Wall clock time and date at job start Tue Mar 31 2020 22:08:50 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 1.31409 * 1 3 3 Si 1.86804 * 119.99665 * 2 1 4 4 H 1.48500 * 109.47071 * 239.99499 * 3 2 1 5 5 H 1.48498 * 109.47041 * 359.97438 * 3 2 1 6 6 H 1.48504 * 109.46994 * 119.99705 * 3 2 1 7 7 C 1.38945 * 120.00171 * 179.97438 * 2 1 3 8 8 H 1.07998 * 119.99785 * 196.67228 * 7 2 1 9 9 N 1.37094 * 120.00143 * 16.66667 * 7 2 1 10 10 C 1.46505 * 119.99744 * 19.50174 * 9 7 2 11 11 C 1.50693 * 109.47309 * 264.05430 * 10 9 7 12 12 O 1.20830 * 119.99723 * 0.02562 * 11 10 9 13 13 O 1.34222 * 120.00303 * 179.97438 * 11 10 9 14 14 C 1.34773 * 120.00004 * 199.49780 * 9 7 2 15 15 O 1.21290 * 120.00228 * 5.27485 * 14 9 7 16 16 C 1.50706 * 119.99778 * 185.26964 * 14 9 7 17 17 C 1.53021 * 109.46404 * 213.16460 * 16 14 9 18 18 C 1.53073 * 109.41586 * 179.50976 * 17 16 14 19 19 C 1.52472 * 109.59209 * 59.14832 * 18 17 16 20 20 C 1.52473 * 110.74811 * 301.43677 * 19 18 17 21 21 C 1.53007 * 109.46514 * 93.13911 * 16 14 9 22 22 N 1.46834 * 110.53825 * 64.29912 * 19 18 17 23 23 C 1.34679 * 106.42667 * 118.51317 * 22 19 18 24 24 O 1.21545 * 123.78778 * 179.97438 * 23 22 19 25 25 N 1.33863 * 112.42453 * 359.97438 * 23 22 19 26 26 C 1.34910 * 111.60509 * 359.97438 * 25 23 22 27 27 O 1.21237 * 127.25472 * 179.97438 * 26 25 23 28 28 H 0.97001 * 120.00417 * 0.02562 * 1 2 3 29 29 H 1.08999 * 109.46777 * 24.06037 * 10 9 7 30 30 H 1.08997 * 109.46551 * 144.05556 * 10 9 7 31 31 H 0.96701 * 117.00303 * 179.97438 * 13 11 10 32 32 H 1.08996 * 109.46064 * 333.14608 * 16 14 9 33 33 H 1.09000 * 109.48133 * 299.49304 * 17 16 14 34 34 H 1.08999 * 109.47865 * 59.52785 * 17 16 14 35 35 H 1.09001 * 109.45485 * 299.10927 * 18 17 16 36 36 H 1.09008 * 109.45311 * 179.18504 * 18 17 16 37 37 H 1.08997 * 109.45165 * 298.52898 * 20 19 18 38 38 H 1.08999 * 109.44930 * 178.59356 * 20 19 18 39 39 H 1.09002 * 109.47975 * 300.46945 * 21 16 14 40 40 H 1.08997 * 109.48258 * 60.50919 * 21 16 14 41 41 H 0.97000 * 126.78621 * 298.49280 * 22 19 18 42 42 H 0.96999 * 124.19801 * 179.97438 * 25 23 22 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 1.3141 0.0000 0.0000 3 14 2.2480 1.6178 0.0000 4 1 3.1018 1.6965 -1.2124 5 1 1.2829 2.7465 -0.0006 6 1 3.1017 1.6965 1.2126 7 6 2.0089 -1.2033 0.0005 8 1 3.0548 -1.2227 0.2689 9 7 1.3666 -2.3658 -0.3394 10 6 0.1147 -2.3159 -1.0987 11 6 -1.0524 -2.3955 -0.1488 12 8 -0.8584 -2.4842 1.0405 13 8 -2.3075 -2.3667 -0.6236 14 6 1.8871 -3.5545 0.0247 15 8 2.8703 -3.5944 0.7338 16 6 1.2472 -4.8340 -0.4491 17 6 1.4035 -5.9111 0.6266 18 6 0.7426 -7.2066 0.1493 19 6 1.3950 -7.6646 -1.1505 