Wall clock time and date at job start Tue Mar 31 2020 01:14:10 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 N 1.46502 * 109.47383 * 2 1 4 4 C 1.46498 * 119.99878 * 275.85698 * 3 2 1 5 5 C 1.50702 * 109.47043 * 274.99479 * 4 3 2 6 6 H 1.08001 * 119.99786 * 0.02562 * 5 4 3 7 7 C 1.37878 * 120.00153 * 179.97438 * 5 4 3 8 8 N 1.31515 * 119.99737 * 0.02562 * 7 5 4 9 9 Si 1.86800 * 119.99926 * 179.97438 * 7 5 4 10 10 H 1.48497 * 109.47037 * 0.02562 * 9 7 5 11 11 H 1.48499 * 109.46563 * 120.00319 * 9 7 5 12 12 H 1.48497 * 109.47104 * 240.00136 * 9 7 5 13 13 S 1.65603 * 119.99947 * 95.85188 * 3 2 1 14 14 O 1.42100 * 106.40293 * 337.18534 * 13 3 2 15 15 O 1.42102 * 106.40205 * 204.26605 * 13 3 2 16 16 N 1.65600 * 107.21742 * 90.72689 * 13 3 2 17 17 C 1.46498 * 120.00071 * 68.29813 * 16 13 3 18 18 H 1.09001 * 111.02112 * 334.13698 * 17 16 13 19 19 C 1.55569 * 111.22319 * 209.83381 * 17 16 13 20 20 C 1.54384 * 102.27285 * 207.98653 * 19 17 16 21 21 O 1.43233 * 107.58973 * 21.35258 * 20 19 17 22 22 C 1.43645 * 109.97157 * 1.71502 * 21 20 19 23 23 H 1.08997 * 109.47256 * 185.02213 * 1 2 3 24 24 H 1.08997 * 109.47397 * 305.02411 * 1 2 3 25 25 H 1.08997 * 109.46525 * 65.02002 * 1 2 3 26 26 H 1.08999 * 109.47625 * 239.99664 * 2 1 3 27 27 H 1.09007 * 109.47312 * 119.99509 * 2 1 3 28 28 H 1.08997 * 109.47364 * 34.99796 * 4 3 2 29 29 H 1.09000 * 109.46904 * 155.00014 * 4 3 2 30 30 H 0.96999 * 119.99514 * 180.02562 * 8 7 5 31 31 H 0.97002 * 119.99530 * 248.30290 * 16 13 3 32 32 H 1.08994 * 110.83905 * 89.78704 * 19 17 16 33 33 H 1.09003 * 110.83526 * 326.18009 * 19 17 16 34 34 H 1.08998 * 109.82695 * 261.84333 * 20 19 17 35 35 H 1.09005 * 109.90662 * 140.91485 * 20 19 17 36 36 H 1.09001 * 110.30897 * 94.48495 * 22 21 20 37 37 H 1.09001 * 110.31147 * 216.55459 * 22 21 20 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 7 2.0184 1.3812 0.0000 4 6 2.1405 2.1149 -1.2621 5 6 3.4683 1.7982 -1.9008 6 1 4.1524 1.1180 -1.4154 7 6 3.8091 2.3759 -3.1054 8 7 2.9757 3.2038 -3.6968 9 14 5.4552 1.9838 -3.8968 10 1 6.2037 1.0324 -3.0367 11 1 5.2296 1.3723 -5.2311 12 1 6.2403 3.2347 -4.0519 13 16 2.4323 2.1131 1.4267 14 8 1.7345 1.4185 2.4513 15 8 2.3062 3.5120 1.2114 16 7 4.0431 1.8219 1.6777 17 6 5.0438 2.4379 0.8030 18 1 4.6226 2.6597 -0.1776 19 6 6.3109 1.5437 0.6799 20 6 7.4190 2.5816 0.3997 21 8 6.9484 3.8528 0.8624 22 6 5.6466 3.7089 1.4523 23 1 -0.3633 -1.0237 0.0900 24 1 -0.3634 0.5898 0.8415 25 1 -0.3632 0.4340 -0.9315 26 1 1.8934 -0.5139 -0.8899 27 1 1.8934 -0.5138 0.8901 28 1 1.3345 1.8194 -1.9337 29 1 2.0772 3.1856 -1.0675 30 1 3.2154 3.6099 -4.5445 31 1 4.3239 1.2434 2.4040 32 1 6.2138 0.8459 -0.1518 33 1 6.5032 1.0132 1.6125 34 1 7.6193 2.6287 -0.6706 35 1 8.3285 2.3070 0.9343 36 1 5.7324 3.5783 2.5311 37 1 5.0300 4.5786 1.2251 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) 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 ZINC000336885733.mol2 37 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 01:14:10 Heat of formation + Delta-G solvation = -151.287066 kcal Electronic energy + Delta-G solvation = -21694.277629 eV Core-core repulsion = 