Wall clock time and date at job start Tue Mar 31 2020 13:40:08 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 1.30830 * 1 3 3 Si 1.86799 * 120.00030 * 2 1 4 4 H 1.48504 * 109.47047 * 270.00033 * 3 2 1 5 5 H 1.48504 * 109.47054 * 29.99954 * 3 2 1 6 6 H 1.48495 * 109.47153 * 150.00012 * 3 2 1 7 7 C 1.39930 * 120.00074 * 180.02562 * 2 1 3 8 8 H 1.07996 * 120.00327 * 197.88990 * 7 2 1 9 9 C 1.41417 * 119.99884 * 17.89338 * 7 2 1 10 10 C 1.40787 * 120.20305 * 24.44382 * 9 7 2 11 11 C 1.37650 * 119.88775 * 180.02562 * 10 9 7 12 12 C 1.38524 * 120.32711 * 359.74205 * 11 10 9 13 13 C 1.39295 * 120.41906 * 0.51643 * 12 11 10 14 14 N 1.39688 * 119.94498 * 179.76377 * 13 12 11 15 15 C 1.46495 * 120.00468 * 359.72212 * 14 13 12 16 16 C 1.50703 * 109.47194 * 180.02562 * 15 14 13 17 17 C 1.38140 * 120.02750 * 259.99829 * 16 15 14 18 18 C 1.38264 * 120.06506 * 179.72549 * 17 16 15 19 19 C 1.38305 * 120.12795 * 0.02562 * 18 17 16 20 20 C 1.38097 * 120.06718 * 359.97438 * 19 18 17 21 21 C 1.38810 * 120.03532 * 79.72444 * 16 15 14 22 22 N 1.40197 * 120.06377 * 0.25081 * 21 16 15 23 23 C 1.34735 * 126.83757 * 179.97438 * 22 21 16 24 24 N 1.30851 * 108.02668 * 180.02562 * 23 22 21 25 25 C 1.33256 * 109.84930 * 0.02562 * 24 23 22 26 26 N 1.30754 * 108.99720 * 359.71377 * 25 24 23 27 27 C 1.38310 * 120.10204 * 359.48464 * 13 12 11 28 28 H 0.97007 * 119.99892 * 359.97438 * 1 2 3 29 29 H 1.08001 * 120.05628 * 0.02562 * 10 9 7 30 30 H 1.08006 * 119.83415 * 180.02562 * 11 10 9 31 31 H 1.08000 * 119.79006 * 180.27672 * 12 11 10 32 32 H 0.97000 * 119.99651 * 179.72688 * 14 13 12 33 33 H 1.08995 * 109.47028 * 59.99938 * 15 14 13 34 34 H 1.09004 * 109.47247 * 300.00110 * 15 14 13 35 35 H 1.08001 * 119.97147 * 359.70473 * 17 16 15 36 36 H 1.07992 * 119.93331 * 180.02562 * 18 17 16 37 37 H 1.07998 * 119.96178 * 180.02562 * 19 18 17 38 38 H 1.08004 * 120.02699 * 179.97438 * 20 19 18 39 39 H 1.07997 * 125.98391 * 0.02562 * 23 22 21 40 40 H 1.07998 * 125.50091 * 180.02562 * 25 24 23 41 41 H 1.08001 * 120.16638 * 180.22873 * 27 13 12 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 1.3083 0.0000 0.0000 3 14 2.2423 1.6177 0.0000 4 1 2.4898 2.0464 -1.4001 5 1 1.4397 2.6527 0.7000 6 1 3.5398 1.4402 0.7000 7 6 2.0080 -1.2118 -0.0005 8 1 3.0488 -1.2346 0.2867 9 6 1.3522 -2.4067 -0.3774 10 6 0.2216 -2.3603 -1.2151 11 6 -0.4120 -3.5273 -1.5774 12 6 0.0603 -4.7489 -1.1261 13 6 1.1745 -4.8098 -0.2924 14 7 1.6394 -6.0466 0.1608 15 6 0.9517 -7.2778 -0.2357 16 6 1.6467 -8.4632 0.3833 17 6 2.5253 -9.2192 -0.3681 18 6 3.1677 -10.3035 0.2007 19 6 2.9324 -10.6347 