Wall clock time and date at job start Tue Mar 31 2020 08:19:14 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 1.31516 * 1 3 3 Si 1.86796 * 120.00130 * 2 1 4 4 H 1.48505 * 109.46848 * 269.99528 * 3 2 1 5 5 H 1.48499 * 109.47401 * 29.99299 * 3 2 1 6 6 H 1.48500 * 109.47363 * 149.99871 * 3 2 1 7 7 C 1.37878 * 119.99998 * 179.97438 * 2 1 3 8 8 H 1.07998 * 120.00361 * 173.68817 * 7 2 1 9 9 C 1.50710 * 119.99886 * 353.69455 * 7 2 1 10 10 C 1.53003 * 115.54740 * 85.64665 * 9 7 2 11 11 S 1.81394 * 109.47206 * 65.33331 * 10 9 7 12 12 C 1.81396 * 103.00152 * 179.97438 * 11 10 9 13 13 C 1.50695 * 109.47348 * 179.97438 * 12 11 10 14 14 C 1.38265 * 119.98136 * 270.02622 * 13 12 11 15 15 C 1.38294 * 120.04223 * 180.02562 * 14 13 12 16 16 C 1.37972 * 119.91970 * 359.97438 * 15 14 13 17 17 C 1.38593 * 120.03767 * 359.97438 * 16 15 14 18 18 C 1.37972 * 120.04333 * 0.02562 * 17 16 15 19 19 C 1.51084 * 107.27506 * 180.27076 * 17 16 15 20 20 O 1.44113 * 105.86308 * 341.92705 * 19 17 16 21 21 C 1.43948 * 104.85729 * 28.79587 * 20 19 17 22 22 C 1.52998 * 117.49669 * 231.31971 * 9 7 2 23 23 C 1.53002 * 117.49543 * 299.97555 * 9 7 2 24 24 H 0.96997 * 119.99810 * 355.02091 * 1 2 3 25 25 H 1.08994 * 109.47095 * 305.33053 * 10 9 7 26 26 H 1.09004 * 109.46411 * 185.32959 * 10 9 7 27 27 H 1.09004 * 109.46984 * 59.99775 * 12 11 10 28 28 H 1.08998 * 109.47391 * 299.99985 * 12 11 10 29 29 H 1.07998 * 119.98064 * 359.97438 * 14 13 12 30 30 H 1.07999 * 120.04524 * 179.97438 * 15 14 13 31 31 H 1.08001 * 120.04254 * 179.97438 * 18 17 16 32 32 H 1.09003 * 110.15439 * 101.14047 * 19 17 16 33 33 H 1.08996 * 110.15506 * 222.89472 * 19 17 16 34 34 H 1.09003 * 110.15390 * 212.21625 * 21 20 19 35 35 H 1.09001 * 110.21413 * 90.49850 * 21 20 19 36 36 H 1.08994 * 117.49583 * 215.00452 * 22 9 7 37 37 H 1.09005 * 117.49927 * 0.02562 * 22 9 7 38 38 H 1.08995 * 117.49939 * 359.97438 * 23 9 7 39 39 H 1.08999 * 117.49445 * 144.97365 * 23 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 1.3152 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 2.4968 2.0463 -1.4001 5 1 1.4466 2.6527 0.6999 6 1 3.5467 1.4401 0.7001 7 6 2.0046 -1.1941 0.0005 8 1 3.0796 -1.1970 -0.1023 9 6 1.2578 -2.4952 0.1445 10 6 0.7095 -3.0885 -1.1549 11 16 2.0892 -3.5561 -2.2357 12 6 1.2525 -4.2279 -3.6982 13 6 2.2811 -4.6677 -4.7078 14 6 2.7369 -3.7775 -5.6625 15 6 3.6806 -4.1800 -6.5899 16 6 4.1670 -5.4708 -6.5611 17 6 3.7109 -6.3628 -5.6034 18 6 2.7695 -5.9613 -4.6781 19 6 4.4303 -7.6717 -5.8307 20 8 4.9540 -7.6057 -7.1717 21 6 5.1770 -6.2041 -7.4123 22 6 1.7409 -3.4718 1.2186 23 6 0.4342 -2.6999 1.4175 24 1 -0.4850 0.8369 0.0729 25 1 0.0881 -2.3481 -1.6586 26 1 0.1111 -3.9708 -0.9272 27 1 0.6173 -3.4592 -4.1385 28 1 0.6407 -5.0817 -3.4067 29 1 2.3552 -2.7675 -5.6845 30 1 4.0363 -3.4848 -7.3360 31 1 2.4138 -6.6565 -3.9321 32 1 5.2430 -7.7832 -5.1129 33 1 3.7326 -8.5043 -5.7412 34 1 5.0180 -5.9740 -8.4658 35 1 6.1889 -5.9275 -7.1165 36 1 1.6681 -4.5371 0.9995 37 1 2.5985 -3.1731 1.8214 38 1 0.4327 -1.8937 2.1511 39 1 -0.4986 -3.2569 1.3293 RHF calculation, no. of doubly occupied orbitals= 51 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 ZINC000853770409.