Wall clock time and date at job start Wed Apr 1 2020 04:22:33 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 1.31564 * 1 3 3 Si 1.86792 * 119.99895 * 2 1 4 4 H 1.48496 * 109.47389 * 179.97438 * 3 2 1 5 5 H 1.48505 * 109.47346 * 299.99970 * 3 2 1 6 6 H 1.48502 * 109.47509 * 59.99895 * 3 2 1 7 7 C 1.38656 * 119.99717 * 179.97438 * 2 1 3 8 8 H 1.08001 * 119.99299 * 180.02562 * 7 2 1 9 9 O 1.34821 * 120.00410 * 359.97438 * 7 2 1 10 10 C 1.35753 * 117.00443 * 185.05786 * 9 7 2 11 11 C 1.38887 * 120.06331 * 354.46665 * 10 9 7 12 12 C 1.38097 * 119.92598 * 180.02562 * 11 10 9 13 13 C 1.38303 * 120.07083 * 0.02562 * 12 11 10 14 14 C 1.50702 * 119.92847 * 179.97438 * 13 12 11 15 15 C 1.50700 * 109.46897 * 90.00403 * 14 13 12 16 16 O 1.20827 * 120.00046 * 359.97438 * 15 14 13 17 17 O 1.34230 * 120.00194 * 179.97438 * 15 14 13 18 18 C 1.45194 * 117.00255 * 179.97438 * 17 15 14 19 19 C 1.50701 * 109.47156 * 179.97438 * 18 17 15 20 20 C 1.35315 * 126.65666 * 90.30806 * 19 18 17 21 21 C 1.42304 * 103.91637 * 180.02562 * 20 19 18 22 22 C 1.48239 * 126.94109 * 179.90776 * 21 20 19 23 23 O 1.21412 * 119.99843 * 359.71473 * 22 21 20 24 24 O 1.34647 * 120.00256 * 179.43478 * 22 21 20 25 25 N 1.31009 * 106.11385 * 359.64648 * 21 20 19 26 26 O 1.20904 * 111.43456 * 0.22915 * 25 21 20 27 27 C 1.38303 * 120.13991 * 0.25719 * 13 12 11 28 28 C 1.38097 * 120.06424 * 359.44544 * 27 13 12 29 29 H 0.96996 * 120.00373 * 0.02562 * 1 2 3 30 30 H 1.07994 * 120.03653 * 359.97438 * 11 10 9 31 31 H 1.08001 * 119.96096 * 180.02562 * 12 11 10 32 32 H 1.09004 * 109.47416 * 330.00683 * 14 13 12 33 33 H 1.08995 * 109.47208 * 210.00310 * 14 13 12 34 34 H 1.09007 * 109.46875 * 60.00865 * 18 17 15 35 35 H 1.09000 * 109.47566 * 300.00441 * 18 17 15 36 36 H 1.07998 * 128.04297 * 359.97438 * 20 19 18 37 37 H 0.96698 * 117.00262 * 180.02562 * 24 22 21 38 38 H 1.07993 * 119.96153 * 179.70544 * 27 13 12 39 39 H 1.07998 * 120.03076 * 180.27075 * 28 27 13 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 3.7095 1.3464 0.0006 5 1 1.8908 2.3964 -1.2125 6 1 1.8908 2.3965 1.2125 7 6 2.0089 -1.2008 0.0005 8 1 3.0889 -1.2008 0.0010 9 8 1.3348 -2.3684 0.0016 10 6 2.0700 -3.5046 0.1087 11 6 3.4573 -3.4394 0.0952 12 6 4.2025 -4.5970 0.2038 13 6 3.5688 -5.8202 0.3254 14 6 4.3851 -7.0815 0.4431 15 6 4.6644 -7.3652 1.8966 16 8 4.2442 -6.6194 2.7493 17 8 5.3801 -8.4464 2.2440 18 6 5.6107 -8.6566 3.6620 19 6 6.4252 -9.9093 3.8582 20 6 7.7746 -9.9960 3.9072 21 6 8.0214 -11.3834 4.1059 22 6 9.3423 -12.0443 4.2317 23 8 10.3598 -11.3855 4.1614 24 8 9.4137 -13.3742 4.4295 25 7 6.8452 -11.9577 4.1609 26 8 5.9535 -11.1525 4.0251 27 6 2.1875 -5.8890 0.3333 28 6 1.4367 -4.7344 0.2312 29 1 -0.4850 0.8400 -0.0004 30 1 3.9527 -2.4846 -0.0010 31 1 5.2813 -4.5469 0.1938 32 1 5.3275 -6.9556 -0.0901 33 1 3.8312 -7.9145 0.0103 34 1 4.6541 -8.7618 4.1739 35 1 6.1507 -7.8035 4.0727 36 1 8.4966 -9.1981 3.8159 37 1 10.2971 -13.7600 4.5057 38 1 1.6956 -6.8462 0.4236 39 1 0.3581 -4.7883 0.2418 RHF calculation, no. of doubly occupied orbitals= 63 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 ZINC001601074003.mol2 39 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 04:22:33 Heat of formation + Delta-G solvation = -127.756299 kcal Electronic energy + Delta-G solvation = -27678.017863 eV Core-core repulsion = 23133.839120 