1.5227 20 6 2.0551 -9.8825 2.2788 21 6 1.4089 -8.7928 1.7106 22 7 0.5180 -8.0271 2.4757 23 6 0.1875 -8.2230 3.7671 24 7 -0.6715 -7.2974 4.1102 25 6 -0.9134 -6.4976 3.0722 26 7 -0.2042 -6.9002 2.0502 27 6 1.8247 -3.6481 0.0826 28 1 -0.4850 0.8401 0.0004 29 1 -0.1479 -1.4106 -1.5729 30 1 -1.2790 -3.4907 -2.2205 31 1 -0.4409 -5.6595 -1.4194 32 1 2.4177 -6.0903 0.7382 33 1 0.9708 -7.3712 -1.3214 34 1 -0.0823 -7.2432 0.1078 35 1 2.7105 -8.9634 -1.4009 36 1 3.8545 -10.8928 -0.3886 37 1 3.4359 -11.4819 1.9644 38 1 1.8715 -10.1420 3.3110 39 1 0.5654 -9.0066 4.4070 40 1 -1.5830 -5.6502 3.0761 41 1 2.6910 -3.6944 0.7259 RHF calculation, no. of doubly occupied orbitals= 58 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) 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 ZINC001656261876.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 13:40:08 Heat of formation + Delta-G solvation = 142.872307 kcal Electronic energy + Delta-G solvation = -25583.894578 eV Core-core repulsion = 22044.201453 eV Total energy + Delta-G solvation = -3539.693125 eV No. of doubly occupied orbitals = 58 Molecular weight (most abundant/longest-lived isotopes) = 320.133 amu Computer time = 0.72 seconds Orbital eigenvalues (eV) -43.32907 -40.52219 -39.46536 -36.74834 -35.22957 -34.95654 -32.86992 -32.14445 -31.65894 -30.53988 -29.29684 -27.13511 -26.39519 -24.99370 -23.73348 -22.68205 -22.28437 -22.06149 -21.54049 -19.18561 -19.17512 -17.48557 -17.24875 -16.95412 -16.83994 -16.36423 -16.28343 -16.00217 -15.79573 -15.05584 -15.00945 -14.74603 -14.70319 -14.47032 -14.02735 -13.83849 -13.72882 -13.44758 -13.09964 -12.88176 -12.78488 -12.56941 -12.19303 -12.13151 -11.97372 -11.83609 -11.68047 -11.20636 -11.13327 -10.97638 -10.91573 -10.35099 -9.95688 -9.35243 -9.32511 -8.60411 -7.86807 -6.32243 -0.27864 0.23376 1.05211 1.05799 1.25777 1.36140 1.38909 1.50703 1.61199 1.88469 2.22159 2.59917 2.81492 3.09007 3.33166 3.39619 3.64879 3.86262 3.90049 3.93105 4.16575 4.33863 4.43418 4.49647 4.56275 4.63583 4.73261 4.80317 5.00362 5.09206 5.12131 5.16893 5.24864 5.33437 5.39318 5.42979 5.45408 5.48874 5.61538 5.75634 5.96009 6.03642 6.08647 6.21546 6.32772 6.64085 6.91363 6.98805 7.02343 7.04220 7.25760 8.37908 Molecular weight = 320.13amu Principal moments of inertia in cm(-1) A = 0.016724 B = 0.003272 C = 0.003055 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1673.877045 B = 8554.266290 C = 9163.587595 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.823 5.823 2 C 0.037 3.963 3 Si 0.982 3.018 4 H -0.261 1.261 5 H -0.266 1.266 6 H -0.261 