Wall clock time and date at job start Tue Mar 31 2020 06:01:04 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 1.86802 * 119.99882 * 2 1 4 4 H 1.48502 * 109.47058 * 269.99929 * 3 2 1 5 5 H 1.48504 * 109.47023 * 29.99734 * 3 2 1 6 6 H 1.48500 * 109.47015 * 150.00085 * 3 2 1 7 7 C 1.38798 * 120.00055 * 179.97438 * 2 1 3 8 8 H 1.07996 * 119.99582 * 0.02562 * 7 2 1 9 9 S 1.76193 * 120.00002 * 179.97438 * 7 2 1 10 10 C 1.81000 * 100.00022 * 180.02562 * 9 7 2 11 11 C 1.50698 * 109.47139 * 180.02562 * 10 9 7 12 12 O 1.21286 * 119.99892 * 359.97438 * 11 10 9 13 13 N 1.34778 * 120.00078 * 180.02562 * 11 10 9 14 14 C 1.46496 * 120.00166 * 179.97438 * 13 11 10 15 15 H 1.09005 * 108.45296 * 327.31180 * 14 13 11 16 16 C 1.52566 * 108.39204 * 209.68939 * 14 13 11 17 17 C 1.50887 * 109.36094 * 153.82539 * 16 14 13 18 18 C 1.53949 * 110.09284 * 91.88248 * 17 16 14 19 19 N 1.47594 * 112.14791 * 319.43545 * 18 17 16 20 20 C 1.34779 * 118.64840 * 137.87087 * 19 18 17 21 21 O 1.21346 * 119.99225 * 358.13107 * 20 19 18 22 22 C 1.49450 * 120.00340 * 178.13695 * 20 19 18 23 23 N 1.34778 * 119.99796 * 186.16163 * 22 20 19 24 24 O 1.21342 * 119.99697 * 6.16403 * 22 20 19 25 25 C 1.44585 * 122.71403 * 317.87196 * 19 18 17 26 26 C 1.47092 * 108.51366 * 84.99880 * 14 13 11 27 27 H 0.97003 * 119.99926 * 0.02562 * 1 2 3 28 28 H 1.08993 * 109.46841 * 60.00329 * 10 9 7 29 29 H 1.09006 * 109.46675 * 299.99739 * 10 9 7 30 30 H 0.96992 * 119.99779 * 0.02562 * 13 11 10 31 31 H 1.09008 * 109.48792 * 273.78798 * 16 14 13 32 32 H 1.08994 * 109.49128 * 33.83671 * 16 14 13 33 33 H 1.08994 * 109.36651 * 212.07781 * 17 16 14 34 34 H 1.08999 * 109.36452 * 331.69349 * 17 16 14 35 35 H 1.09006 * 108.94670 * 80.13040 * 18 17 16 36 36 H 1.09004 * 108.94552 * 198.74702 * 18 17 16 37 37 H 0.96993 * 120.00242 * 0.02562 * 23 22 20 38 38 H 0.96995 * 119.99410 * 179.97438 * 23 22 20 39 39 H 1.08999 * 109.44519 * 330.68568 * 25 19 18 40 40 H 1.09000 * 109.45321 * 210.76365 * 25 19 18 41 41 H 1.08999 * 109.32628 * 63.63684 * 26 14 13 42 42 H 1.09006 * 109.18904 * 304.07171 * 26 14 13 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 2.2503 1.6178 0.0000 4 1 2.4978 2.0464 -1.4001 5 1 1.4476 2.6527 0.7000 6 1 3.5478 1.4402 0.7000 7 6 2.0103 -1.2020 0.0005 8 1 1.4703 -2.1373 0.0005 9 16 3.7722 -1.2020 -0.0001 10 6 4.0866 -2.9845 0.0001 11 6 5.5730 -3.2325 0.0002 12 8 6.3440 -2.2962 -0.0003 13 7 6.0457 -4.4946 -0.0001 14 6 7.4907 -4.7357 -0.0005 15 1 7.9740 -3.9340 -0.5590 16 6 7.7583 -6.0554 -0.7178 17 6 9.1505 -6.0353 -1.2992 18 6 10.1520 -6.6330 -0.2942 19 7 9.8741 -6.2038 1.0903 