38 0.49 3.47 16 18 N -0.71 -12.65 5.56 -463.07 -2.57 -15.22 16 19 C 0.51 10.60 7.83 87.66 0.69 11.29 16 20 O -0.59 -18.16 15.98 -3.02 -0.05 -18.21 16 21 C -0.12 -1.56 5.68 29.85 0.17 -1.39 16 22 C -0.03 -0.45 5.09 29.85 0.15 -0.30 16 23 C 0.03 0.55 6.64 88.52 0.59 1.13 16 24 N -0.50 -9.12 10.54 -191.44 -2.02 -11.13 16 25 C 0.02 0.23 11.35 83.66 0.95 1.18 16 26 C -0.25 -2.34 11.37 66.78 0.76 -1.58 16 27 S 0.15 1.61 23.18 -56.49 -1.31 0.30 16 28 H 0.24 14.66 8.31 -92.71 -0.77 13.89 16 29 H -0.01 -0.66 8.11 -2.39 -0.02 -0.68 16 30 H 0.03 1.95 6.75 -2.39 -0.02 1.94 16 31 H 0.06 2.19 8.14 -2.39 -0.02 2.18 16 32 H 0.08 2.47 8.14 -2.38 -0.02 2.45 16 33 H 0.10 2.21 8.14 -2.39 -0.02 2.19 16 34 H 0.07 2.03 7.78 -2.38 -0.02 2.01 16 35 H 0.04 1.51 8.04 -2.39 -0.02 1.50 16 36 H 0.04 1.46 7.85 -2.39 -0.02 1.44 16 37 H 0.08 1.62 8.14 -2.39 -0.02 1.60 16 38 H 0.09 1.64 7.63 -2.39 -0.02 1.62 16 39 H 0.05 1.39 8.14 -2.39 -0.02 1.37 16 40 H 0.05 1.38 8.14 -2.39 -0.02 1.36 16 41 H 0.42 4.26 8.47 -92.71 -0.79 3.47 16 42 H 0.12 0.94 8.14 -2.38 -0.02 0.92 16 43 H 0.11 1.21 8.14 -2.39 -0.02 1.20 16 44 H 0.08 1.68 8.10 -2.39 -0.02 1.66 16 45 H 0.09 1.50 8.10 -2.39 -0.02 1.48 16 46 H 0.19 1.52 8.06 -2.91 -0.02 1.50 16 47 H 0.21 0.60 8.06 -2.91 -0.02 0.57 16 Total: -1.00 -77.53 396.14 0.79 -76.75 By element: Atomic # 1 Polarization: 10.74 SS G_CDS: 0.17 Total: 10.91 kcal Atomic # 6 Polarization: -7.01 SS G_CDS: 6.40 Total: -0.61 kcal Atomic # 7 Polarization: -111.45 SS G_CDS: -6.45 Total: -117.91 kcal Atomic # 8 Polarization: -18.16 SS G_CDS: -0.05 Total: -18.21 kcal Atomic # 14 Polarization: 46.75 SS G_CDS: 2.03 Total: 48.78 kcal Atomic # 16 Polarization: 1.61 SS G_CDS: -1.31 Total: 0.30 kcal Total: -77.53 0.79 -76.75 kcal The number of atoms in the molecule is 47 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. ZINC001663124096.mol2 47 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 66.491 kcal (2) G-P(sol) polarization free energy of solvation -77.533 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -11.042 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.786 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.747 kcal (6) G-S(sol) free energy of system = (1) + (5) -10.255 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.75 seconds