Wall clock time and date at job start Tue Mar 31 2020 17:17:25 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 1.29519 * 1 3 3 Si 1.86790 * 119.99852 * 2 1 4 4 H 1.48500 * 109.47333 * 269.99469 * 3 2 1 5 5 H 1.48507 * 109.47292 * 29.99847 * 3 2 1 6 6 H 1.48506 * 109.47328 * 149.99700 * 3 2 1 7 7 C 1.46563 * 119.99964 * 179.97438 * 2 1 3 8 8 H 1.08002 * 120.00124 * 189.10523 * 7 2 1 9 9 C 1.39688 * 119.99863 * 9.10917 * 7 2 1 10 10 C 1.44615 * 123.87100 * 22.21550 * 9 7 2 11 11 C 1.32781 * 113.30664 * 180.27863 * 10 9 7 12 12 S 1.75371 * 111.28646 * 359.74054 * 11 10 9 13 13 C 1.39965 * 123.86717 * 202.00216 * 9 7 2 14 14 C 1.47559 * 124.79242 * 359.97438 * 13 9 7 15 15 O 1.21557 * 119.99874 * 359.72890 * 14 13 9 16 16 N 1.34775 * 120.00249 * 179.72198 * 14 13 9 17 17 N 1.40098 * 120.00088 * 180.02562 * 16 14 13 18 18 C 1.39008 * 119.99820 * 180.02562 * 17 16 14 19 19 N 1.32427 * 119.70570 * 333.10560 * 18 17 16 20 20 C 1.31943 * 121.62135 * 180.02562 * 19 18 17 21 21 C 1.38062 * 120.85598 * 0.02562 * 20 19 18 22 22 C 1.38838 * 119.32888 * 0.02562 * 21 20 19 23 23 C 1.38338 * 118.50533 * 359.97438 * 22 21 20 24 24 N 1.48022 * 120.45103 * 180.27645 * 23 22 21 25 25 O 1.31694 * 119.99820 * 354.01664 * 24 23 22 26 26 O 1.31698 * 120.00097 * 174.01300 * 24 23 22 27 27 H 0.96996 * 119.99905 * 0.02562 * 1 2 3 28 28 H 1.07995 * 123.34994 * 359.97438 * 10 9 7 29 29 H 1.08000 * 124.35541 * 179.73678 * 11 10 9 30 30 H 0.97008 * 119.99750 * 0.02562 * 16 14 13 31 31 H 0.97001 * 120.00361 * 0.02562 * 17 16 14 32 32 H 1.08002 * 119.56822 * 179.97438 * 20 19 18 33 33 H 1.08003 * 120.33730 * 180.02562 * 21 20 19 34 34 H 1.08000 * 120.74932 * 179.97438 * 22 21 20 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 1.2952 0.0000 0.0000 3 14 2.2291 1.6177 0.0000 4 1 2.4767 2.0463 -1.4000 5 1 1.4265 2.6527 0.7000 6 1 3.5267 1.4402 0.7001 7 6 2.0280 -1.2693 0.0006 8 1 3.0978 -1.2751 0.1486 9 6 1.3427 -2.4715 -0.1904 10 6 0.0530 -2.5701 -0.8371 11 6 -0.4087 -3.8133 -0.9016 12 16 0.7153 -4.9482 -0.1775 13 6 1.8277 -3.7191 0.2184 14 6 3.1174 -3.9388 0.9009 15 8 3.8459 -2.9960 1.1415 16 7 3.4875 -5.1846 1.2577 17 7 4.7117 -5.3931 1.9062 18 6 5.0936 -6.6781 2.2736 19 7 4.1681 -7.5937 2.5161 20 6 4.4880 -8.8245 2.8679 21 6 5.8093 -9.2033 2.9968 22 6 6.8105 -8.2729 2.7524 23 6 6.4445 -6.9903 2.3854 24 7 7.4765 -5.9659 2.1087 25 8 8.7472 -6.2363 2.3246 26 8 7.1240 -4.7841 1.6467 27 1 -0.4850 0.8400 -0.0004 28 1 -0.4837 -1.7167 -1.2245 29 1 -1.3547 -4.0901 -1.3430 30 1 2.9061 -5.9371 1.0654 31 1 5.2928 -4.6407 2.0988 32 1 3.7060 -9.5447 3.0582 33 1 6.0617 -10.2132 3.2847 34 1 7.8515 -8.5444 2.8468 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC001558950009.mol2 34 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 17:17:25 Heat of formation + Delta-G solvation = 75.432009 kcal Electronic energy + Delta-G solvation = -25065.589474 eV Core-core repulsion = 21095.378967 eV Total energy + Delta-G solvation = -3970.210507 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 334.057 amu Computer