Wall clock time and date at job start Tue Mar 31 2020 05:57:21 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 1.31623 * 1 3 3 Si 1.86796 * 120.00307 * 2 1 4 4 H 1.48499 * 109.47282 * 239.99621 * 3 2 1 5 5 H 1.48497 * 109.47200 * 0.02562 * 3 2 1 6 6 H 1.48503 * 109.47280 * 119.99995 * 3 2 1 7 7 C 1.38806 * 119.99640 * 179.97438 * 2 1 3 8 8 H 1.08005 * 119.99918 * 180.02562 * 7 2 1 9 9 S 1.76193 * 120.00056 * 359.97438 * 7 2 1 10 10 C 1.81002 * 100.00049 * 180.02562 * 9 7 2 11 11 C 1.50701 * 109.47156 * 180.02562 * 10 9 7 12 12 O 1.20826 * 119.99939 * 0.02562 * 11 10 9 13 13 O 1.34230 * 120.00046 * 179.97438 * 11 10 9 14 14 C 1.45192 * 117.00018 * 180.02562 * 13 11 10 15 15 H 1.09000 * 109.47511 * 330.00359 * 14 13 11 16 16 C 1.53003 * 109.47147 * 90.00298 * 14 13 11 17 17 C 1.52999 * 109.47214 * 179.97438 * 16 14 13 18 18 C 1.53002 * 109.47403 * 300.00074 * 17 16 14 19 19 C 1.53003 * 109.46996 * 59.99792 * 18 17 16 20 20 H 1.09003 * 109.46963 * 59.99950 * 19 18 17 21 21 C 1.50699 * 109.47061 * 180.02562 * 19 18 17 22 22 O 1.20828 * 119.99743 * 119.99891 * 21 19 18 23 23 O 1.34225 * 119.99929 * 300.00195 * 21 19 18 24 24 C 1.52999 * 109.47214 * 300.00324 * 19 18 17 25 25 H 0.97010 * 119.99946 * 0.02562 * 1 2 3 26 26 H 1.09002 * 109.47115 * 60.00094 * 10 9 7 27 27 H 1.09001 * 109.46925 * 300.00251 * 10 9 7 28 28 H 1.08998 * 109.47227 * 299.99679 * 16 14 13 29 29 H 1.09003 * 109.46963 * 60.00194 * 16 14 13 30 30 H 1.08997 * 109.47398 * 179.97438 * 17 16 14 31 31 H 1.09000 * 109.47331 * 60.00130 * 17 16 14 32 32 H 1.09000 * 109.46922 * 300.00306 * 18 17 16 33 33 H 1.08998 * 109.47261 * 180.02562 * 18 17 16 34 34 H 0.96703 * 117.00277 * 179.97438 * 23 21 19 35 35 H 1.09000 * 109.47331 * 299.99870 * 24 19 18 36 36 H 1.09001 * 109.47042 * 180.02562 * 24 19 18 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 1.3162 0.0000 0.0000 3 14 2.2503 1.6177 0.0000 4 1 3.1041 1.6963 -1.2124 5 1 1.2854 2.7464 0.0006 6 1 3.1041 1.6963 1.2125 7 6 2.0102 -1.2021 0.0005 8 1 3.0902 -1.2022 0.0010 9 16 1.1291 -2.7280 0.0019 10 6 2.5156 -3.8915 0.0029 11 6 1.9871 -5.3028 0.0036 12 8 0.7953 -5.5015 0.0029 13 8 2.8403 -6.3390 0.0039 14 6 2.2606 -7.6702 0.0039 15 1 1.2994 -7.6480 0.5174 16 6 2.0573 -8.1380 -1.4386 17 6 1.4470 -9.5410 -1.4386 18 6 2.3890 -10.5070 -0.7172 19 6 2.5923 -10.0392 0.7253 20 1 1.6311 -10.0173 1.2390 21 6 3.5206 -10.9903 1.4358 22 8 4.5630 -10.5871 1.8949 23 8 3.1895 -12.2853 1.5584 24 6 3.2026 -8.6362 0.7253 25 1 -0.4850 0.8401 -0.0004 26 1 3.1242 -3.7307 0.8928 27 1 3.1243 -3.7322 -0.8872 28 1 1.3865 -7.4497 -1.9527 29 1 3.0185 -8.1603 -1.9522 30 1 1.3018 -9.8741 -2.4662 31 1 0.4859 -9.5192 -0.9249 32 1 3.3502 -10.5288 -1.2309 33 1 1.9545 -11.5066 -0.7176 34 1 3.8169 -12.8569 2.0217 35 1 4.1637 -8.6580 0.2117 36 1 3.3478 -8.3031 1.7530 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 ZINC001601076554.mol2 36 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 05:57:21 Heat of formation + Delta-G solvation = -223.979774 kcal Electronic energy + Delta-G solvation = -20258.275367 eV Core-core