Wall clock time and date at job start Tue Mar 31 2020 14:05:39 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 1.31558 * 1 3 3 Si 1.86795 * 120.00449 * 2 1 4 4 H 1.48500 * 109.47376 * 270.01002 * 3 2 1 5 5 H 1.48506 * 109.46589 * 30.00802 * 3 2 1 6 6 H 1.48494 * 109.47067 * 150.00278 * 3 2 1 7 7 C 1.38810 * 119.99387 * 180.02562 * 2 1 3 8 8 H 1.08001 * 120.00260 * 359.97438 * 7 2 1 9 9 S 1.76203 * 119.99623 * 179.97438 * 7 2 1 10 10 C 1.76200 * 100.00026 * 185.65523 * 9 7 2 11 11 C 1.39119 * 120.18950 * 6.83928 * 10 9 7 12 12 C 1.37905 * 120.04723 * 180.27862 * 11 10 9 13 13 C 1.38653 * 120.44259 * 359.71892 * 12 11 10 14 14 C 1.37814 * 120.37877 * 0.02867 * 13 12 11 15 15 C 1.39672 * 119.93699 * 359.97004 * 14 13 12 16 16 C 1.47431 * 120.21229 * 180.02562 * 15 14 13 17 17 O 1.21612 * 119.99928 * 180.02562 * 16 15 14 18 18 N 1.34777 * 120.00212 * 0.02562 * 16 15 14 19 19 C 1.46501 * 120.00153 * 179.72411 * 18 16 15 20 20 C 1.53002 * 109.46894 * 180.27487 * 19 18 16 21 21 H 1.08998 * 110.76199 * 59.29675 * 20 19 18 22 22 C 1.55134 * 110.85423 * 182.79317 * 20 19 18 23 23 C 1.54039 * 106.80757 * 160.10292 * 22 20 19 24 24 C 1.54273 * 109.08778 * 313.05513 * 23 22 20 25 25 S 1.83097 * 104.65045 * 27.82480 * 24 23 22 26 26 H 0.96999 * 119.99827 * 359.97438 * 1 2 3 27 27 H 1.07999 * 119.97530 * 0.02562 * 11 10 9 28 28 H 1.08005 * 119.77669 * 179.74713 * 12 11 10 29 29 H 1.07997 * 119.81525 * 179.97438 * 13 12 11 30 30 H 1.08001 * 120.02928 * 180.02562 * 14 13 12 31 31 H 0.97005 * 119.99865 * 359.97438 * 18 16 15 32 32 H 1.08998 * 109.46808 * 300.27377 * 19 18 16 33 33 H 1.08999 * 109.46928 * 60.27258 * 19 18 16 34 34 H 1.08999 * 109.97966 * 279.65594 * 22 20 19 35 35 H 1.09004 * 109.97677 * 40.93358 * 22 20 19 36 36 H 1.09003 * 109.63550 * 193.02412 * 23 22 20 37 37 H 1.09005 * 109.42445 * 72.96382 * 23 22 20 38 38 H 1.08994 * 110.40135 * 269.03227 * 24 23 22 39 39 H 1.09007 * 110.40178 * 146.61652 * 24 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 1.3156 0.0000 0.0000 3 14 2.2497 1.6176 0.0000 4 1 2.4970 2.0465 -1.4000 5 1 1.4472 2.6525 0.7003 6 1 3.5472 1.4399 0.6999 7 6 2.0095 -1.2022 -0.0005 8 1 1.4694 -2.1375 -0.0005 9 16 3.7715 -1.2023 -0.0012 10 6 4.0774 -2.9290 -0.1727 11 6 3.0229 -3.8067 -0.4033 12 6 3.2649 -5.1583 -0.5314 13 6 4.5570 -5.6526 -0.4377 14 6 5.6154 -4.7987 -0.2147 15 6 5.3884 -3.4269 -0.0826 16 6 6.5163 -2.5078 0.1554 17 8 6.3141 -1.3141 0.2703 18 7 7.7714 -2.9904 0.2457 19 6 8.8929 -2.0764 0.4763 20 6 10.1977 -2.8737 0.5302 21 1 10.3582 -3.4156 -0.4018 22 6 11.4000 -1.9446 0.8431 23 6 12.5335 -2.8449 1.3698 24 6 11.9610 -3.8084 2.4300 25 16 10.2036 -4.0207 1.9620 26 1 -0.4850 0.8401 0.0004 27 1 2.0136 -3.4298 -0.4781 28 1 2.4426 -5.8363 -0.7063 29 1 4.7349 -6.7130 -0.5391 30 1 6.6196 -5.1898 -0.1431 31 1 7.9327 -3.9426 0.1545 32 1 8.9435 -1.3513 -0.3360 33 1 8.7471 -1.5536 1.4215 34 1 11.7190 -1.4302 -0.0635 35 1 11.1202 -1.2173 1.6053 36 1 13.3125 -2.2285 1.8185 37 1 12.9546 -3.4182 0.5439 38 1 12.0389 -3.3690 3.4244 39 1 12.4819 -4.7653 2.3946 RHF calculation, no. of doubly occupied orbitals= 54 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 ZINC000756985044.mol2 39 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 14:05:39 Heat of formation + Delta-G solvation = -35.756437 kcal