eV Total energy + Delta-G solvation = -4544.178744 eV No. of doubly occupied orbitals = 63 Molecular weight (most abundant/longest-lived isotopes) = 347.097 amu Computer time = 0.69 seconds Orbital eigenvalues (eV) -46.45605 -41.60248 -41.28194 -40.65385 -38.52464 -37.52186 -37.39239 -35.42066 -34.41045 -34.08511 -32.92836 -31.76266 -29.14082 -27.92017 -27.06087 -26.84744 -24.17128 -23.62452 -23.10473 -22.02114 -21.53765 -19.83858 -19.25493 -19.19143 -19.10770 -18.80494 -18.53210 -17.75895 -17.58646 -17.05070 -16.79923 -16.39481 -16.28622 -15.90222 -15.51202 -15.35375 -15.10989 -14.96046 -14.60480 -14.44597 -14.30182 -14.08249 -13.60436 -13.56257 -13.03156 -12.97363 -12.89019 -12.79379 -12.50525 -12.30451 -12.27868 -12.24519 -12.08765 -11.88492 -11.78659 -11.59769 -11.15716 -10.91210 -10.77802 -9.74520 -8.92248 -8.46486 -6.14497 -0.38602 0.11978 0.63848 0.64659 1.27777 1.35250 1.35939 1.43619 1.52667 1.54259 1.60364 2.07723 2.18533 2.72782 2.86267 3.18884 3.39434 3.53572 3.57772 3.80529 3.83123 4.05827 4.07194 4.19762 4.21864 4.29299 4.39980 4.48800 4.61257 4.64718 4.74932 4.82731 5.08112 5.16410 5.22789 5.29378 5.35410 5.58112 5.73731 5.76611 6.04323 6.24569 6.56163 6.77513 6.80132 6.98445 7.79537 8.76970 Molecular weight = 347.10amu Principal moments of inertia in cm(-1) A = 0.026675 B = 0.001565 C = 0.001519 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1049.404948 B =17883.652459 C =18432.603468 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.921 5.921 2 C -0.024 4.024 3 Si 1.019 2.981 4 H -0.251 1.251 5 H -0.267 1.267 6 H -0.270 1.270 7 C -0.413 4.413 8 H 0.102 0.898 9 O -0.233 6.233 10 C 0.115 3.885 11 C -0.246 4.246 12 C -0.054 4.054 13 C -0.158 4.158 14 C -0.049 4.049 15 C 0.471 3.529 16 O -0.527 6.527 17 O -0.353 6.353 18 C 0.144 3.856 19 C -0.024 4.024 20 C -0.141 4.141 21 C -0.036 4.036 22 C 0.579 3.421 23 O -0.514 6.514 24 O -0.496 6.496 25 N -0.314 5.314 26 O 0.146 5.854 27 C -0.052 4.052 28 C -0.208 4.208 29 H 0.272 0.728 30 H 0.118 0.882 31 H 0.144 0.856 32 H 0.142 0.858 33 H 0.143 0.857 34 H 0.110 0.890 35 H 0.129 0.871 36 H 0.210 0.790 37 H 0.443 0.557 38 H 0.152 0.848 39 H 0.112 0.888 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 18.687 -24.383 6.477 31.396 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 -0.559 5.559 2 C -0.221 4.221 3 Si 0.838 3.162 4 H -0.174 1.174 5 H -0.192 1.192 6 H -0.195 1.195 7 C -0.489 4.489 8 H 0.120 0.880 9 O -0.140 6.140 10 C 0.065 3.935 11 C -0.265 4.265 12 C -0.072 4.072 13 C -0.159 4.159 14 C -0.086 4.086 15 C 0.315 3.685 16 O -0.415 6.415 17 O -0.270 6.270 18 C 0.070 3.930 19 C -0.086 4.086 20 C -0.163 4.163 21 C -0.191 4.191 22 C 0.421 3.579 23 O -0.402 6.402 24 O -0.311 6.311 25 N -0.009 5.009 26 O 0.061 5.939 27 C -0.070 4.070 28 C -0.227 4.227 29 H 0.081 0.919 30 H 0.135 0.865 31 H 0.162 0.838 32 H 0.159 0.841 33 H 0.161 0.839 34 H 0.128 0.872 35 H 0.146 0.854 36 H 0.227 0.773 37 H 0.307 0.693 38 H 0.169 0.831 39 H 0.130 0.870 Dipole moment (debyes) X Y Z Total from point charges 17.806 -25.003 6.881 31.457 hybrid contribution 0.815 1.454 0.215 1.681 sum 18.621 -23.549 7.096 30.849 Atomic orbital electron populations 1.70193 1.08026 1.28705 1.48969 1.26594 0.96857 1.02748 0.95897 0.84522 0.78269 0.74836 0.78533 1.17418 1.19243 1.19501 1.21870 0.92540 0.81441 1.53042 0.88048 