1.261 7 C -0.506 4.506 8 H 0.068 0.932 9 C 0.117 3.883 10 C -0.233 4.233 11 C -0.074 4.074 12 C -0.298 4.298 13 C 0.253 3.747 14 N -0.730 5.730 15 C 0.179 3.821 16 C -0.117 4.117 17 C -0.091 4.091 18 C -0.119 4.119 19 C -0.082 4.082 20 C -0.131 4.131 21 C 0.137 3.863 22 N -0.335 5.335 23 C 0.258 3.742 24 N -0.559 5.559 25 C 0.184 3.816 26 N -0.309 5.309 27 C -0.316 4.316 28 H 0.287 0.713 29 H 0.096 0.904 30 H 0.106 0.894 31 H 0.103 0.897 32 H 0.383 0.617 33 H 0.049 0.951 34 H 0.069 0.931 35 H 0.137 0.863 36 H 0.159 0.841 37 H 0.173 0.827 38 H 0.165 0.835 39 H 0.268 0.732 40 H 0.221 0.779 41 H 0.079 0.921 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 4.830 -22.648 4.515 23.593 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 -0.449 5.449 2 C -0.178 4.178 3 Si 0.803 3.197 4 H -0.185 1.185 5 H -0.190 1.190 6 H -0.184 1.184 7 C -0.536 4.536 8 H 0.086 0.914 9 C 0.114 3.886 10 C -0.253 4.253 11 C -0.093 4.093 12 C -0.321 4.321 13 C 0.151 3.849 14 N -0.359 5.359 15 C 0.055 3.945 16 C -0.120 4.120 17 C -0.110 4.110 18 C -0.137 4.137 19 C -0.100 4.100 20 C -0.151 4.151 21 C 0.044 3.956 22 N -0.120 5.120 23 C -0.036 4.036 24 N -0.285 5.285 25 C -0.118 4.118 26 N -0.134 5.134 27 C -0.341 4.341 28 H 0.097 0.903 29 H 0.114 0.886 30 H 0.124 0.876 31 H 0.121 0.879 32 H 0.216 0.784 33 H 0.067 0.933 34 H 0.087 0.913 35 H 0.155 0.845 36 H 0.177 0.823 37 H 0.190 0.810 38 H 0.182 0.818 39 H 0.284 0.716 40 H 0.237 0.763 41 H 0.097 0.903 Dipole moment (debyes) X Y Z Total from point charges 4.286 -22.229 4.071 23.002 hybrid contribution 0.268 1.183 0.231 1.235 sum 4.554 -21.046 4.302 21.959 Atomic orbital electron populations 1.69930 1.08994 1.30301 1.35672 1.26751 0.95486 1.04402 0.91179 0.85221 0.78993 0.75964 0.79556 1.18542 1.19040 1.18441 1.19780 0.98114 0.92804 1.42860 0.91370 1.17646 0.90979 0.92202 0.87754 1.21045 1.01852 0.96771 1.05657 1.20695 0.97810 0.92656 0.98090 1.20010 1.03129 0.96561 1.12367 1.17376 0.91788 0.84620 0.91140 1.44167 1.33327 1.01959 1.56450 1.20090 0.96502 0.81092 0.96849 1.19771 1.00693 0.98604 0.92936 1.21250 0.94316 0.94883 1.00524 1.21648 0.99491 0.96390 0.96155 1.21488 0.95661 0.99360 0.93491 1.21226 0.98076 0.93426 1.02406 1.17907 0.93515 0.93407 0.90770 1.47989 1.32609 1.21202 1.10161 1.27047 0.93021 0.98950 0.84566 1.70581 1.19616 1.07633 1.30707 1.26511 0.98953 1.00032 0.86349 1.78610 1.11384 1.00234 1.23123 1.20406 1.07404 0.92298 1.13953 0.90295 0.88617 0.87642 0.87901 0.78440 0.93263 0.91329 0.84513 0.82309 0.80973 0.81799 0.71649 0.76260 0.90291 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 -0.82 -45.78 10.96 21.82 0.24 -45.54 16 2 C 0.04 1.97 5.14 85.25 0.44 2.41 16 3 Si 0.98 40.58 29.60 68.60 2.03 42.61 16 4 H -0.26 -10.38 7.11 99.48 0.71 -9.68 16 5 H -0.27 -10.33 7.11 99.48 0.71 -9.62 16 6 H -0.26 -10.52 7.11 99.48 0.71 -9.81 16 7 C -0.51 -29.49 9.05 23.46 0.21 -29.28 16 8 H 0.07 3.88 7.91 -2.91 -0.02 3.85 16 9 C 0.12 6.88 5.57 -21.31 -0.12 6.76 16 10 C -0.23 -13.29 8.70 22.75 0.20 -13.09 16 11 C -0.07 -3.73 10.02 22.20 0.22 -3.51 16 12 C -0.30 -14.16 9.32 22.59 0.21 -13.95 16 13 C 0.25 12.03 6.64 38.16 0.25 12.28 16 14 N -0.73 -27.99 4.95 -343.31 -1.70 -29.69 16 15 C 0.18 5.75 4.06 85.63 0.35 6.10 16 16 C -0.12 -2.88 5.26 -19.75 -0.10 -2.98 16 17 C -0.09 -1.67 9.66 22.25 0.22 -1.45 16 18 C -0.12 -1.38 10.04 22.29 0.22 -1.15 16 19 C -0.08 -0.74 10.04 22.25 0.22 -0.52 16 20 C -0.13 -1.65 9.47 22.38 0.21 -1.44 16 21 C 0.14 2.99 6.68 38.09 0.25 3.25 16 22 N -0.34 -8.71 3.82 -191.27 -0.73 -9.44 16 23 C 0.26 5.50 11.98 180.26 2.16 7.66 16 24 N -0.56 -15.82 11.19 -203.73 -2.28 -18.10 16 25 C 0.18 5.91 13.03 180.75 2.35 8.26 16 26 N -0.31 -10.46 8.25 -61.21 -0.51 -10.96 16 27 C -0.32 -17.12 9.63 22.85 0.22 -16.90 16 28 H 0.29 14.34 8.30 -92.70 -0.77 13.57 16 29 H 0.10 5.69 6.15 -2.91 -0.02 5.67 16 30 H 0.11 4.74 8.06 -2.91 -0.02 4.72 16 31 H 0.10 4.43 6.70 -2.91 -0.02 4.41 16 32 H 0.38 14.47 8.47 -92.71 -0.79 13.68 16 33 H 0.05 1.57 7.79 -2.39 -0.02 1.55 16 34 H 0.07 2.49 5.63 -2.38 -0.01 2.48 16 35 H 0.14 2.34 8.04 -2.91 -0.02 2.31 16 36 H 0.16 0.93 8.06 -2.91 -0.02 0.91 16 37 H 0.17 0.30 8.06 -2.91 -0.02 0.28 16 38 H 0.16 0.89 6.81 -2.91 -0.02 0.87 16 39 H 0.27 2.29 7.10 -2.91 -0.02 2.27 16 40 H 0.22 6.54 8.06 -2.91 -0.02 6.52 16 41 H 0.08 4.20 8.06 -2.91 -0.02 4.18 16 Total: -1.00 -75.36 347.57 4.87 -70.49 By element: Atomic # 1 Polarization: 37.88 SS G_CDS: 0.29 Total: 38.17 kcal Atomic # 6 Polarization: -45.07 SS G_CDS: 7.52 Total: -37.55 kcal Atomic # 7 Polarization: -108.75 SS G_CDS: -4.97 Total: -113.72 kcal Atomic # 14 Polarization: 40.58 SS G_CDS: 2.03 Total: 42.61 kcal Total: -75.36 4.87 -70.49 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. ZINC001656261876.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 213.364 kcal (2) G-P(sol) polarization free energy of solvation -75.364 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 138.000 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.872 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -70.492 kcal (6) G-S(sol) free energy of system = (1) + (5) 142.872 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.72 seconds