20 6 9.9612 -7.1154 2.0792 21 8 10.2296 -8.2696 1.8183 22 6 9.7269 -6.7047 3.4970 23 7 9.9349 -7.5845 4.4965 24 8 9.3495 -5.5791 3.7481 25 6 9.5123 -4.8457 1.4297 26 6 7.9718 -4.6928 1.3888 27 1 -0.4850 0.8401 -0.0004 28 1 3.6434 -3.4317 -0.8896 29 1 3.6440 -3.4313 0.8905 30 1 5.4291 -5.2434 -0.0007 31 1 7.6722 -6.8787 -0.0087 32 1 7.0312 -6.1878 -1.5190 33 1 9.1670 -6.6214 -2.2180 34 1 9.4337 -5.0069 -1.5235 35 1 10.0982 -7.7205 -0.3453 36 1 11.1588 -6.3169 -0.5674 37 1 10.2369 -8.4841 4.2958 38 1 9.7832 -7.3178 5.4167 39 1 9.9642 -4.1599 0.7130 40 1 9.8737 -4.6132 2.4314 41 1 7.5136 -5.5042 1.9544 42 1 7.6920 -3.7387 1.8356 RHF calculation, no. of doubly occupied orbitals= 59 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 ZINC001065876402.mol2 42 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 06:01:04 Heat of formation + Delta-G solvation = -121.850193 kcal Electronic energy + Delta-G solvation = -26078.063126 eV Core-core repulsion = 22183.703958 eV Total energy + Delta-G solvation = -3894.359168 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 329.124 amu Computer time = 13.10 seconds Orbital eigenvalues (eV) -42.22260 -40.95833 -39.62589 -38.75587 -36.26973 -34.74853 -34.67476 -33.91895 -32.98546 -30.51076 -28.31328 -27.85872 -26.19635 -25.64943 -22.78839 -21.76755 -21.67586 -20.60348 -19.86041 -18.92851 -18.44906 -17.86222 -17.75029 -17.24082 -17.05907 -16.98907 -16.47939 -16.36377 -15.91863 -15.64608 -15.38948 -15.13282 -14.92590 -14.75543 -14.59091 -14.27008 -13.77225 -13.60948 -13.46328 -13.34803 -13.01372 -12.91735 -12.77459 -12.46177 -12.33513 -11.94066 -11.87791 -11.78263 -11.63520 -11.17409 -10.95594 -10.88886 -10.54033 -10.41649 -10.22649 -9.74316 -8.99560 -8.52054 -6.22667 0.31119 0.99075 1.31169 1.40841 1.46889 1.56052 1.58628 2.07689 2.22322 2.26560 2.61987 2.71594 2.86173 3.46432 3.56489 3.78124 3.89750 3.96390 4.07787 4.17944 4.22491 4.32268 4.42358 4.46533 4.54443 4.63951 4.77669 4.89289 4.92884 5.03603 5.13572 5.21479 5.28701 5.37556 5.50423 5.68968 5.70195 5.89541 6.10797 6.13732 6.47838 6.68602 6.93099 7.02474 7.20852 8.60462 Molecular weight = 329.12amu Principal moments of inertia in cm(-1) A = 0.022492 B = 0.002518 C = 0.002408 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1244.613101 B =11117.153341 C =11624.642188 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 0.915 3.085 4 H -0.261 1.261 5 H -0.259 1.259 6 H -0.237 1.237 7 C -0.529 4.529 8 H 0.061 0.939 9 S -0.173 6.173 10 C -0.113 4.113 11 C 0.536 3.464 12 O -0.559 6.559 13 N -0.714 5.714 14 C 0.147 3.853 15 H 0.072 