1.83937 1.36086 1.12679 1.81312 1.20000 0.91744 0.87966 0.93816 1.21244 0.93061 1.00154 1.12062 1.20980 0.99964 0.90891 0.95324 1.19192 0.93321 0.94159 1.09231 1.20253 1.03563 0.96755 0.87979 1.24265 0.73662 0.77050 0.93497 1.90764 1.49298 1.48148 1.53264 1.86536 1.67430 1.45536 1.27547 1.21264 1.01022 0.90287 0.80456 1.23926 0.93179 0.87115 1.04411 1.22788 0.95663 0.95464 1.02403 1.22479 0.91836 0.93575 1.11238 1.19028 0.85995 0.80904 0.72005 1.90950 1.35835 1.66161 1.47208 1.84556 1.42273 1.21321 1.82904 1.74390 0.97414 1.15682 1.13381 1.84855 1.31304 1.14341 1.63389 1.20927 0.93400 0.97093 0.95555 1.20455 1.00000 0.90664 1.11583 0.91872 0.86452 0.83847 0.84071 0.83941 0.87232 0.85362 0.77307 0.69261 0.83079 0.86971 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 -56.73 13.67 21.61 0.30 -56.43 16 2 C -0.02 -1.35 5.49 84.83 0.47 -0.88 16 3 Si 1.02 42.92 29.55 68.60 2.03 44.95 16 4 H -0.25 -9.73 7.11 99.48 0.71 -9.02 16 5 H -0.27 -10.76 7.11 99.48 0.71 -10.05 16 6 H -0.27 -10.96 7.11 99.48 0.71 -10.25 16 7 C -0.41 -24.14 9.49 67.92 0.64 -23.50 16 8 H 0.10 5.44 5.20 -2.91 -0.02 5.43 16 9 O -0.23 -14.15 9.76 -22.68 -0.22 -14.37 16 10 C 0.12 5.72 6.65 22.58 0.15 5.87 16 11 C -0.25 -10.55 9.17 22.39 0.21 -10.35 16 12 C -0.05 -1.73 9.69 22.25 0.22 -1.52 16 13 C -0.16 -4.39 4.38 -19.83 -0.09 -4.48 16 14 C -0.05 -0.80 5.94 29.10 0.17 -0.62 16 15 C 0.47 9.15 7.95 71.24 0.57 9.72 16 16 O -0.53 -14.74 15.78 21.96 0.35 -14.39 16 17 O -0.35 -5.25 10.20 -51.41 -0.52 -5.78 16 18 C 0.14 1.64 6.02 71.24 0.43 2.07 16 19 C -0.02 -0.29 7.11 25.01 0.18 -0.11 16 20 C -0.14 -1.71 10.92 22.61 0.25 -1.47 16 21 C -0.04 -0.57 7.24 42.94 0.31 -0.26 16 22 C 0.58 8.81 8.36 70.48 0.59 9.40 16 23 O -0.51 -9.82 17.74 20.12 0.36 -9.46 16 24 O -0.50 -5.04 13.44 -55.56 -0.75 -5.79 16 25 N -0.31 -5.54 12.12 -49.53 -0.60 -6.14 16 26 O 0.15 2.23 11.18 71.95 0.80 3.03 16 27 C -0.05 -1.63 9.69 22.25 0.22 -1.42 16 28 C -0.21 -8.73 9.99 22.39 0.22 -8.51 16 29 H 0.27 15.31 8.31 -92.71 -0.77 14.54 16 30 H 0.12 5.15 5.64 -2.91 -0.02 5.14 16 31 H 0.14 3.54 8.06 -2.91 -0.02 3.52 16 32 H 0.14 1.49 8.08 -2.38 -0.02 1.48 16 33 H 0.14 1.49 8.08 -2.39 -0.02 1.47 16 34 H 0.11 1.14 8.13 -2.38 -0.02 1.12 16 35 H 0.13 1.13 8.13 -2.39 -0.02 1.12 16 36 H 0.21 1.62 8.06 -2.91 -0.02 1.59 16 37 H 0.44 -0.23 9.11 -74.06 -0.67 -0.91 16 38 H 0.15 3.52 8.06 -2.91 -0.02 3.50 16 39 H 0.11 4.70 8.06 -2.91 -0.02 4.67 16 Total: -1.00 -83.84 365.78 6.74 -77.10 By element: Atomic # 1 Polarization: 12.86 SS G_CDS: 0.47 Total: 13.33 kcal Atomic # 6 Polarization: -30.57 SS G_CDS: 4.53 Total: -26.05 kcal Atomic # 7 Polarization: -62.27 SS G_CDS: -0.30 Total: -62.57 kcal Atomic # 8 Polarization: -46.77 SS G_CDS: 0.02 Total: -46.76 kcal Atomic # 14 Polarization: 42.92 SS G_CDS: 2.03 Total: 44.95 kcal Total: -83.84 6.74 -77.10 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. ZINC001601074003.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 -50.653 kcal (2) G-P(sol) polarization free energy of solvation -83.841 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -134.494 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 6.738 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -77.103 kcal (6) G-S(sol) free energy of system = (1) + (5) -127.756 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.69 seconds