18404.283934 eV Total energy + Delta-G solvation = -3289.993695 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 278.113 amu Computer time = 0.52 seconds Orbital eigenvalues (eV) -40.38538 -38.30673 -37.68491 -36.89105 -35.86253 -34.67617 -31.53747 -31.49980 -29.28450 -28.47653 -24.93659 -23.45176 -23.27118 -22.55548 -20.50098 -18.90625 -18.58702 -18.24017 -17.76059 -17.23524 -16.92758 -16.30952 -15.98551 -15.54821 -14.86749 -14.79934 -14.63939 -14.46456 -14.01087 -13.78655 -13.60068 -13.31569 -13.18774 -13.14815 -13.03776 -12.75899 -12.67967 -12.62396 -12.43007 -12.23706 -12.07000 -11.79787 -11.63366 -11.53709 -10.66265 -10.56070 -10.33723 -9.78595 -8.16086 -6.28653 -0.30408 1.43321 1.45832 1.55188 1.95201 2.42811 2.58784 2.97784 3.15534 3.42884 3.51386 3.94676 3.99100 4.08008 4.24296 4.31063 4.38077 4.45672 4.56670 4.72367 4.76733 4.85200 4.88918 5.00592 5.07031 5.16955 5.27510 5.32661 5.43005 5.55389 5.77913 5.90213 5.98767 6.11379 6.22918 6.83667 7.40711 8.92056 Molecular weight = 278.11amu Principal moments of inertia in cm(-1) A = 0.013402 B = 0.010766 C = 0.006986 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2088.783710 B = 2600.213401 C = 4006.950606 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.168 4.168 2 C 0.121 3.879 3 N -0.995 5.995 4 C 0.257 3.743 5 C -0.538 4.538 6 H 0.083 0.917 7 C 0.015 3.985 8 N -0.926 5.926 9 Si 0.944 3.056 10 H -0.243 1.243 11 H -0.285 1.285 12 H -0.287 1.287 13 S 2.798 3.202 14 O -1.002 7.002 15 O -1.014 7.014 16 N -1.097 6.097 17 C 0.102 3.898 18 H 0.112 0.888 19 C -0.148 4.148 20 C 0.044 3.956 21 O -0.401 6.401 22 C 0.035 3.965 23 H 0.091 0.909 24 H 0.044 0.956 25 H 0.047 0.953 26 H 0.082 0.918 27 H 0.088 0.912 28 H 0.021 0.979 29 H 0.017 0.983 30 H 0.264 0.736 31 H 0.425 0.575 32 H 0.091 0.909 33 H 0.109 0.891 34 H 0.064 0.936 35 H 0.098 0.902 36 H 0.083 0.917 37 H 0.073 0.927 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 5.475 -7.863 8.905 13.080 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 -0.227 4.227 2 C -0.004 4.004 3 N -0.836 5.836 4 C 0.133 3.867 5 C -0.577 4.577 6 H 0.101 0.899 7 C -0.185 4.185 8 N -0.566 5.566 9 Si 0.769 3.231 10 H -0.166 1.166 11 H -0.211 1.211 12 H -0.213 1.213 13 S 2.806 3.194 14 O -0.986 6.986 15 O -0.998 6.998 16 N -0.858 5.858 17 C -0.007 4.007 18 H 0.130 0.870 19 C -0.187 4.187 20 C -0.032 4.032 21 O -0.321 6.321 22 C -0.043 4.043 23 H 0.109 0.891 24 H 0.063 0.937 25 H 0.066 0.934 26 H 0.101 0.899 27 H 0.106 0.894 28 H 0.039 0.961 29 H 0.035 0.965 30 H 0.073 0.927 31 H 0.261 0.739 32 H 0.109 0.891 33 H 0.128 0.872 34 H 0.082 0.918 35 H 0.116 0.884 36 H 0.101 0.899 37 H 0.091 0.909 Dipole moment (debyes) X Y Z Total from point charges 4.915 -6.955 9.165 12.511 hybrid contribution 0.633 -0.268 -0.870 1.108 sum 5.547 -7.224 8.295 12.319 Atomic orbital electron populations 1.22192 0.96107 1.03148 1.01255 1.21267 0.94518 0.81185 1.03447 1.57623 1.79064 1.24041 1.22922 1.18782 0.96876 0.90708 0.80340 1.21880 1.02863 1.27283 1.05644 0.89938 1.25768 1.00309 0.94675 0.97723 1.70071 1.37844 1.30818 1.17830 0.85702 0.80167 0.78394 0.78808 1.16612 1.21128 