0.928 16 C -0.116 4.116 17 C -0.124 4.124 18 C 0.104 3.896 19 N -0.566 5.566 20 C 0.499 3.501 21 O -0.542 6.542 22 C 0.506 3.494 23 N -0.803 5.803 24 O -0.533 6.533 25 C 0.093 3.907 26 C -0.126 4.126 27 H 0.277 0.723 28 H 0.113 0.887 29 H 0.109 0.891 30 H 0.413 0.587 31 H 0.068 0.932 32 H 0.086 0.914 33 H 0.107 0.893 34 H 0.074 0.926 35 H 0.092 0.908 36 H 0.088 0.912 37 H 0.421 0.579 38 H 0.421 0.579 39 H 0.088 0.912 40 H 0.122 0.878 41 H 0.059 0.941 42 H 0.056 0.944 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 24.600 -20.045 2.960 31.870 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 0.737 3.263 4 H -0.186 1.186 5 H -0.184 1.184 6 H -0.160 1.160 7 C -0.677 4.677 8 H 0.079 0.921 9 S 0.054 5.946 10 C -0.263 4.263 11 C 0.321 3.679 12 O -0.437 6.437 13 N -0.367 5.367 14 C 0.043 3.957 15 H 0.090 0.910 16 C -0.155 4.155 17 C -0.162 4.162 18 C -0.017 4.017 19 N -0.297 5.297 20 C 0.281 3.719 21 O -0.421 6.421 22 C 0.285 3.715 23 N -0.369 5.369 24 O -0.411 6.411 25 C -0.030 4.030 26 C -0.165 4.165 27 H 0.086 0.914 28 H 0.131 0.869 29 H 0.127 0.873 30 H 0.250 0.750 31 H 0.087 0.913 32 H 0.105 0.895 33 H 0.125 0.875 34 H 0.092 0.908 35 H 0.110 0.890 36 H 0.106 0.894 37 H 0.253 0.747 38 H 0.256 0.744 39 H 0.106 0.894 40 H 0.140 0.860 41 H 0.078 0.922 42 H 0.075 0.925 Dipole moment (debyes) X Y Z Total from point charges 25.620 -18.268 2.764 31.587 hybrid contribution -1.712 -0.806 0.425 1.940 sum 23.908 -19.074 3.189 30.750 Atomic orbital electron populations 1.70020 1.07331 1.29040 1.49191 1.25585 0.95293 1.02322 0.92884 0.85853 0.80667 0.79500 0.80265 1.18580 1.18361 1.16048 1.22469 0.90359 0.96652 1.58223 0.92082 1.84675 1.06280 1.06115 1.97570 1.23285 0.96191 0.99648 1.07222 1.19927 0.89265 0.83554 0.75137 1.90680 1.59145 1.43677 1.50168 1.46084 1.08690 1.06688 1.75271 1.20194 0.79799 0.98981 0.96730 0.90993 1.21339 0.98763 0.95043 1.00310 1.21695 0.92792 1.03085 0.98650 1.22202 0.99699 1.01454 0.78337 1.47748 1.64651 1.09959 1.07379 1.20258 0.78867 0.85618 0.87139 1.90741 1.48530 1.18625 1.84180 1.20165 0.78404 0.85352 0.87549 1.43468 1.67558 1.16605 1.09299 1.90730 1.45791 1.20105 1.84463 1.22273 0.94000 0.81491 1.05231 1.21367 0.96684 1.02029 0.96432 0.91358 0.86904 0.87262 0.75045 0.91318 0.89520 0.87471 0.90762 0.88972 0.89416 0.74655 0.74419 0.89392 0.86029 0.92199 0.92528 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 -56.29 13.97 21.65 0.30 -55.99 16 2 C 0.04 2.63 5.50 84.86 0.47 3.10 16 3 Si 0.92 45.29 27.74 68.60 1.90 47.19 16 4 H -0.26 -12.56 7.11 99.48 0.71 -11.85 16 5 H -0.26 -12.04 7.11 99.48 0.71 -11.33 16 6 H -0.24 -11.69 6.74 99.48 0.67 -11.02 16 7 C -0.53 -31.07 10.04 67.95 0.68 -30.39 16 8 H 0.06 3.78 8.03 -2.91 -0.02 3.76 16 9 S -0.17 -8.79 18.55 -56.49 -1.05 -9.84 16 10 C -0.11 -4.27 6.16 71.24 0.44 -3.83 16 11 C 0.54 18.33 7.69 87.66 0.67 19.01 16 12 O -0.56 -23.48 15.35 -3.05 -0.05 -23.52 16 13 N -0.71 -16.93 4.88 -452.05 -2.21 -19.14 16 14 C 0.15 3.01 1.96 43.01 0.08 3.09 16 15 H 0.07 1.74 6.66 -2.38 -0.02 1.72 16 16 C -0.12 -1.60 4.99 29.76 0.15 -1.45 16 17 C -0.12 -1.26 5.71 30.23 0.17 -1.09 16 18 C 0.10 1.18 6.11 86.49 0.53 1.71 16 19 N -0.57 -8.76 2.24 -819.75 -1.84 -10.60 16 20 C 0.50 8.70 7.69 87.27 0.67 9.37 16 21 O -0.54 -10.84 15.76 -3.23 -0.05 -10.89 16 22 C 0.51 8.38 8.01 87.27 0.70 9.07 16 23 N -0.80 -7.34 8.87 -174.50 -1.55 -8.89 16 24 O -0.53 -11.65 13.06 -3.22 -0.04 -11.69 16 25 C 0.09 1.67 4.98 87.37 0.44 2.10 16 26 C -0.13 -2.76 4.61 29.39 0.14 -2.63 16 27 H 0.28 15.69 8.31 -92.71 -0.77 14.92 16 28 H 0.11 3.91 8.14 -2.40 -0.02 3.89 16 29 H 0.11 3.88 8.14 -2.39 -0.02 3.86 16 30 H 0.41 7.40 8.61 -92.71 -0.80 6.60 16 31 H 0.07 0.99 7.48 -2.38 -0.02 0.97 16 32 H 0.09 1.07 8.04 -2.39 -0.02 1.05 16 33 H 0.11 0.69 8.14 -2.39 -0.02 0.67 16 34 H 0.07 0.82 7.32 -2.39 -0.02 0.80 16 35 H 0.09 1.15 6.94 -2.38 -0.02 1.13 16 36 H 0.09 0.76 8.14 -2.39 -0.02 0.74 16 37 H 0.42 2.58 8.32 -92.71 -0.77 1.81 16 38 H 0.42 2.39 8.93 -92.71 -0.83 1.56 16 39 H 0.09 1.39 8.07 -2.39 -0.02 1.37 16 40 H 0.12 2.46 4.88 -28.79 -0.14 2.32 16 41 H 0.06 1.35 7.84 -2.39 -0.02 1.33 16 42 H 0.06 1.62 7.94 -2.38 -0.02 1.60 16 Total: -1.00 -78.50 354.73 -0.90 -79.40 By element: Atomic # 1 Polarization: 17.37 SS G_CDS: -1.47 Total: 15.90 kcal Atomic # 6 Polarization: 2.93 SS G_CDS: 5.14 Total: 8.06 kcal Atomic # 7 Polarization: -89.33 SS G_CDS: -5.29 Total: -94.62 kcal Atomic # 8 Polarization: -45.96 SS G_CDS: -0.14 Total: -46.10 kcal Atomic # 14 Polarization: 45.29 SS G_CDS: 1.90 Total: 47.19 kcal Atomic # 16 Polarization: -8.79 SS G_CDS: -1.05 Total: -9.84 kcal Total: -78.50 -0.90 -79.40 kcal The number of atoms in the molecule is 42 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. ZINC001065876402.mol2 42 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 -42.447 kcal (2) G-P(sol) polarization free energy of solvation -78.499 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -120.946 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.904 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -79.403 kcal (6) G-S(sol) free energy of system = (1) + (5) -121.850 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 13.10 seconds