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 08:19:14 Heat of formation + Delta-G solvation = -8.965570 kcal Electronic energy + Delta-G solvation = -19695.030036 eV Core-core repulsion = 16693.830987 eV Total energy + Delta-G solvation = -3001.199049 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 290.108 amu Computer time = 0.70 seconds Orbital eigenvalues (eV) -41.61401 -38.64103 -38.40036 -33.99197 -33.77909 -32.48867 -29.79730 -29.32027 -27.92791 -27.30291 -24.99533 -22.92803 -22.69112 -21.92462 -21.03698 -18.21042 -17.60273 -17.36601 -17.12131 -16.76514 -16.61242 -16.24708 -15.72013 -15.27838 -15.13754 -14.97941 -14.71603 -14.21039 -13.99852 -13.67948 -13.55327 -13.40116 -13.35255 -12.99690 -12.83129 -12.75804 -12.42001 -12.29744 -12.02514 -11.85551 -11.51657 -11.17128 -10.88842 -10.70402 -10.45725 -9.86432 -9.82479 -9.38659 -8.40425 -8.11012 -6.20752 -0.02751 0.32891 1.10259 1.40195 1.42571 1.51678 1.93379 2.43956 2.72393 2.95608 3.16518 3.18048 3.54208 3.62587 3.73631 3.94889 4.10159 4.20472 4.35389 4.42179 4.42780 4.45741 4.51076 4.56690 4.60394 4.61120 4.69426 4.76575 4.89408 4.94830 5.00181 5.05780 5.23169 5.28155 5.30246 5.54058 5.59476 5.62713 5.69118 5.78045 5.91122 6.39297 6.83155 7.47180 8.97172 Molecular weight = 290.11amu Principal moments of inertia in cm(-1) A = 0.023315 B = 0.003511 C = 0.003250 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1200.640980 B = 7972.545071 C = 8613.819766 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.905 5.905 2 C 0.031 3.969 3 Si 0.941 3.059 4 H -0.278 1.278 5 H -0.282 1.282 6 H -0.272 1.272 7 C -0.496 4.496 8 H 0.045 0.955 9 C 0.029 3.971 10 C -0.019 4.019 11 S -0.266 6.266 12 C -0.048 4.048 13 C -0.069 4.069 14 C -0.109 4.109 15 C -0.094 4.094 16 C -0.143 4.143 17 C -0.145 4.145 18 C -0.084 4.084 19 C 0.092 3.908 20 O -0.379 6.379 21 C 0.091 3.909 22 C -0.183 4.183 23 C -0.151 4.151 24 H 0.259 0.741 25 H 0.055 0.945 26 H 0.065 0.935 27 H 0.086 0.914 28 H 0.098 0.902 29 H 0.133 0.867 30 H 0.150 0.850 31 H 0.137 0.863 32 H 0.089 0.911 33 H 0.111 0.889 34 H 0.114 0.886 35 H 0.090 0.910 36 H 0.091 0.909 37 H 0.075 0.925 38 H 0.062 0.938 39 H 0.078 0.922 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 5.425 -12.459 -13.125 18.892 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 -0.543 5.543 2 C -0.170 4.170 3 Si 0.768 3.232 4 H -0.204 1.204 5 H -0.207 1.207 6 H -0.197 1.197 7 C -0.534 4.534 8 H 0.063 0.937 9 C 0.027 3.973 10 C -0.167 4.167 11 S -0.035 6.035 12 C -0.195 4.195 13 C -0.070 4.070 14 C -0.129 4.129 15 C -0.112 4.112 16 C -0.144 4.144 17 C -0.145 4.145 18 C -0.104 4.104 19 C 0.016 3.984 20 O -0.298 6.298 21 C 0.016 3.984 22 C -0.221 4.221 23 C -0.191 4.191 24 H 0.069 0.931 25 H 0.074 0.926 26 H 0.083 0.917 27 H 0.105 0.895 28 H 0.116 0.884 29 H 0.150 0.850 30 H 0.168 0.832 31 H 0.155 0.845 32 H 0.107 0.893 33 H 0.129 0.871 34 H 0.132 0.868 35 H 0.108 0.892 36 H 0.109 0.891 37 H 0.094 0.906 38 H 0.080 0.920 39 H 0.096 0.904 Dipole moment (debyes) X Y Z Total from point charges 6.370 -12.400 -13.128 19.149 hybrid contribution -1.316 1.399 0.351 1.952 sum 5.054 -11.001 -12.776 17.601 Atomic orbital electron populations 1.70090 1.06780 1.27316 1.50143 1.25537 0.95495 1.01477 0.94463 0.85822 0.78967 0.80315 0.78135 1.20385 1.20749 1.19717 1.20555 0.92382 0.90233 1.50193 0.93653 1.18542 0.99120 0.93994 0.85617 1.22827 