Wall clock time and date at job start Mon Mar 30 2020 06:27:22 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 C 2 2 C 1.53002 * 1 3 3 S 1.81395 * 109.46791 * 2 1 4 4 C 1.81407 * 102.99856 * 179.97438 * 3 2 1 5 5 H 1.08994 * 110.28472 * 55.67180 * 4 3 2 6 6 C 1.54256 * 110.32344 * 293.54588 * 4 3 2 7 7 C 1.54378 * 105.06395 * 241.00353 * 6 4 3 8 8 N 1.48568 * 104.59263 * 336.14843 * 7 6 4 9 9 C 1.46895 * 110.99975 * 159.03983 * 8 7 6 10 10 C 1.53002 * 109.46994 * 75.98450 * 9 8 7 11 11 C 1.50700 * 115.54938 * 269.70328 * 10 9 8 12 12 H 1.08002 * 119.99633 * 114.47500 * 11 10 9 13 13 C 1.37872 * 120.00376 * 294.47580 * 11 10 9 14 14 N 1.31519 * 120.00005 * 350.81307 * 13 11 10 15 15 Si 1.86801 * 120.00098 * 170.81176 * 13 11 10 16 16 H 1.48494 * 109.47120 * 90.00221 * 15 13 11 17 17 H 1.48505 * 109.46861 * 210.00258 * 15 13 11 18 18 H 1.48499 * 109.46934 * 330.00043 * 15 13 11 19 19 C 1.53001 * 117.49909 * 123.99826 * 10 9 8 20 20 C 1.52997 * 59.99945 * 252.51151 * 19 10 9 21 21 C 1.48565 * 104.21926 * 39.48198 * 8 7 6 22 22 H 1.09004 * 109.47480 * 299.99875 * 1 2 3 23 23 H 1.08997 * 109.47318 * 59.99915 * 1 2 3 24 24 H 1.08999 * 109.47053 * 179.97438 * 1 2 3 25 25 H 1.09003 * 109.46959 * 240.00122 * 2 1 3 26 26 H 1.09001 * 109.46612 * 120.00066 * 2 1 3 27 27 H 1.08996 * 110.32533 * 122.10069 * 6 4 3 28 28 H 1.09007 * 110.32730 * 359.89975 * 6 4 3 29 29 H 1.08998 * 110.41136 * 94.92449 * 7 6 4 30 30 H 1.08997 * 110.41380 * 217.37054 * 7 6 4 31 31 H 1.08998 * 109.46761 * 195.98261 * 9 8 7 32 32 H 1.08994 * 109.47280 * 315.98398 * 9 8 7 33 33 H 0.96997 * 120.00017 * 185.02371 * 14 13 11 34 34 H 1.09008 * 117.50084 * 359.97438 * 19 10 9 35 35 H 1.09000 * 117.49897 * 145.01758 * 19 10 9 36 36 H 1.09004 * 117.49709 * 252.50575 * 20 19 10 37 37 H 1.09001 * 117.52266 * 107.48421 * 20 19 10 38 38 H 1.08997 * 110.40836 * 201.73698 * 21 8 7 39 39 H 1.09000 * 110.40856 * 79.30149 * 21 8 7 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 16 2.1346 1.7102 0.0000 4 6 3.9371 1.5058 0.0008 5 1 4.2479 0.8903 -0.8433 6 6 4.4038 0.8715 1.3272 7 6 5.3443 1.9175 1.9631 8 7 5.8288 2.7306 0.8179 9 6 6.3190 4.0390 1.2713 10 6 7.6944 3.8714 1.9202 11 6 7.6854 3.6112 3.4045 12 1 8.0367 2.6650 3.7890 13 6 7.2287 4.5808 4.2718 14 7 6.9718 5.7919 3.8278 15 14 6.9747 4.1745 6.0773 16 1 8.2275 4.4462 6.8268 17 1 5.8786 5.0141 6.6241 18 1 6.6159 2.7402 6.2161 19 6 8.8481 4.7026 1.3553 20 6 8.7891 3.1967 1.0912 21 6 4.6349 2.8819 -0.0532 22 1 -0.3634 0.5138 0.8900 23 1 -0.3634 0.5138 -0.8899 24 1 -0.3633 -1.0277 -0.0005 25 1 1.8933 -0.5138 -0.8900 26 1 1.8933 -0.5139 0.8900 27 1 4.9437 -0.0555 1.1342 28 1 3.5500 0.6845 1.9786 29 1 4.7964 2.5426 2.6682 30 1 6.1801 1.4250 2.4601 31 1 6.3994 4.7124 0.4179 32 1 5.6224 4.4558 1.9986 33 1 6.7207 6.4931 4.4492 34 1 8.6273 5.3685 0.5210 35 1 9.6007 5.0615 2.0573 36 1 9.5032 2.5648 1.6195 37 1 8.5294 2.8718 0.0837 38 1 4.9365 3.1154 -1.0742 39 1 3.9760 3.6579 0.3364 RHF calculation, no. of doubly occupied orbitals= 46 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). 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 ZINC000382969226.