20 6 1.2694 -6.5907 -2.2256 21 6 1.9282 -5.2975 -1.7386 22 7 2.8052 -8.0069 -0.9264 23 6 2.9344 -9.3112 -1.2361 24 8 3.9822 -9.9228 -1.1628 25 7 1.7793 -9.8585 -1.6338 26 6 0.7737 -8.9592 -1.6226 27 8 -0.3841 -9.1489 -1.9284 28 1 -0.4851 0.8400 -0.0004 29 1 0.0656 -1.3812 -1.6573 30 1 0.0767 -3.1560 -1.7921 31 1 -3.0234 -2.4209 0.0242 32 1 0.1880 -4.6616 -0.6393 33 1 2.4628 -6.0898 0.8108 34 1 0.9255 -5.5770 1.5475 35 1 -0.3198 -7.0313 -0.0200 36 1 0.8661 -7.9785 0.9090 37 1 0.2153 -6.4055 -2.4322 38 1 1.7635 -6.9293 -3.1362 39 1 1.8238 -4.5266 -2.5021 40 1 2.9857 -5.4784 -1.5465 41 1 3.5053 -7.4112 -0.6169 42 1 1.6778 -10.7865 -1.8973 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 ZINC001601070348.mol2 42 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 22:08:50 Heat of formation + Delta-G solvation = -193.926294 kcal Electronic energy + Delta-G solvation = -31239.675807 eV Core-core repulsion = 26798.523652 eV Total energy + Delta-G solvation = -4441.152155 eV No. of doubly occupied orbitals = 63 Molecular weight (most abundant/longest-lived isotopes) = 339.135 amu Computer time = 0.72 seconds Orbital eigenvalues (eV) -43.71509 -41.37467 -40.23451 -39.75097 -38.65881 -37.02501 -36.67658 -36.27145 -34.32860 -33.59027 -32.02196 -31.13161 -29.44803 -27.20255 -25.52643 -23.98807 -23.95977 -22.90575 -22.47434 -21.38301 -20.23173 -19.15509 -18.96583 -18.62497 -18.08622 -17.58739 -17.55981 -17.33697 -17.17097 -16.61216 -16.54036 -16.25194 -16.04191 -15.73321 -15.47376 -15.23972 -15.06219 -14.62093 -14.19526 -13.81700 -13.60724 -13.48920 -13.36365 -13.22954 -13.18280 -12.84503 -12.65330 -12.39298 -12.23723 -12.17464 -12.07146 -12.00887 -11.60484 -11.52532 -11.48069 -11.43312 -11.19786 -10.92729 -10.45576 -10.25457 -9.80781 -8.39482 -5.95123 0.50418 1.39849 1.42697 1.43941 1.53400 1.74004 1.92932 1.94624 2.09719 2.27170 2.59540 2.83875 3.02452 3.14763 3.43044 3.50967 3.78373 3.86390 4.10414 4.22082 4.26638 4.27921 4.39873 4.42440 4.61542 4.73238 4.78344 4.82053 4.93937 4.99558 5.05334 5.09201 5.10016 5.29094 5.35220 5.46596 5.74625 5.88314 6.01256 6.06420 6.35766 6.43062 7.10398 7.15395 7.35910 7.51555 7.98381 8.66176 Molecular weight = 339.14amu Principal moments of inertia in cm(-1) A = 0.018997 B = 0.003488 C = 0.003144 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1473.584614 B = 8025.656430 C = 8904.794350 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.897 5.897 2 C 0.000 4.000 3 Si 0.989 3.011 4 H -0.261 1.261 5 H -0.276 1.276 6 H -0.285 1.285 7 C -0.336 4.336 8 H 0.078 0.922 9 N -0.446 5.446 10 C 0.144 3.856 11 C 0.496 3.504 12 O -0.551 6.551 13 O -0.519 6.519 14 C 0.458 3.542 15 O -0.620 6.620 16 C -0.095 4.095 17 C -0.090 4.090 18 C -0.103 4.103 19 C 0.125 3.875 20 C -0.104 4.104 21 C -0.099 4.099 22 N -0.703 5.703 23 C 0.708 3.292 24 O -0.583 6.583 25 N -0.668 5.668 26 C 0.547 3.453 27 O -0.479 6.479 28 H 0.273 0.727 29 H 0.117 0.883 30 H 0.124 0.876 31 H 0.413 0.587 32 H 0.089 0.911 33 H 0.068 0.932 34 H 0.052 0.948 35 H 0.101 0.899 36 H 0.086 0.914 37 H 0.108 0.892 38 H 0.097 0.903 39 H 0.087 0.913 40 H 0.068 0.932 41 H 0.445 0.555 42 H 0.442 0.558 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -4.296 -13.149 -8.586 16.281 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 -0.537 5.537 2 C -0.201 4.201 3 Si 0.813 3.187 4 H -0.185 1.185 5 H -0.201 1.201 6 H -0.211 1.211 7 C -0.464 4.464 8 H 0.096 0.904 9 N -0.165 5.165 10 C 0.019 3.981 11 C 0.338 3.662 12 O -0.440 6.440 13 O -0.331 6.331 14 C 0.249 3.751 15 O -0.506 6.506 16 C -0.117 4.117 17 C -0.129 4.129 18 C -0.141 4.141 19 C 0.034 3.966 20 C -0.142 4.142 21 C -0.137 4.137 22 N -0.368 5.368 23 C 0.408 3.592 24 O -0.459 6.459 25 N -0.339 5.339 26 C 0.333 3.667 27 O -0.349 6.349 28 H 0.083 0.917 29 H 0.135 0.865 30 H 0.141 0.859 31 H 0.272 0.728 32 H 0.107 0.893 33 H 0.087 0.913 34 H 0.071 0.929 35 H 0.119 0.881 36 H 0.105 0.895 37 H 0.126 0.874 38 H 0.115 0.885 39 H 0.106 0.894 40 H 0.087 0.913 41 H 0.292 0.708 42 H 0.286 0.714 Dipole moment (debyes) X Y Z Total from point charges -3.701 -13.338 -8.321 16.150 hybrid contribution 0.156 1.100 1.203 1.637 sum -3.545 -12.238 -7.119 14.594 Atomic orbital electron populations 1.69771 1.06647 1.28524 1.48725 1.25903 0.96181 1.02214 0.95849 0.85057 0.77846 0.76940 0.78845 1.18524 1.20077 1.21117 1.19585 0.95027 0.84642 1.47130 0.90426 1.43586 1.19660 1.05242 1.47968 1.20825 0.80048 1.05762 0.91509 1.23866 0.84011 0.69379 0.88922 1.90609 1.86024 1.47479 1.19845 1.84449 1.16783 1.86039 1.45839 1.21025 0.86309 0.85686 0.82123 1.90489 1.31037 1.87664 1.41402 1.21280 1.00675 0.91907 0.97800 1.21216 1.01673 0.92981 0.96992 1.21645 1.01143 0.97269 0.94048 1.21168 0.81893 0.94447 0.99059 1.21705 1.04534 0.91791 0.96158 1.21440 0.99877 0.97483 0.94936 1.45702 1.11282 1.09688 1.70091 1.15938 0.83067 0.82861 0.77357 1.91041 1.29124 1.65903 1.59872 1.44229 1.09804 1.16264 1.63634 1.20535 0.84797 0.86291 0.75094 1.90847 1.15896 1.82252 1.45871 0.91725 0.86500 0.85854 0.72816 0.89311 0.91313 0.92889 0.88096 0.89526 0.87401 0.88452 0.89397 0.91295 0.70822 0.71434 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 -0.90 -45.13 9.03 21.66 0.20 -44.94 16 2 C 0.00 -0.02 4.98 84.93 0.42 0.40 16 3 Si 0.99 41.00 29.58 68.60 2.03 