repulsion = 16831.922067 eV Total energy + Delta-G solvation = -3426.353301 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 288.091 amu Computer time = 0.34 seconds Orbital eigenvalues (eV) -41.91616 -41.31003 -39.00066 -37.18789 -37.01560 -34.61442 -32.36295 -31.96269 -30.55177 -27.70797 -25.66614 -24.07828 -22.64978 -21.82696 -20.95975 -19.87242 -19.12224 -18.73972 -17.87099 -17.32361 -16.95325 -16.89399 -16.73543 -16.05736 -15.84302 -15.25389 -14.82752 -14.56785 -14.51590 -14.31729 -14.03654 -13.60445 -13.54417 -13.19226 -12.87918 -12.68975 -12.65864 -12.55988 -12.29338 -12.11261 -11.94622 -11.80084 -11.77319 -11.50089 -11.42837 -11.15040 -11.06796 -10.39206 -8.73744 -8.37666 -6.17327 0.99820 1.12380 1.15997 1.40351 1.44601 1.53412 1.78184 2.15703 2.24042 2.97265 3.24514 3.48492 3.54511 3.65003 3.82496 3.94843 3.97898 4.16787 4.19300 4.28806 4.32696 4.43496 4.52350 4.54097 4.82979 4.87092 4.96740 5.04583 5.16177 5.18220 5.27195 5.40553 5.44349 5.60202 6.17619 6.69681 6.97301 7.03967 8.71326 Molecular weight = 288.09amu Principal moments of inertia in cm(-1) A = 0.040452 B = 0.002860 C = 0.002758 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 692.014571 B = 9788.441531 C =10150.395061 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.909 5.909 2 C 0.017 3.983 3 Si 0.999 3.001 4 H -0.262 1.262 5 H -0.278 1.278 6 H -0.263 1.263 7 C -0.551 4.551 8 H 0.085 0.915 9 S -0.134 6.134 10 C -0.111 4.111 11 C 0.489 3.511 12 O -0.516 6.516 13 O -0.350 6.350 14 C 0.084 3.916 15 H 0.080 0.920 16 C -0.139 4.139 17 C -0.108 4.108 18 C -0.105 4.105 19 C -0.074 4.074 20 H 0.129 0.871 21 C 0.494 3.506 22 O -0.550 6.550 23 O -0.506 6.506 24 C -0.095 4.095 25 H 0.273 0.727 26 H 0.119 0.881 27 H 0.121 0.879 28 H 0.055 0.945 29 H 0.081 0.919 30 H 0.094 0.906 31 H 0.074 0.926 32 H 0.075 0.925 33 H 0.102 0.898 34 H 0.429 0.571 35 H 0.082 0.918 36 H 0.071 0.929 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 6.921 -24.283 -0.912 25.266 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 -0.545 5.545 2 C -0.189 4.189 3 Si 0.820 3.180 4 H -0.186 1.186 5 H -0.203 1.203 6 H -0.187 1.187 7 C -0.698 4.698 8 H 0.103 0.897 9 S 0.093 5.907 10 C -0.259 4.259 11 C 0.331 3.669 12 O -0.404 6.404 13 O -0.267 6.267 14 C 0.030 3.970 15 H 0.098 0.902 16 C -0.176 4.176 17 C -0.145 4.145 18 C -0.143 4.143 19 C -0.093 4.093 20 H 0.147 0.853 21 C 0.337 3.663 22 O -0.441 6.441 23 O -0.319 6.319 24 C -0.133 4.133 25 H 0.082 0.918 26 H 0.137 0.863 27 H 0.139 0.861 28 H 0.074 0.926 29 H 0.100 0.900 30 H 0.113 0.887 31 H 0.092 0.908 32 H 0.093 0.907 33 H 0.120 0.880 34 H 0.291 0.709 35 H 0.100 0.900 36 H 0.090 0.910 Dipole moment (debyes) X Y Z Total from point charges 5.290 -24.151 -0.990 24.744 hybrid contribution 1.899 1.048 0.498 2.226 sum 7.189 -23.103 -0.492 24.201 Atomic orbital electron populations 1.70153 1.07899 1.28874 1.47623 1.26110 0.95990 1.03243 0.93514 0.84993 0.77818 0.75612 0.79530 1.18635 1.20263 1.18729 1.23169 0.95509 0.91677 1.59461 0.89696 1.85470 1.09116 0.98931 1.97165 1.23107 1.04325 0.90369 1.08132 1.22940 