time = 1.08 seconds Orbital eigenvalues (eV) -42.17563 -40.38547 -39.71737 -38.06626 -37.06686 -35.59216 -35.08637 -34.08912 -33.58973 -31.19981 -30.33606 -28.09107 -27.65187 -24.76050 -24.15758 -23.75525 -22.34203 -20.92629 -20.42692 -19.68882 -19.44202 -18.86456 -18.42090 -17.59801 -17.33660 -17.20346 -16.84540 -16.26054 -16.02151 -15.76183 -15.46300 -15.31290 -14.77521 -14.30658 -14.21443 -13.91366 -13.79474 -13.33747 -13.13529 -13.03018 -12.78101 -12.61746 -12.29624 -12.12356 -12.09955 -12.04102 -11.63658 -11.44834 -11.15158 -11.11246 -10.85164 -10.65058 -9.52400 -9.10533 -9.02361 -8.88093 -6.45366 -1.92428 -0.16623 -0.05878 -0.00776 0.32717 0.69726 1.29052 1.30659 1.38356 1.42194 1.87255 1.92028 2.11985 2.24865 2.35022 2.54788 2.87994 3.17043 3.35432 3.63527 3.73138 4.15196 4.35316 4.42016 4.54345 4.63876 4.73257 4.83537 5.18151 5.23667 5.27922 5.37426 5.50590 5.53909 5.71635 5.96710 6.22188 6.36434 6.53592 6.62944 6.76961 7.50997 7.85297 Molecular weight = 334.06amu Principal moments of inertia in cm(-1) A = 0.014689 B = 0.003486 C = 0.002880 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1905.792472 B = 8029.622330 C = 9721.496509 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.755 5.755 2 C 0.038 3.962 3 Si 0.993 3.007 4 H -0.246 1.246 5 H -0.246 1.246 6 H -0.275 1.275 7 C -0.410 4.410 8 H 0.084 0.916 9 C 0.105 3.895 10 C -0.134 4.134 11 C -0.190 4.190 12 S 0.052 5.948 13 C -0.512 4.512 14 C 0.587 3.413 15 O -0.597 6.597 16 N -0.527 5.527 17 N -0.485 5.485 18 C 0.442 3.558 19 N -0.551 5.551 20 C 0.221 3.779 21 C -0.194 4.194 22 C 0.033 3.967 23 C -0.135 4.135 24 N 0.014 4.986 25 O -0.160 6.160 26 O -0.300 6.300 27 H 0.312 0.688 28 H 0.146 0.854 29 H 0.180 0.820 30 H 0.428 0.572 31 H 0.441 0.559 32 H 0.230 0.770 33 H 0.216 0.784 34 H 0.193 0.807 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 2.457 -17.947 4.569 18.681 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 -0.376 5.376 2 C -0.190 4.190 3 Si 0.811 3.189 4 H -0.170 1.170 5 H -0.169 1.169 6 H -0.199 1.199 7 C -0.439 4.439 8 H 0.102 0.898 9 C 0.095 3.905 10 C -0.167 4.167 11 C -0.324 4.324 12 S 0.308 5.692 13 C -0.632 4.632 14 C 0.386 3.614 15 O -0.481 6.481 16 N -0.276 5.276 17 N -0.218 5.218 18 C 0.199 3.801 19 N -0.271 5.271 20 C 0.059 3.941 21 C -0.216 4.216 22 C 0.007 3.993 23 C -0.236 4.236 24 N 0.469 4.531 25 O -0.360 6.360 26 O -0.454 6.454 27 H 0.125 0.875 28 H 0.164 0.836 29 H 0.198 0.802 30 H 0.271 0.729 31 H 0.294 0.706 32 H 0.246 0.754 33 H 0.232 0.768 34 H 0.210 0.790 Dipole moment (debyes) X Y Z Total from point charges 1.220 -18.441 4.765 19.086 hybrid contribution 1.524 2.777 -0.128 3.170 sum 2.744 -15.665 4.637 16.566 Atomic orbital electron populations 1.69008 1.09600 1.33299 1.25658 1.28494 0.95628 1.04830 0.90011 0.85051 0.78825 0.74337 0.80673 1.16957 1.16876 1.19919 1.21300 0.96416 0.90200 1.36032 0.89754 1.18287 0.91327 0.91924 0.88964 1.21689 0.96060 0.97333 1.01575 1.25557 1.03994 0.96382 1.06507 1.81041 1.12087 1.10490 1.65612 1.22080 1.05004 0.99471 1.36642 1.17592 