1.21312 1.01230 0.73140 0.72790 0.72273 1.93540 1.72165 1.75523 1.57413 1.93545 1.86393 1.33578 1.86285 1.55491 1.24029 1.63436 1.42888 1.22863 0.90398 0.92545 0.94852 0.87006 1.23379 0.92149 0.98232 1.04980 1.23273 0.97695 0.82272 1.00007 1.88373 1.33113 1.31170 1.79406 1.23864 0.83530 0.98690 0.98211 0.89063 0.93717 0.93376 0.89936 0.89366 0.96131 0.96514 0.92694 0.73870 0.89082 0.87222 0.91788 0.88435 0.89932 0.90902 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 17. 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 -0.17 -4.94 10.23 71.98 0.74 -4.20 16 2 C 0.12 3.82 6.08 86.38 0.53 4.34 16 3 N -1.00 -38.64 2.83 -519.83 -1.47 -40.10 16 4 C 0.26 12.35 5.36 85.63 0.46 12.81 16 5 C -0.54 -26.02 7.00 25.60 0.18 -25.84 16 6 H 0.08 3.65 7.18 -2.91 -0.02 3.63 16 7 C 0.02 0.79 5.46 84.65 0.46 1.25 16 8 N -0.93 -52.27 13.29 21.45 0.28 -51.98 16 9 Si 0.94 39.80 29.54 68.60 2.03 41.82 16 10 H -0.24 -9.09 7.11 99.48 0.71 -8.38 16 11 H -0.29 -12.07 7.11 99.48 0.71 -11.36 16 12 H -0.29 -12.37 7.11 99.48 0.71 -11.66 16 13 S 2.80 104.74 6.08 -56.49 -0.34 104.39 16 14 O -1.00 -37.72 17.07 -128.00 -2.18 -39.90 16 15 O -1.01 -46.46 16.40 -128.00 -2.10 -48.56 16 16 N -1.10 -32.19 5.72 -162.98 -0.93 -33.12 16 17 C 0.10 3.29 3.33 46.54 0.16 3.44 16 18 H 0.11 4.53 4.85 -2.39 -0.01 4.52 16 19 C -0.15 -3.67 6.71 31.95 0.21 -3.46 16 20 C 0.04 1.15 7.80 72.45 0.56 1.71 16 21 O -0.40 -13.17 11.36 -148.98 -1.69 -14.86 16 22 C 0.04 1.14 7.47 72.65 0.54 1.68 16 23 H 0.09 2.06 8.14 -2.39 -0.02 2.04 16 24 H 0.04 1.39 8.14 -2.39 -0.02 1.37 16 25 H 0.05 1.51 8.14 -2.39 -0.02 1.49 16 26 H 0.08 2.56 8.11 -2.39 -0.02 2.54 16 27 H 0.09 2.34 7.56 -2.38 -0.02 2.33 16 28 H 0.02 1.06 8.11 -2.39 -0.02 1.04 16 29 H 0.02 0.92 6.92 -2.39 -0.02 0.91 16 30 H 0.26 14.21 8.31 -92.71 -0.77 13.44 16 31 H 0.42 9.20 8.76 -96.75 -0.85 8.35 16 32 H 0.09 2.29 8.14 -2.39 -0.02 2.27 16 33 H 0.11 1.97 8.03 -2.39 -0.02 1.95 16 34 H 0.06 1.74 8.14 -2.39 -0.02 1.72 16 35 H 0.10 1.92 8.14 -2.38 -0.02 1.90 16 36 H 0.08 2.21 8.14 -2.39 -0.02 2.19 16 37 H 0.07 2.64 8.14 -2.39 -0.02 2.62 16 Total: -1.00 -65.32 315.99 -2.35 -67.67 By element: Atomic # 1 Polarization: 22.68 SS G_CDS: 0.22 Total: 22.90 kcal Atomic # 6 Polarization: -12.09 SS G_CDS: 3.84 Total: -8.25 kcal Atomic # 7 Polarization: -123.09 SS G_CDS: -2.12 Total: -125.21 kcal Atomic # 8 Polarization: -97.35 SS G_CDS: -5.97 Total: -103.33 kcal Atomic # 14 Polarization: 39.80 SS G_CDS: 2.03 Total: 41.82 kcal Atomic # 16 Polarization: 104.74 SS G_CDS: -0.34 Total: 104.39 kcal Total: -65.32 -2.35 -67.67 kcal The number of atoms in the molecule is 37 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. ZINC000336885733.mol2 37 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 -83.620 kcal (2) G-P(sol) polarization free energy of solvation -65.320 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -148.939 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.348 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.668 kcal (6) G-S(sol) free energy of system = (1) + (5) -151.287 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.52 seconds