Electronic energy + Delta-G solvation = -21789.083992 eV Core-core repulsion = 18526.685780 eV Total energy + Delta-G solvation = -3262.398213 eV No. of doubly occupied orbitals = 54 Molecular weight (most abundant/longest-lived isotopes) = 323.075 amu Computer time = 0.57 seconds Orbital eigenvalues (eV) -41.07475 -39.11184 -37.56748 -35.62062 -34.82025 -32.65889 -31.87138 -30.99848 -27.99390 -27.28250 -24.94960 -23.76582 -23.28581 -22.12224 -21.33750 -20.04862 -18.83001 -17.82411 -17.55010 -17.19983 -17.13316 -16.47499 -16.07804 -15.85885 -15.54395 -15.29334 -15.09443 -14.97058 -14.80767 -14.23950 -13.96273 -13.67789 -13.54980 -13.25849 -13.11768 -13.04396 -12.65931 -12.49419 -12.47648 -12.27102 -12.26820 -11.73123 -11.54882 -11.42340 -11.33480 -10.85924 -10.59629 -10.18713 -10.07401 -9.82629 -8.70109 -8.67975 -8.59709 -6.31018 -0.05382 0.45110 0.78981 1.00021 1.23176 1.40606 1.44627 1.62512 1.95081 2.13006 2.16679 2.66624 2.77518 2.96264 3.53302 3.60881 3.84865 3.91926 3.94582 4.07981 4.14370 4.21826 4.31020 4.52546 4.54902 4.57192 4.65338 4.77372 4.77612 4.87878 4.98650 5.00162 5.04306 5.20904 5.32949 5.40579 5.47056 5.59624 5.66328 6.03083 6.16115 6.51826 6.84038 7.25530 8.51617 Molecular weight = 323.08amu Principal moments of inertia in cm(-1) A = 0.016617 B = 0.003403 C = 0.002903 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1684.581669 B = 8225.241256 C = 9643.086927 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.907 5.907 2 C 0.053 3.947 3 Si 0.907 3.093 4 H -0.256 1.256 5 H -0.252 1.252 6 H -0.241 1.241 7 C -0.586 4.586 8 H 0.080 0.920 9 S 0.025 5.975 10 C -0.053 4.053 11 C -0.170 4.170 12 C -0.070 4.070 13 C -0.147 4.147 14 C -0.055 4.055 15 C -0.175 4.175 16 C 0.551 3.449 17 O -0.553 6.553 18 N -0.712 5.712 19 C 0.140 3.860 20 C -0.037 4.037 21 H 0.120 0.880 22 C -0.122 4.122 23 C -0.122 4.122 24 C -0.065 4.065 25 S -0.344 6.344 26 H 0.279 0.721 27 H 0.114 0.886 28 H 0.148 0.852 29 H 0.169 0.831 30 H 0.159 0.841 31 H 0.410 0.590 32 H 0.081 0.919 33 H 0.060 0.940 34 H 0.107 0.893 35 H 0.076 0.924 36 H 0.102 0.898 37 H 0.087 0.913 38 H 0.094 0.906 39 H 0.107 0.893 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 27.572 -11.106 0.212 29.725 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 -0.544 5.544 2 C -0.153 4.153 3 Si 0.728 3.272 4 H -0.181 1.181 5 H -0.176 1.176 6 H -0.165 1.165 7 C -0.732 4.732 8 H 0.097 0.903 9 S 0.280 5.720 10 C -0.170 4.170 11 C -0.194 4.194 12 C -0.091 4.091 13 C -0.169 4.169 14 C -0.075 4.075 15 C -0.188 4.188 16 C 0.340 3.660 17 O -0.434 6.434 18 N -0.366 5.366 19 C 0.015 3.985 20 C -0.166 4.166 21 H 0.138 0.862 22 C -0.161 4.161 23 C -0.160 4.160 24 C -0.213 4.213 25 S -0.118 6.118 26 H 0.089 0.911 27 H 0.132 0.868 28 H 0.166 0.834 29 H 0.186 0.814 30 H 0.176 0.824 31 H 0.248 0.752 32 H 0.099 0.901 33 H 0.078 0.922 34 H 0.125 0.875 35 H 0.094 0.906 36 H 0.120 0.880 37 H 0.106 0.894 38 H 0.113 0.887 39 H 0.125 0.875 Dipole moment (debyes) X Y Z Total from point charges 27.066 -9.596 0.912 28.731 hybrid contribution -0.783 0.103 -0.484 0.926 sum 26.283 -9.493 0.428 27.948 Atomic orbital electron populations 1.69989 1.07414 1.29274 1.47692 1.25590 0.95295 1.02116 0.92308 0.86017 0.80659 0.79876 0.80631 1.18080 1.17608 1.16463 1.23649 0.93548 0.97581 1.58458 