0.85598 0.80064 0.78112 1.90599 1.55445 1.42066 1.60029 1.44901 1.12661 1.10193 1.59850 1.44647 1.13342 1.06984 1.56807 1.18226 0.86980 0.86190 0.88666 1.67867 1.33556 1.04717 1.20927 1.24161 0.98732 0.89281 0.81928 1.22637 0.90711 1.03175 1.05119 1.21926 1.05100 0.86209 0.86104 1.21178 0.84055 0.91682 1.26706 1.50535 1.03574 1.02884 0.96067 1.96165 0.97418 1.86268 1.56147 1.96231 1.86558 1.07742 1.54837 0.87467 0.83624 0.80234 0.72920 0.70569 0.75377 0.76758 0.79010 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 18. 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 -0.75 -34.75 10.89 23.22 0.25 -34.50 16 2 C 0.04 1.83 5.57 87.21 0.49 2.32 16 3 Si 0.99 37.51 29.65 68.60 2.03 39.55 16 4 H -0.25 -8.66 7.11 99.48 0.71 -7.96 16 5 H -0.25 -8.18 7.11 99.48 0.71 -7.47 16 6 H -0.27 -11.43 7.11 99.48 0.71 -10.72 16 7 C -0.41 -23.23 8.81 24.79 0.22 -23.01 16 8 H 0.08 5.22 6.04 -2.91 -0.02 5.20 16 9 C 0.11 5.80 5.72 -20.88 -0.12 5.68 16 10 C -0.13 -6.38 9.19 22.72 0.21 -6.17 16 11 C -0.19 -7.72 11.07 66.64 0.74 -6.99 16 12 S 0.05 2.14 21.94 -56.49 -1.24 0.90 16 13 C -0.51 -26.85 6.35 25.15 0.16 -26.69 16 14 C 0.59 31.45 7.93 86.70 0.69 32.13 16 15 O -0.60 -36.34 14.25 -3.89 -0.06 -36.40 16 16 N -0.53 -23.18 6.24 -175.83 -1.10 -24.27 16 17 N -0.49 -19.88 5.81 -55.44 -0.32 -20.20 16 18 C 0.44 13.69 7.47 133.04 0.99 14.68 16 19 N -0.55 -13.13 9.72 -193.26 -1.88 -15.01 16 20 C 0.22 2.33 11.17 84.63 0.95 3.28 16 21 C -0.19 -1.22 10.10 22.37 0.23 -1.00 16 22 C 0.03 0.47 9.69 22.44 0.22 0.69 16 23 C -0.13 -3.66 6.92 36.60 0.25 -3.41 16 24 N 0.01 0.48 4.98 -45.91 -0.23 0.25 16 25 O -0.16 -5.22 19.24 3.53 0.07 -5.15 16 26 O -0.30 -13.30 16.54 3.52 0.06 -13.24 16 27 H 0.31 12.29 8.27 -92.71 -0.77 11.53 16 28 H 0.15 6.82 6.38 -2.91 -0.02 6.81 16 29 H 0.18 5.66 8.06 -2.91 -0.02 5.64 16 30 H 0.43 16.75 7.30 -213.31 -1.56 15.19 16 31 H 0.44 20.21 5.21 -213.32 -1.11 19.10 16 32 H 0.23 0.11 8.06 -2.91 -0.02 0.09 16 33 H 0.22 -0.91 8.06 -2.91 -0.02 -0.93 16 34 H 0.19 1.72 7.68 -2.91 -0.02 1.70 16 Total: -1.00 -79.56 325.63 1.16 -78.39 By element: Atomic # 1 Polarization: 39.61 SS G_CDS: -1.44 Total: 38.16 kcal Atomic # 6 Polarization: -13.50 SS G_CDS: 5.01 Total: -8.49 kcal Atomic # 7 Polarization: -90.46 SS G_CDS: -3.27 Total: -93.73 kcal Atomic # 8 Polarization: -54.85 SS G_CDS: 0.07 Total: -54.78 kcal Atomic # 14 Polarization: 37.51 SS G_CDS: 2.03 Total: 39.55 kcal Atomic # 16 Polarization: 2.14 SS G_CDS: -1.24 Total: 0.90 kcal Total: -79.56 1.16 -78.39 kcal The number of atoms in the molecule is 34 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. ZINC001558950009.mol2 34 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 153.825 kcal (2) G-P(sol) polarization free energy of solvation -79.557 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 74.268 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.164 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.393 kcal (6) G-S(sol) free energy of system = (1) + (5) 75.432 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.08 seconds