Wall clock time and date at job start Sat Apr 11 2020 06:14:11 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 1.31631 * 1 3 3 Si 1.86800 * 120.00233 * 2 1 4 4 H 1.48510 * 109.47082 * 270.00186 * 3 2 1 5 5 H 1.48504 * 109.47159 * 29.99847 * 3 2 1 6 6 H 1.48489 * 109.47333 * 150.00090 * 3 2 1 7 7 C 1.38798 * 119.99781 * 179.97438 * 2 1 3 8 8 H 1.08002 * 120.00371 * 0.02562 * 7 2 1 9 9 S 1.76203 * 119.99832 * 179.72124 * 7 2 1 10 10 C 1.81004 * 99.99907 * 180.27629 * 9 7 2 11 11 C 1.50699 * 109.46742 * 180.02562 * 10 9 7 12 12 O 1.21276 * 120.00732 * 0.02562 * 11 10 9 13 13 N 1.34778 * 119.99778 * 179.97438 * 11 10 9 14 14 C 1.46497 * 120.00309 * 180.02562 * 13 11 10 15 15 C 1.52996 * 109.47359 * 180.02562 * 14 13 11 16 16 H 1.08992 * 112.74229 * 56.24006 * 15 14 13 17 17 C 1.53503 * 113.46691 * 187.06315 * 15 14 13 18 18 C 1.53505 * 83.34283 * 140.84610 * 17 15 14 19 19 N 1.47065 * 87.98448 * 333.93319 * 18 17 15 20 20 C 1.34771 * 136.05161 * 207.15991 * 19 18 17 21 21 O 1.21692 * 120.00055 * 179.97438 * 20 19 18 22 22 C 1.46686 * 120.00456 * 359.94759 * 20 19 18 23 23 C 1.35661 * 126.13240 * 179.97438 * 22 20 19 24 24 N 1.30935 * 114.19094 * 179.97438 * 23 22 20 25 25 C 1.29430 * 117.36545 * 0.02562 * 24 23 22 26 26 S 1.70956 * 110.39026 * 359.72276 * 25 24 23 27 27 H 0.97000 * 119.99427 * 0.02562 * 1 2 3 28 28 H 1.09000 * 109.47255 * 300.00302 * 10 9 7 29 29 H 1.09001 * 109.46783 * 60.00610 * 10 9 7 30 30 H 0.97005 * 120.00069 * 0.02562 * 13 11 10 31 31 H 1.09000 * 109.47102 * 300.00443 * 14 13 11 32 32 H 1.09006 * 109.46942 * 60.00242 * 14 13 11 33 33 H 1.09002 * 114.20352 * 254.43300 * 17 15 14 34 34 H 1.08996 * 114.20855 * 27.25701 * 17 15 14 35 35 H 1.08997 * 113.46120 * 219.14826 * 18 17 15 36 36 H 1.08996 * 113.51741 * 88.72299 * 18 17 15 37 37 H 1.08006 * 122.90113 * 359.96923 * 23 22 20 38 38 H 1.08006 * 124.80605 * 179.97438 * 25 24 23 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 1.3163 0.0000 0.0000 3 14 2.2504 1.6177 0.0000 4 1 2.4979 2.0464 -1.4002 5 1 1.4478 2.6527 0.7000 6 1 3.5479 1.4401 0.7000 7 6 2.0103 -1.2020 0.0005 8 1 1.4703 -2.1374 0.0005 9 16 3.7723 -1.2021 -0.0069 10 6 4.0865 -2.9846 -0.0117 11 6 5.5729 -3.2326 -0.0178 12 8 6.3440 -2.2965 -0.0183 13 7 6.0456 -4.4947 -0.0216 14 6 7.4905 -4.7359 -0.0270 15 6 7.7562 -6.2426 -0.0311 16 1 7.2764 -6.7527 -0.8663 17 6 9.2390 -6.6024 0.1362 18 6 8.6817 -7.7324 1.0131 19 7 7.5072 -6.8848 1.2683 20 6 6.6019 -6.7537 2.2579 21 8 5.7151 -5.9254 2.1656 22 6 6.6848 -7.6099 3.4461 23 6 5.8446 -7.5841 4.5109 24 7 6.1357 -8.4540 5.4453 25 6 7.1635 -9.2159 5.2495 26 16 7.8895 -8.8612 3.7429 27 1 -0.4849 0.8401 -0.0004 28 1 3.6473 -3.4334 0.8793 29 1 3.6399 -3.4299 -0.9007 30 1 5.4289 -5.2436 -0.0208 31 1 7.9305 -4.2873 -0.9176 32 1 7.9365 -4.2904 0.8624 33 1 9.7221 -6.9439 -0.7792 34 1 9.8205 -5.8589 0.6814 35 1 9.2795 -7.9255 1.9038 36 1 8.4492 -8.6403 0.4567 37 1 5.0079 -6.9047 4.5817 38 1 7.5108 -9.9717 5.9384 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 ZINC001358586551.mol2 38 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sat Apr 11 2020 06:14:11 Heat of formation + Delta-G solvation = -6.121407 kcal Electronic energy + Delta-G solvation = -24111.176407 eV Core-core repulsion = 20400.529251 eV Total energy + Delta-G solvation = -3710.647155 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 341.065 amu Computer time = 0.47 seconds Orbital eigenvalues (eV) -41.82635 -40.78334 -40.31634 -38.79151 -35.65777 -34.70521 -32.48034 -31.54173 -30.53548 -28.78640 -27.86148 -26.99017 -24.37225 -23.80693 -21.81286 -21.49814 -20.57250 -19.99588 -19.22525 -17.97344 -17.72463 -17.58504 -17.44031 -17.12388 -16.64159 -16.41186 -15.83062 -15.74752 -15.37969 -15.02759 -14.96251 -14.86942 -14.77481 -14.56941 -14.00838 -13.71731 -13.38448 -13.36093 -13.06392 -12.98705 -12.75967 -12.72128 -12.40505 -11.97226 -11.84079 -11.20797 -11.19510 -10.99455 -10.73901 -10.63999 -10.59434 -10.14769 -10.09268 -9.80810 -9.03341 -8.54425 -6.25921 -0.81757 0.16575 0.53148 0.95297 1.28947 1.36959 1.43835 1.50641 1.57273 1.60117 2.06677 2.22534 2.30251 2.68857 2.83234 3.18804 3.34172 3.51573 3.69870 3.88035 3.97802 4.07176 4.13707 4.16595 4.26346 4.36579 4.40126 4.41676 4.56892 4.73008 4.87407 4.97008 5.01803 5.27970 5.42224 5.67796 6.07639 6.42699 6.46945 6.57754 6.89913 6.92193 7.18320 8.58578 Molecular weight = 341.07amu Principal moments of inertia in cm(-1) A = 0.016482 B = 0.002582 C = 0.002308 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1698.411208 B =10839.738771 C =12130.867910 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 0.044 3.956 3 Si 0.918 3.082 4 H -0.258 1.258 5 H -0.256 1.256 6 H -0.239 1.239 7 C -0.532 4.532 8 H 0.057 0.943 9 S -0.168 6.168 10 C -0.108 4.108 11 C 0.537 3.463 12 O -0.567 6.567 13 N -0.699 5.699 14 C 0.115 3.885 15 C 0.121 3.879 16 H 0.129 0.871 17 C -0.121 4.121 18 C 0.089 3.911 19 N -0.649 5.649 20 C 0.610 3.390 21 O -0.558 6.558 22 C -0.312 4.312 23 C 0.100 3.900 24 N -0.511 5.511 25 C 0.025 3.975 26 S 0.257 5.743 27 H 0.278 0.722 28 H 0.096 0.904 29 H 0.110 0.890 30 H 0.409 0.591 31 H 0.090 0.910 32 H 0.046 0.954 33 H 0.137 0.863 34 H 0.098 0.902 35 H 0.092 0.908 36 H 0.124 0.876 37 H 0.168 0.832 38 H 0.242 0.758 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 26.740 -28.206 3.376 39.013 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 -0.556 5.556 2 C -0.161 4.161 3 Si 0.740 3.260 4 H -0.182 1.182 5 H -0.180 1.180 6 H -0.163 1.163 7 C -0.680 4.680 8 H 0.075 0.925 9 S 0.058 5.942 10 C -0.259 4.259 11 C 0.322 3.678 12 O -0.447 6.447 13 N -0.351 5.351 14 C -0.009 4.009 15 C 0.018 3.982 16 H 0.147 0.853 17 C -0.159 4.159 18 C -0.032 4.032 19 N -0.385 5.385 20 C 0.399 3.601 21 O -0.438 6.438 22 C -0.436 4.436 23 C -0.058 4.058 24 N -0.225 5.225 25 C -0.268 4.268 26 S 0.512 5.488 27 H 0.088 0.912 28 H 0.115 0.885 29 H 0.128 0.872 30 H 0.245 0.755 31 H 0.108 0.892 32 H 0.065 0.935 33 H 0.155 0.845 34 H 0.117 0.883 35 H 0.110 0.890 36 H 0.141 0.859 37 H 0.186 0.814 38 H 0.258 0.742 Dipole moment (debyes) X Y Z Total from point charges 27.834 -26.681 3.495 38.715 hybrid contribution -2.826 0.122 0.498 2.872 sum 25.008 -26.559 3.993 36.698 Atomic orbital electron populations 1.70024 1.07342 1.29130 1.49056 1.25617 0.95359 1.02396 0.92714 0.85816 0.80533 0.79234 0.80457 1.18197 1.18007 1.16306 1.22458 0.90288 0.96672 1.58532 0.92473 1.84536 1.06406 1.05706 1.97547 1.23213 0.96502 0.99730 1.06499 1.19806 0.89182 