Wall clock time and date at job start Tue Mar 31 2020 05:08:27 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 1.31511 * 1 3 3 Si 1.86803 * 119.99980 * 2 1 4 4 H 1.48504 * 109.46711 * 240.00151 * 3 2 1 5 5 H 1.48501 * 109.46991 * 359.97438 * 3 2 1 6 6 H 1.48497 * 109.47339 * 119.99937 * 3 2 1 7 7 C 1.37875 * 119.99926 * 179.97438 * 2 1 3 8 8 H 1.08002 * 119.99790 * 180.02562 * 7 2 1 9 9 C 1.50700 * 120.00097 * 0.02562 * 7 2 1 10 10 C 1.52996 * 109.47108 * 180.02562 * 9 7 2 11 11 C 1.52999 * 109.47066 * 180.02562 * 10 9 7 12 12 C 1.52997 * 109.47292 * 299.99818 * 11 10 9 13 13 N 1.46893 * 109.47548 * 180.02562 * 12 11 10 14 14 C 1.46898 * 111.00631 * 155.00242 * 13 12 11 15 15 C 1.53000 * 109.47602 * 179.97438 * 14 13 12 16 16 C 1.50697 * 109.47198 * 179.97438 * 15 14 13 17 17 N 1.29413 * 125.70005 * 89.95743 * 16 15 14 18 18 N 1.26395 * 116.47579 * 179.74885 * 17 16 15 19 19 C 1.29414 * 116.47820 * 0.53804 * 18 17 16 20 20 S 1.71222 * 125.69327 * 270.00025 * 16 15 14 21 21 C 1.52996 * 109.47211 * 59.99623 * 12 11 10 22 22 C 1.52997 * 109.46994 * 299.99910 * 9 7 2 23 23 H 0.97002 * 120.00589 * 0.02562 * 1 2 3 24 24 H 1.08999 * 109.46950 * 59.99760 * 9 7 2 25 25 H 1.08999 * 109.47474 * 60.00004 * 10 9 7 26 26 H 1.09000 * 109.47079 * 299.99604 * 10 9 7 27 27 H 1.09009 * 109.47390 * 179.97438 * 11 10 9 28 28 H 1.09002 * 109.47475 * 60.00281 * 11 10 9 29 29 H 1.09005 * 109.46809 * 300.00348 * 12 11 10 30 30 H 1.00896 * 111.00182 * 31.04311 * 13 12 11 31 31 H 1.09005 * 109.47403 * 59.99170 * 14 13 12 32 32 H 1.09004 * 109.46814 * 299.99707 * 14 13 12 33 33 H 1.09000 * 109.46801 * 59.99448 * 15 14 13 34 34 H 1.08999 * 109.46538 * 299.99666 * 15 14 13 35 35 H 1.08002 * 125.70149 * 179.77314 * 19 18 17 36 36 H 1.09005 * 109.46643 * 60.00623 * 21 12 11 37 37 H 1.09000 * 109.47177 * 180.02562 * 21 12 11 38 38 H 1.08999 * 109.47150 * 299.99728 * 22 9 7 39 39 H 1.09003 * 109.47514 * 60.00173 * 22 9 7 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 1.3151 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 3.1028 1.6964 -1.2126 5 1 1.2841 2.7465 -0.0006 6 1 3.1028 1.6965 1.2125 7 6 2.0045 -1.1940 0.0005 8 1 3.0845 -1.1940 0.0010 9 6 1.2510 -2.4991 0.0005 10 6 2.2452 -3.6620 0.0018 11 6 1.4802 -4.9870 0.0012 12 6 0.5992 -5.0679 1.2494 13 7 -0.1348 -6.3403 1.2492 14 6 -0.5030 -6.7361 2.6151 15 6 -1.2647 -8.0624 2.5741 16 6 -1.6419 -8.4686 3.9754 17 7 -2.7371 -8.1481 4.5857 18 7 -2.8768 -8.5895 5.7618 19 6 -1.9044 -9.3042 6.2291 20 16 -0.6923 -9.4307 5.0264 21 6 -0.3950 -3.9050 1.2483 22 6 0.3709 -2.5799 1.2494 23 1 -0.4851 0.8400 -0.0004 24 1 0.6246 -2.5570 -0.8897 25 1 2.8712 -3.6039 0.8922 26 1 2.8725 -3.6047 -0.8877 27 1 2.1885 -5.8156 0.0016 28 1 0.8545 -5.0450 -0.8895 29 1 1.2250 -5.0100 2.1401 30 1 0.3989 -7.0656 0.7940 31 1 -1.1363 -5.9673 3.0580 32 1 0.3994 -6.8534 3.2151 33 1 -0.6318 -8.8313 2.1311 34 1 -2.1672 -7.9446 1.9742 35 1 -1.8658 -9.7503 7.2119 36 1 -1.0207 -3.9629 0.3576 37 1 -1.0223 -3.9624 2.1378 38 1 0.9972 -2.5220 2.1396 39 1 -0.3375 -1.7514 1.2490 RHF calculation, no. of doubly occupied orbitals= 50 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 ZINC001173333201.