0.90270 1.83997 1.02894 1.01817 1.83282 1.22515 0.95926 0.99104 0.99501 1.21476 0.98510 0.94885 1.04570 1.21543 0.98917 0.93435 0.95213 1.21372 0.91233 1.01360 1.02984 1.21434 1.00842 0.89970 0.95234 1.19521 0.90945 0.95315 1.12986 1.18350 0.83611 0.87515 0.76560 1.90741 1.84048 1.17440 1.51149 1.45638 1.05138 1.11690 1.74118 1.21258 0.83242 0.92011 1.01994 1.24292 0.96852 0.97129 0.98328 0.86159 1.22680 0.91976 0.97885 1.03539 1.22322 0.98419 0.97166 0.98124 1.24116 0.90589 1.03912 1.02649 1.88111 1.19929 1.62038 1.41767 0.91098 0.86826 0.83386 0.81391 0.82359 0.75216 0.90127 0.92170 0.87454 0.90555 0.87983 0.89445 0.88723 0.87482 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 -0.91 -56.23 13.96 21.65 0.30 -55.93 16 2 C 0.05 3.21 5.50 84.87 0.47 3.68 16 3 Si 0.91 45.76 27.74 68.60 1.90 47.66 16 4 H -0.26 -12.48 7.11 99.48 0.71 -11.77 16 5 H -0.25 -11.80 7.11 99.48 0.71 -11.09 16 6 H -0.24 -12.29 6.74 99.48 0.67 -11.62 16 7 C -0.59 -35.69 9.54 67.96 0.65 -35.04 16 8 H 0.08 5.07 5.21 -2.91 -0.02 5.05 16 9 S 0.02 1.34 16.53 -56.49 -0.93 0.41 16 10 C -0.05 -2.48 6.14 23.04 0.14 -2.34 16 11 C -0.17 -7.37 9.22 22.40 0.21 -7.17 16 12 C -0.07 -2.23 10.02 22.29 0.22 -2.00 16 13 C -0.15 -3.70 10.02 22.27 0.22 -3.48 16 14 C -0.05 -1.49 9.53 22.52 0.21 -1.28 16 15 C -0.17 -6.62 5.89 -19.95 -0.12 -6.74 16 16 C 0.55 20.50 7.75 86.66 0.67 21.17 16 17 O -0.55 -25.45 13.77 -4.07 -0.06 -25.51 16 18 N -0.71 -18.49 5.32 -466.36 -2.48 -20.97 16 19 C 0.14 3.06 5.21 86.38 0.45 3.51 16 20 C -0.04 -0.53 3.29 31.33 0.10 -0.43 16 21 H 0.12 1.36 8.14 -2.39 -0.02 1.34 16 22 C -0.12 -1.17 5.92 31.68 0.19 -0.98 16 23 C -0.12 -0.80 6.38 31.38 0.20 -0.60 16 24 C -0.06 -0.66 7.34 72.41 0.53 -0.13 16 25 S -0.34 -6.07 22.31 -56.49 -1.26 -7.34 16 26 H 0.28 15.90 8.31 -92.71 -0.77 15.13 16 27 H 0.11 5.67 5.04 -2.91 -0.01 5.65 16 28 H 0.15 3.73 8.06 -2.91 -0.02 3.70 16 29 H 0.17 2.65 8.06 -2.91 -0.02 2.62 16 30 H 0.16 2.88 6.40 -2.91 -0.02 2.86 16 31 H 0.41 8.38 6.27 -92.70 -0.58 7.80 16 32 H 0.08 1.78 8.14 -2.39 -0.02 1.76 16 33 H 0.06 1.57 8.14 -2.39 -0.02 1.55 16 34 H 0.11 0.69 8.14 -2.39 -0.02 0.67 16 35 H 0.08 0.88 8.08 -2.38 -0.02 0.87 16 36 H 0.10 0.38 8.14 -2.39 -0.02 0.37 16 37 H 0.09 0.42 8.14 -2.38 -0.02 0.40 16 38 H 0.09 0.94 8.14 -2.39 -0.02 0.92 16 39 H 0.11 0.85 8.14 -2.38 -0.02 0.83 16 Total: -1.00 -78.56 342.91 2.09 -76.48 By element: Atomic # 1 Polarization: 16.56 SS G_CDS: 0.46 Total: 17.03 kcal Atomic # 6 Polarization: -35.98 SS G_CDS: 4.15 Total: -31.83 kcal Atomic # 7 Polarization: -74.72 SS G_CDS: -2.18 Total: -76.89 kcal Atomic # 8 Polarization: -25.45 SS G_CDS: -0.06 Total: -25.51 kcal Atomic # 14 Polarization: 45.76 SS G_CDS: 1.90 Total: 47.66 kcal Atomic # 16 Polarization: -4.73 SS G_CDS: -2.19 Total: -6.93 kcal Total: -78.56 2.09 -76.48 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. ZINC000756985044.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 40.719 kcal (2) G-P(sol) polarization free energy of solvation -78.564 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -37.845 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.089 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.475 kcal (6) G-S(sol) free energy of system = (1) + (5) -35.756 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.57 seconds