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 06:27:22 Heat of formation + Delta-G solvation = 6.020096 kcal Electronic energy + Delta-G solvation = -17306.334185 eV Core-core repulsion = 14760.870567 eV Total energy + Delta-G solvation = -2545.463617 eV No. of doubly occupied orbitals = 46 Molecular weight (most abundant/longest-lived isotopes) = 255.135 amu Computer time = 0.32 seconds Orbital eigenvalues (eV) -39.99049 -37.80524 -34.04747 -33.68180 -32.61947 -29.85802 -27.77554 -26.56106 -24.37570 -22.87195 -22.21506 -21.82421 -20.67428 -18.20069 -17.42742 -17.02428 -16.56157 -16.31603 -15.75748 -15.52166 -15.31186 -14.68697 -14.53676 -14.11055 -13.70428 -13.32870 -13.19086 -12.87852 -12.83628 -12.76515 -12.65835 -12.45600 -12.34389 -12.20811 -11.96814 -11.90160 -11.66601 -11.18621 -10.79515 -10.71517 -10.40421 -9.95872 -9.31284 -8.68151 -8.09490 -6.17279 0.68261 1.37999 1.41171 1.49492 1.63153 2.41675 3.15099 3.18899 3.51150 3.63960 3.77874 4.05241 4.09163 4.14567 4.31179 4.34501 4.52321 4.55077 4.60213 4.70612 4.72607 4.77852 4.87202 4.91175 4.94769 5.02735 5.07656 5.09379 5.15735 5.21372 5.24246 5.29792 5.60502 5.68617 5.79517 6.10044 6.20659 6.46748 6.88367 7.47816 8.98211 Molecular weight = 255.14amu Principal moments of inertia in cm(-1) A = 0.024112 B = 0.005743 C = 0.005067 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1160.983732 B = 4874.342716 C = 5524.927765 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.134 4.134 2 C -0.078 4.078 3 S -0.305 6.305 4 C -0.039 4.039 5 H 0.111 0.889 6 C -0.110 4.110 7 C 0.053 3.947 8 N -0.498 5.498 9 C 0.109 3.891 10 C 0.032 3.968 11 C -0.497 4.497 12 H 0.050 0.950 13 C 0.027 3.973 14 N -0.908 5.908 15 Si 0.938 3.062 16 H -0.277 1.277 17 H -0.287 1.287 18 H -0.266 1.266 19 C -0.184 4.184 20 C -0.165 4.165 21 C 0.052 3.948 22 H 0.056 0.944 23 H 0.061 0.939 24 H 0.092 0.908 25 H 0.093 0.907 26 H 0.087 0.913 27 H 0.092 0.908 28 H 0.079 0.921 29 H 0.017 0.983 30 H 0.073 0.927 31 H 0.043 0.957 32 H 0.014 0.986 33 H 0.258 0.742 34 H 0.069 0.931 35 H 0.058 0.942 36 H 0.071 0.929 37 H 0.089 0.911 38 H 0.094 0.906 39 H 0.030 0.970 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -9.923 -11.709 -7.950 17.285 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 C -0.192 4.192 2 C -0.226 4.226 3 S -0.079 6.079 4 C -0.168 4.168 5 H 0.129 0.871 6 C -0.150 4.150 7 C -0.075 4.075 8 N -0.222 5.222 9 C -0.019 4.019 10 C 0.032 3.968 11 C -0.535 4.535 12 H 0.069 0.931 13 C -0.173 4.173 14 N -0.546 5.546 15 Si 0.764 3.236 16 H -0.203 1.203 17 H -0.213 1.213 18 H -0.190 1.190 19 C -0.222 4.222 20 C -0.202 4.202 21 C -0.077 4.077 22 H 0.075 0.925 23 H 0.080 0.920 24 H 0.111 0.889 25 H 0.111 0.889 26 H 0.105 0.895 27 H 0.110 0.890 28 H 0.097 0.903 29 H 0.035 0.965 30 H 0.091 0.909 31 H 0.062 0.938 32 H 0.033 0.967 33 H 0.067 0.933 34 H 0.087 0.913 35 H 0.077 0.923 36 H 0.090 0.910 37 H 0.107 0.893 38 H 0.113 0.887 39 H 0.048 0.952 Dipole moment (debyes) X Y Z Total from point charges -10.210 -10.859 -8.192 17.009 hybrid contribution 0.203 -0.030 1.639 1.652 sum -10.007 -10.889 -6.554 16.176 Atomic orbital electron populations 1.21525 0.91389 1.03626 1.02671 1.23379 1.00601 0.92828 1.05809 1.87124 1.06259 