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 05:08:27 Heat of formation + Delta-G solvation = 20.580484 kcal Electronic energy + Delta-G solvation = -19314.695848 eV Core-core repulsion = 16382.559514 eV Total energy + Delta-G solvation = -2932.136334 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 281.126 amu Computer time = 2.35 seconds Orbital eigenvalues (eV) -42.30134 -39.76928 -37.03982 -34.90384 -33.51332 -31.38622 -31.18556 -29.40664 -27.10906 -25.86233 -23.91627 -23.03153 -21.96357 -21.53565 -20.38708 -20.09668 -18.38069 -17.18206 -16.98552 -16.61660 -16.51795 -15.74152 -15.64906 -15.01676 -14.75692 -14.66137 -14.22772 -14.17146 -13.91462 -13.32221 -13.19668 -12.90208 -12.78274 -12.52217 -12.46404 -12.14257 -11.99623 -11.82549 -11.67827 -11.45054 -11.23457 -11.15084 -10.92715 -10.73211 -10.63370 -10.49773 -10.34281 -9.35611 -8.05365 -6.19948 -0.52763 -0.00674 0.37267 1.41272 1.42395 1.50045 1.53217 2.44307 2.86695 3.20515 3.38443 3.84593 3.93018 3.94495 4.01492 4.15837 4.28876 4.44150 4.46595 4.59942 4.62124 4.70649 4.86955 4.89270 4.91817 4.98199 4.99768 5.07250 5.21245 5.34820 5.45100 5.52114 5.62970 5.72310 6.05567 6.09172 6.22873 6.43539 6.61282 6.94048 7.48170 7.53897 8.98110 Molecular weight = 281.13amu Principal moments of inertia in cm(-1) A = 0.033424 B = 0.002942 C = 0.002836 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 837.513203 B = 9513.696043 C = 9870.152978 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.918 5.918 2 C 0.009 3.991 3 Si 0.951 3.049 4 H -0.270 1.270 5 H -0.286 1.286 6 H -0.271 1.271 7 C -0.536 4.536 8 H 0.052 0.948 9 C 0.045 3.955 10 C -0.100 4.100 11 C -0.106 4.106 12 C 0.104 3.896 13 N -0.685 5.685 14 C 0.071 3.929 15 C -0.032 4.032 16 C -0.022 4.022 17 N -0.305 5.305 18 N -0.305 5.305 19 C -0.049 4.049 20 S 0.241 5.759 21 C -0.094 4.094 22 C -0.101 4.101 23 H 0.259 0.741 24 H -0.009 1.009 25 H 0.047 0.953 26 H 0.050 0.950 27 H 0.082 0.918 28 H 0.059 0.941 29 H 0.040 0.960 30 H 0.354 0.646 31 H 0.051 0.949 32 H 0.043 0.957 33 H 0.122 0.878 34 H 0.098 0.902 35 H 0.249 0.751 36 H 0.044 0.956 37 H 0.040 0.960 38 H 0.023 0.977 39 H 0.053 0.947 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 2.175 -23.170 9.279 25.054 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 -0.558 5.558 2 C -0.189 4.189 3 Si 0.777 3.223 4 H -0.196 1.196 5 H -0.212 1.212 6 H -0.197 1.197 7 C -0.574 4.574 8 H 0.070 0.930 9 C 0.027 3.973 10 C -0.138 4.138 11 C -0.144 4.144 12 C -0.005 4.005 13 N -0.317 5.317 14 C -0.060 4.060 15 C -0.074 4.074 16 C -0.302 4.302 17 N -0.143 5.143 18 N -0.141 5.141 19 C -0.348 4.348 20 S 0.483 5.517 21 C -0.132 4.132 22 C -0.140 4.140 23 H 0.068 0.932 24 H 0.010 0.990 25 H 0.066 0.934 26 H 0.068 0.932 27 H 0.101 0.899 28 H 0.078 0.922 29 H 0.058 0.942 30 H 0.175 0.825 31 H 0.070 0.930 32 H 0.061 0.939 33 H 0.140 0.860 34 H 0.117 0.883 35 H 0.265 0.735 36 H 0.063 0.937 37 H 0.059 0.941 38 H 0.042 0.958 39 H 0.072 0.928 Dipole moment (debyes) X Y Z Total from point charges 1.068 -22.628 9.216 24.456 hybrid contribution 0.664 1.268 0.490 1.513 sum 1.732 -21.359 9.707 23.525 Atomic orbital electron populations 1.70030 1.07219 1.26984 1.51526 1.25770 0.95639 1.02427 0.95044 0.85720 0.78441 0.79303 0.78847 1.19556 1.21187 