0.83490 0.75304 1.90649 1.59147 1.43743 1.51123 1.45654 1.08713 1.06535 1.74234 1.21721 0.80381 0.96488 1.02278 1.23379 0.97990 0.90966 0.85831 0.85348 1.23460 0.92241 0.97589 1.02584 1.23501 0.83140 0.96276 1.00283 1.49845 1.29776 1.40385 1.18455 1.16520 0.80196 0.81947 0.81399 1.90897 1.35656 1.37274 1.79927 1.25721 1.06603 1.08779 1.02482 1.22205 0.99476 0.96471 0.87663 1.66317 1.18010 1.07448 1.30694 1.29670 0.93933 1.01711 1.01506 1.83425 1.25830 1.25232 1.14344 0.91247 0.88521 0.87188 0.75457 0.89166 0.93513 0.84535 0.88340 0.88976 0.85850 0.81439 0.74181 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 -58.32 13.97 21.65 0.30 -58.02 16 2 C 0.04 2.74 5.50 84.86 0.47 3.21 16 3 Si 0.92 47.12 27.73 68.60 1.90 49.03 16 4 H -0.26 -12.72 7.11 99.48 0.71 -12.01 16 5 H -0.26 -12.21 7.11 99.48 0.71 -11.50 16 6 H -0.24 -12.35 6.74 99.48 0.67 -11.68 16 7 C -0.53 -33.19 10.04 67.95 0.68 -32.51 16 8 H 0.06 3.79 8.03 -2.91 -0.02 3.76 16 9 S -0.17 -9.28 18.55 -56.49 -1.05 -10.33 16 10 C -0.11 -4.82 6.16 71.24 0.44 -4.38 16 11 C 0.54 21.65 7.85 87.66 0.69 22.33 16 12 O -0.57 -26.71 15.86 -3.02 -0.05 -26.76 16 13 N -0.70 -20.72 4.17 -463.07 -1.93 -22.65 16 14 C 0.12 2.52 5.35 86.38 0.46 2.98 16 15 C 0.12 1.37 4.07 41.80 0.17 1.54 16 16 H 0.13 0.94 8.14 -2.39 -0.02 0.92 16 17 C -0.12 -0.36 8.03 30.93 0.25 -0.11 16 18 C 0.09 0.32 7.28 83.19 0.61 0.93 16 19 N -0.65 -9.34 3.57 -838.35 -2.99 -12.33 16 20 C 0.61 14.07 7.94 86.45 0.69 14.75 16 21 O -0.56 -18.16 14.75 -4.32 -0.06 -18.22 16 22 C -0.31 -5.97 6.48 23.88 0.15 -5.81 16 23 C 0.10 2.26 11.09 84.23 0.93 3.19 16 24 N -0.51 -9.99 10.51 -202.56 -2.13 -12.12 16 25 C 0.02 0.25 12.22 130.60 1.60 1.85 16 26 S 0.26 2.03 20.14 -56.49 -1.14 0.89 16 27 H 0.28 16.23 8.31 -92.71 -0.77 15.46 16 28 H 0.10 4.32 8.14 -2.40 -0.02 4.31 16 29 H 0.11 4.48 8.14 -2.39 -0.02 4.46 16 30 H 0.41 11.17 7.35 -92.70 -0.68 10.49 16 31 H 0.09 1.82 8.14 -2.39 -0.02 1.80 16 32 H 0.05 1.25 8.14 -2.38 -0.02 1.24 16 33 H 0.14 -0.46 8.14 -2.39 -0.02 -0.48 16 34 H 0.10 0.46 8.12 -2.39 -0.02 0.44 16 35 H 0.09 0.16 6.44 -2.39 -0.02 0.15 16 36 H 0.12 -0.17 8.14 -2.39 -0.02 -0.19 16 37 H 0.17 4.26 8.06 -2.91 -0.02 4.24 16 38 H 0.24 0.30 8.06 -2.91 -0.02 0.27 16 Total: -1.00 -91.26 353.57 0.38 -90.88 By element: Atomic # 1 Polarization: 11.27 SS G_CDS: 0.39 Total: 11.66 kcal Atomic # 6 Polarization: 0.84 SS G_CDS: 7.13 Total: 7.97 kcal Atomic # 7 Polarization: -98.37 SS G_CDS: -6.75 Total: -105.12 kcal Atomic # 8 Polarization: -44.87 SS G_CDS: -0.11 Total: -44.98 kcal Atomic # 14 Polarization: 47.12 SS G_CDS: 1.90 Total: 49.03 kcal Atomic # 16 Polarization: -7.25 SS G_CDS: -2.19 Total: -9.43 kcal Total: -91.26 0.38 -90.88 kcal The number of atoms in the molecule is 38 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. ZINC001358586551.mol2 38 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 84.757 kcal (2) G-P(sol) polarization free energy of solvation -91.263 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -6.506 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.385 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -90.878 kcal (6) G-S(sol) free energy of system = (1) + (5) -6.121 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.47 seconds