1.16487 1.98006 1.23770 0.91614 0.99692 1.01772 0.87129 1.22727 0.99107 0.98667 0.94525 1.22855 0.97256 0.94819 0.92605 1.65469 1.26837 1.14913 1.14973 1.21481 0.96574 0.88438 0.95454 1.18795 0.86589 0.99236 0.92225 1.20689 1.41934 1.00325 0.90541 0.93133 1.25591 0.94932 0.94909 1.01839 1.70092 1.47322 1.01701 1.35512 0.85850 0.77775 0.78507 0.81427 1.20253 1.21316 1.19013 1.22688 1.04700 0.93124 1.01682 1.22666 1.03360 0.93751 1.00439 1.22918 0.90922 0.94601 0.99297 0.92529 0.91985 0.88913 0.88873 0.89483 0.88981 0.90256 0.96462 0.90859 0.93823 0.96718 0.93253 0.91272 0.92326 0.91037 0.89289 0.88732 0.95174 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 C -0.13 -1.93 9.92 71.98 0.71 -1.22 16 2 C -0.08 -1.35 6.52 71.98 0.47 -0.88 16 3 S -0.31 -7.81 20.77 -56.49 -1.17 -8.98 16 4 C -0.04 -1.05 3.57 31.49 0.11 -0.93 16 5 H 0.11 2.54 8.14 -2.39 -0.02 2.52 16 6 C -0.11 -3.05 6.53 31.49 0.21 -2.85 16 7 C 0.05 2.01 5.68 86.45 0.49 2.50 16 8 N -0.50 -19.28 5.12 -881.50 -4.51 -23.79 16 9 C 0.11 5.06 4.74 86.30 0.41 5.47 16 10 C 0.03 1.59 1.30 -52.93 -0.07 1.52 16 11 C -0.50 -26.84 7.96 25.60 0.20 -26.64 16 12 H 0.05 2.74 7.83 -2.91 -0.02 2.71 16 13 C 0.03 1.50 5.17 84.65 0.44 1.94 16 14 N -0.91 -52.27 12.81 21.45 0.27 -52.00 16 15 Si 0.94 43.36 29.55 68.60 2.03 45.39 16 16 H -0.28 -12.54 7.11 99.48 0.71 -11.83 16 17 H -0.29 -13.24 7.11 99.48 0.71 -12.53 16 18 H -0.27 -11.87 7.11 99.48 0.71 -11.16 16 19 C -0.18 -8.73 9.88 30.59 0.30 -8.42 16 20 C -0.16 -7.16 9.74 30.59 0.30 -6.87 16 21 C 0.05 1.69 6.01 86.45 0.52 2.21 16 22 H 0.06 0.91 8.14 -2.38 -0.02 0.89 16 23 H 0.06 0.92 8.14 -2.39 -0.02 0.90 16 24 H 0.09 0.92 8.14 -2.39 -0.02 0.90 16 25 H 0.09 1.37 8.14 -2.39 -0.02 1.35 16 26 H 0.09 1.42 7.83 -2.39 -0.02 1.40 16 27 H 0.09 2.19 8.14 -2.39 -0.02 2.17 16 28 H 0.08 2.08 7.32 -2.38 -0.02 2.06 16 29 H 0.02 0.74 7.73 -2.39 -0.02 0.72 16 30 H 0.07 2.96 7.87 -2.39 -0.02 2.94 16 31 H 0.04 1.98 7.80 -2.39 -0.02 1.96 16 32 H 0.01 0.78 7.00 -2.39 -0.02 0.76 16 33 H 0.26 14.30 8.32 -92.71 -0.77 13.53 16 34 H 0.07 3.10 8.03 -2.38 -0.02 3.08 16 35 H 0.06 2.95 8.14 -2.39 -0.02 2.93 16 36 H 0.07 3.06 8.14 -2.38 -0.02 3.04 16 37 H 0.09 3.54 8.14 -2.39 -0.02 3.52 16 38 H 0.09 2.82 8.14 -2.39 -0.02 2.80 16 39 H 0.03 1.10 7.68 -2.39 -0.02 1.08 16 Total: -1.00 -59.47 325.42 1.70 -57.78 By element: Atomic # 1 Polarization: 14.78 SS G_CDS: 0.99 Total: 15.77 kcal Atomic # 6 Polarization: -38.26 SS G_CDS: 4.09 Total: -34.16 kcal Atomic # 7 Polarization: -71.55 SS G_CDS: -4.24 Total: -75.79 kcal Atomic # 14 Polarization: 43.36 SS G_CDS: 2.03 Total: 45.39 kcal Atomic # 16 Polarization: -7.81 SS G_CDS: -1.17 Total: -8.98 kcal Total: -59.47 1.70 -57.78 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. ZINC000382969226.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 63.797 kcal (2) G-P(sol) polarization free energy of solvation -59.473 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 4.324 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.696 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -57.777 kcal (6) G-S(sol) free energy of system = (1) + (5) 6.020 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.32 seconds