1.19652 1.21643 0.93052 0.92466 1.50215 0.92965 1.18625 0.93093 0.92490 0.93138 1.21463 0.97789 0.94385 1.00199 1.21621 0.97960 0.97541 0.97289 1.21321 0.92871 0.88891 0.97440 1.60301 1.48912 1.05111 1.17424 1.21845 0.98290 0.95608 0.90246 1.20179 1.02936 0.97746 0.86526 1.29519 0.94606 1.01163 1.04912 1.71434 1.20037 1.20715 1.02154 1.71408 1.26221 1.11353 1.05103 1.31115 0.93329 1.01939 1.08415 1.83465 1.20462 1.43820 1.03945 1.21454 0.97446 0.94469 0.99841 1.21419 0.98744 0.96077 0.97772 0.93224 0.99038 0.93378 0.93166 0.89901 0.92207 0.94247 0.82536 0.92992 0.93906 0.85961 0.88329 0.73460 0.93674 0.94124 0.95768 0.92829 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 N -0.92 -54.65 11.32 21.45 0.24 -54.40 16 2 C 0.01 0.54 5.30 84.65 0.45 0.98 16 3 Si 0.95 44.38 29.54 68.60 2.03 46.40 16 4 H -0.27 -12.20 7.11 99.48 0.71 -11.50 16 5 H -0.29 -13.18 7.11 99.48 0.71 -12.48 16 6 H -0.27 -12.27 7.11 99.48 0.71 -11.56 16 7 C -0.54 -29.98 8.56 25.60 0.22 -29.76 16 8 H 0.05 2.84 7.74 -2.91 -0.02 2.82 16 9 C 0.04 2.27 2.10 -11.54 -0.02 2.25 16 10 C -0.10 -3.97 5.14 30.59 0.16 -3.82 16 11 C -0.11 -3.30 5.19 30.59 0.16 -3.14 16 12 C 0.10 3.24 2.49 44.91 0.11 3.36 16 13 N -0.68 -16.47 6.31 -491.58 -3.10 -19.57 16 14 C 0.07 1.54 5.47 86.30 0.47 2.02 16 15 C -0.03 -0.55 6.08 29.85 0.18 -0.36 16 16 C -0.02 -0.43 6.78 88.46 0.60 0.17 16 17 N -0.31 -8.19 11.66 -50.85 -0.59 -8.78 16 18 N -0.30 -7.48 11.66 -60.75 -0.71 -8.18 16 19 C -0.05 -0.70 12.39 130.60 1.62 0.92 16 20 S 0.24 2.77 23.06 -56.49 -1.30 1.46 16 21 C -0.09 -3.75 5.43 30.61 0.17 -3.58 16 22 C -0.10 -4.95 4.98 30.61 0.15 -4.80 16 23 H 0.26 14.74 8.31 -92.71 -0.77 13.97 16 24 H -0.01 -0.48 8.14 -2.39 -0.02 -0.50 16 25 H 0.05 1.87 8.14 -2.39 -0.02 1.85 16 26 H 0.05 1.95 8.14 -2.39 -0.02 1.93 16 27 H 0.08 1.97 8.12 -2.38 -0.02 1.95 16 28 H 0.06 1.94 8.14 -2.39 -0.02 1.93 16 29 H 0.04 1.24 7.80 -2.38 -0.02 1.22 16 30 H 0.35 6.41 8.35 -89.70 -0.75 5.66 16 31 H 0.05 1.45 7.44 -2.38 -0.02 1.43 16 32 H 0.04 0.83 8.06 -2.39 -0.02 0.81 16 33 H 0.12 1.21 8.14 -2.39 -0.02 1.19 16 34 H 0.10 1.91 8.14 -2.39 -0.02 1.89 16 35 H 0.25 1.23 8.06 -2.91 -0.02 1.21 16 36 H 0.04 1.92 8.14 -2.38 -0.02 1.90 16 37 H 0.04 1.58 7.45 -2.39 -0.02 1.56 16 38 H 0.02 1.16 8.14 -2.39 -0.02 1.14 16 39 H 0.05 3.02 6.07 -2.39 -0.01 3.00 16 Total: -1.00 -70.56 327.31 1.12 -69.44 By element: Atomic # 1 Polarization: 9.11 SS G_CDS: 0.29 Total: 9.40 kcal Atomic # 6 Polarization: -40.03 SS G_CDS: 4.26 Total: -35.77 kcal Atomic # 7 Polarization: -86.78 SS G_CDS: -4.16 Total: -90.94 kcal Atomic # 14 Polarization: 44.38 SS G_CDS: 2.03 Total: 46.40 kcal Atomic # 16 Polarization: 2.77 SS G_CDS: -1.30 Total: 1.46 kcal Total: -70.56 1.12 -69.44 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. ZINC001173333201.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 90.022 kcal (2) G-P(sol) polarization free energy of solvation -70.560 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 19.461 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.119 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -69.441 kcal (6) G-S(sol) free energy of system = (1) + (5) 20.580 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 2.35 seconds