0.95806 1.00110 0.97983 1.87122 1.18374 1.80532 1.17500 1.22274 0.98692 1.03557 0.94960 1.19269 0.98058 0.94154 0.95523 1.21245 0.97341 0.99677 0.94641 1.20585 0.96379 0.94850 0.99348 1.21352 0.99079 0.95247 0.98731 1.21211 0.98244 0.98048 0.97023 1.20366 0.96138 0.95567 0.98304 1.21884 0.97356 0.94689 0.84444 1.89080 1.85146 1.24125 1.31437 1.21884 0.96737 0.79395 1.00420 1.22995 0.97394 0.96611 1.05070 1.22507 0.93498 1.01119 1.01936 0.93150 0.92650 0.91681 0.89499 0.88400 0.84957 0.83209 0.84538 0.89299 0.87063 0.86790 0.89206 0.89056 0.90650 0.91960 0.90370 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 14. 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 -50.75 12.90 21.45 0.28 -50.47 16 2 C 0.03 1.66 5.39 84.65 0.46 2.12 16 3 Si 0.94 43.54 29.55 68.60 2.03 45.57 16 4 H -0.28 -12.70 7.11 99.48 0.71 -11.99 16 5 H -0.28 -12.72 7.11 99.48 0.71 -12.02 16 6 H -0.27 -12.43 7.11 99.48 0.71 -11.72 16 7 C -0.50 -27.03 8.49 25.60 0.22 -26.81 16 8 H 0.05 2.56 7.82 -2.91 -0.02 2.54 16 9 C 0.03 1.39 1.34 -52.92 -0.07 1.32 16 10 C -0.02 -0.83 5.80 71.98 0.42 -0.41 16 11 S -0.27 -10.39 21.41 -56.49 -1.21 -11.60 16 12 C -0.05 -1.40 6.07 71.23 0.43 -0.97 16 13 C -0.07 -1.85 5.14 -19.85 -0.10 -1.96 16 14 C -0.11 -2.76 9.70 22.29 0.22 -2.55 16 15 C -0.09 -2.01 10.04 22.22 0.22 -1.79 16 16 C -0.14 -3.05 6.32 -19.72 -0.12 -3.18 16 17 C -0.14 -3.25 6.32 -19.72 -0.12 -3.38 16 18 C -0.08 -2.04 9.70 22.22 0.22 -1.83 16 19 C 0.09 1.68 7.63 71.36 0.54 2.23 16 20 O -0.38 -7.78 11.73 -148.98 -1.75 -9.53 16 21 C 0.09 1.56 7.63 71.36 0.54 2.11 16 22 C -0.18 -7.80 9.96 30.62 0.30 -7.49 16 23 C -0.15 -6.90 9.40 30.62 0.29 -6.61 16 24 H 0.26 13.96 8.32 -92.71 -0.77 13.19 16 25 H 0.05 2.68 8.14 -2.39 -0.02 2.66 16 26 H 0.06 2.53 8.09 -2.39 -0.02 2.51 16 27 H 0.09 2.53 8.08 -2.39 -0.02 2.51 16 28 H 0.10 2.54 8.09 -2.39 -0.02 2.52 16 29 H 0.13 3.23 8.06 -2.91 -0.02 3.20 16 30 H 0.15 2.36 8.06 -2.91 -0.02 2.34 16 31 H 0.14 2.92 8.06 -2.91 -0.02 2.90 16 32 H 0.09 1.42 8.14 -2.39 -0.02 1.40 16 33 H 0.11 1.66 8.14 -2.39 -0.02 1.64 16 34 H 0.11 1.50 8.14 -2.39 -0.02 1.48 16 35 H 0.09 1.30 8.14 -2.39 -0.02 1.28 16 36 H 0.09 3.43 8.14 -2.39 -0.02 3.41 16 37 H 0.07 3.23 8.14 -2.38 -0.02 3.21 16 38 H 0.06 3.08 8.14 -2.39 -0.02 3.06 16 39 H 0.08 3.28 8.14 -2.39 -0.02 3.26 16 Total: -1.00 -61.66 343.70 3.81 -57.85 By element: Atomic # 1 Polarization: 16.35 SS G_CDS: 1.02 Total: 17.37 kcal Atomic # 6 Polarization: -52.63 SS G_CDS: 3.44 Total: -49.19 kcal Atomic # 7 Polarization: -50.75 SS G_CDS: 0.28 Total: -50.47 kcal Atomic # 8 Polarization: -7.78 SS G_CDS: -1.75 Total: -9.53 kcal Atomic # 14 Polarization: 43.54 SS G_CDS: 2.03 Total: 45.57 kcal Atomic # 16 Polarization: -10.39 SS G_CDS: -1.21 Total: -11.60 kcal Total: -61.66 3.81 -57.85 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. ZINC000853770409.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 48.887 kcal (2) G-P(sol) polarization free energy of solvation -61.659 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -12.772 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.806 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -57.853 kcal (6) G-S(sol) free energy of system = (1) + (5) -8.966 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.70 seconds