0.84899 0.87456 0.71593 1.90642 1.18075 1.85934 1.45773 1.86532 1.40480 1.15884 1.83803 1.22906 0.97599 0.77865 0.98679 0.90237 1.22020 1.02607 0.98705 0.94311 1.21469 0.98717 0.91644 1.02668 1.21588 1.01341 1.00602 0.90744 1.20973 0.98953 0.90536 0.98867 0.85296 1.23381 0.84950 0.82166 0.75754 1.90750 1.27199 1.78620 1.47543 1.84479 1.54117 1.20256 1.73097 1.21367 0.98869 0.91633 1.01439 0.91809 0.86277 0.86128 0.92638 0.90019 0.88722 0.90756 0.90671 0.87959 0.70937 0.89962 0.91047 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 -0.91 -54.85 13.22 21.65 0.29 -54.57 16 2 C 0.02 0.93 5.49 84.86 0.47 1.40 16 3 Si 1.00 43.07 29.55 68.60 2.03 45.09 16 4 H -0.26 -10.73 7.11 99.48 0.71 -10.02 16 5 H -0.28 -11.63 7.11 99.48 0.71 -10.92 16 6 H -0.26 -10.80 7.11 99.48 0.71 -10.09 16 7 C -0.55 -31.03 9.50 67.96 0.65 -30.39 16 8 H 0.08 4.45 7.80 -2.91 -0.02 4.43 16 9 S -0.13 -7.27 20.57 -56.49 -1.16 -8.43 16 10 C -0.11 -4.51 6.27 71.24 0.45 -4.06 16 11 C 0.49 18.65 7.95 71.24 0.57 19.22 16 12 O -0.52 -22.55 15.08 21.97 0.33 -22.22 16 13 O -0.35 -10.94 9.88 -51.41 -0.51 -11.45 16 14 C 0.08 2.06 2.45 30.60 0.08 2.14 16 15 H 0.08 2.11 7.16 -2.39 -0.02 2.10 16 16 C -0.14 -2.82 5.56 30.60 0.17 -2.65 16 17 C -0.11 -1.41 5.92 30.59 0.18 -1.23 16 18 C -0.11 -1.13 5.14 30.60 0.16 -0.97 16 19 C -0.07 -1.06 2.63 -11.54 -0.03 -1.09 16 20 H 0.13 1.50 8.14 -2.39 -0.02 1.48 16 21 C 0.49 7.87 7.63 71.24 0.54 8.41 16 22 O -0.55 -13.04 16.74 21.96 0.37 -12.67 16 23 O -0.51 -4.92 13.33 -51.37 -0.68 -5.60 16 24 C -0.10 -1.93 4.15 30.59 0.13 -1.80 16 25 H 0.27 15.29 8.31 -92.70 -0.77 14.52 16 26 H 0.12 4.45 8.14 -2.39 -0.02 4.43 16 27 H 0.12 4.47 8.14 -2.39 -0.02 4.45 16 28 H 0.05 1.37 8.14 -2.39 -0.02 1.35 16 29 H 0.08 1.53 8.14 -2.39 -0.02 1.51 16 30 H 0.09 0.96 8.14 -2.39 -0.02 0.95 16 31 H 0.07 0.97 8.14 -2.39 -0.02 0.95 16 32 H 0.07 0.80 8.14 -2.39 -0.02 0.78 16 33 H 0.10 0.75 8.11 -2.39 -0.02 0.73 16 34 H 0.43 0.84 9.10 -74.06 -0.67 0.17 16 35 H 0.08 1.72 8.10 -2.39 -0.02 1.70 16 36 H 0.07 1.61 8.10 -2.39 -0.02 1.59 16 Total: -1.00 -75.20 324.20 4.43 -70.77 By element: Atomic # 1 Polarization: 9.68 SS G_CDS: 0.42 Total: 10.10 kcal Atomic # 6 Polarization: -14.37 SS G_CDS: 3.35 Total: -11.03 kcal Atomic # 7 Polarization: -54.85 SS G_CDS: 0.29 Total: -54.57 kcal Atomic # 8 Polarization: -51.45 SS G_CDS: -0.49 Total: -51.94 kcal Atomic # 14 Polarization: 43.07 SS G_CDS: 2.03 Total: 45.09 kcal Atomic # 16 Polarization: -7.27 SS G_CDS: -1.16 Total: -8.43 kcal Total: -75.20 4.43 -70.77 kcal The number of atoms in the molecule is 36 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. ZINC001601076554.mol2 36 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 -153.209 kcal (2) G-P(sol) polarization free energy of solvation -75.198 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -228.408 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.428 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -70.770 kcal (6) G-S(sol) free energy of system = (1) + (5) -223.980 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.35 seconds