43.03 16 4 H -0.26 -10.22 7.11 99.48 0.71 -9.52 16 5 H -0.28 -10.97 7.11 99.48 0.71 -10.26 16 6 H -0.29 -12.32 7.11 99.48 0.71 -11.61 16 7 C -0.34 -18.00 9.30 84.04 0.78 -17.22 16 8 H 0.08 4.47 7.43 -2.91 -0.02 4.45 16 9 N -0.45 -20.96 2.17 -639.62 -1.39 -22.35 16 10 C 0.14 5.60 4.82 85.63 0.41 6.01 16 11 C 0.50 20.06 5.82 71.23 0.41 20.47 16 12 O -0.55 -27.35 16.71 21.95 0.37 -26.98 16 13 O -0.52 -16.19 13.42 -51.34 -0.69 -16.88 16 14 C 0.46 20.27 6.42 87.66 0.56 20.84 16 15 O -0.62 -32.70 15.95 -3.06 -0.05 -32.75 16 16 C -0.10 -2.84 1.74 -11.53 -0.02 -2.86 16 17 C -0.09 -2.47 4.72 30.63 0.14 -2.33 16 18 C -0.10 -1.95 4.97 30.44 0.15 -1.80 16 19 C 0.13 2.13 0.83 2.59 0.00 2.13 16 20 C -0.10 -1.61 4.98 30.45 0.15 -1.46 16 21 C -0.10 -2.17 5.01 30.63 0.15 -2.02 16 22 N -0.70 -12.72 5.25 -442.70 -2.32 -15.05 16 23 C 0.71 14.41 9.00 179.37 1.61 16.03 16 24 O -0.58 -16.28 18.04 -3.86 -0.07 -16.35 16 25 N -0.67 -10.32 5.72 -441.17 -2.52 -12.84 16 26 C 0.55 9.38 7.44 87.78 0.65 10.04 16 27 O -0.48 -10.25 18.02 -2.90 -0.05 -10.30 16 28 H 0.27 13.17 8.31 -92.71 -0.77 12.39 16 29 H 0.12 4.83 6.43 -2.39 -0.02 4.82 16 30 H 0.12 3.52 6.29 -2.39 -0.02 3.50 16 31 H 0.41 9.57 9.10 -74.06 -0.67 8.90 16 32 H 0.09 2.48 5.84 -2.39 -0.01 2.46 16 33 H 0.07 1.97 7.09 -2.39 -0.02 1.95 16 34 H 0.05 1.70 8.14 -2.39 -0.02 1.68 16 35 H 0.10 1.77 8.14 -2.39 -0.02 1.75 16 36 H 0.09 1.50 8.14 -2.38 -0.02 1.48 16 37 H 0.11 1.45 8.14 -2.39 -0.02 1.43 16 38 H 0.10 1.22 8.14 -2.39 -0.02 1.20 16 39 H 0.09 1.83 7.90 -2.39 -0.02 1.81 16 40 H 0.07 1.59 7.36 -2.39 -0.02 1.57 16 41 H 0.45 8.21 7.75 -92.71 -0.72 7.50 16 42 H 0.44 4.91 8.96 -92.71 -0.83 4.08 16 Total: -1.00 -77.42 348.42 -0.15 -77.57 By element: Atomic # 1 Polarization: 30.69 SS G_CDS: -1.09 Total: 29.60 kcal Atomic # 6 Polarization: 42.79 SS G_CDS: 5.44 Total: 48.24 kcal Atomic # 7 Polarization: -89.13 SS G_CDS: -6.04 Total: -95.17 kcal Atomic # 8 Polarization: -102.77 SS G_CDS: -0.49 Total: -103.26 kcal Atomic # 14 Polarization: 41.00 SS G_CDS: 2.03 Total: 43.03 kcal Total: -77.42 -0.15 -77.57 kcal The number of atoms in the molecule is 42 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. ZINC001601070348.mol2 42 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 -116.361 kcal (2) G-P(sol) polarization free energy of solvation -77.417 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -193.778 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.148 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -77.566 kcal (6) G-S(sol) free energy of system = (1) + (5) -193.926 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.72 seconds