Wall clock time and date at job start Tue Mar 31 2020 22:26:31 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 1.31633 * 1 3 3 Si 1.86809 * 119.99833 * 2 1 4 4 H 1.48500 * 109.47022 * 239.99859 * 3 2 1 5 5 H 1.48500 * 109.46787 * 359.97438 * 3 2 1 6 6 H 1.48498 * 109.47071 * 119.99620 * 3 2 1 7 7 C 1.38795 * 120.00385 * 179.97438 * 2 1 3 8 8 H 1.07996 * 120.00131 * 180.02562 * 7 2 1 9 9 S 1.76200 * 119.99866 * 0.02562 * 7 2 1 10 10 C 1.81002 * 100.00233 * 180.02562 * 9 7 2 11 11 C 1.50693 * 109.47180 * 180.02562 * 10 9 7 12 12 O 1.21284 * 120.00456 * 0.02562 * 11 10 9 13 13 N 1.34778 * 120.00090 * 179.97438 * 11 10 9 14 14 C 1.46504 * 120.00064 * 179.97438 * 13 11 10 15 15 C 1.53495 * 114.20428 * 155.00342 * 14 13 11 16 16 N 1.47066 * 87.98658 * 87.51928 * 15 14 13 17 17 C 1.34780 * 136.06263 * 206.86221 * 16 15 14 18 18 O 1.21282 * 119.99658 * 359.97438 * 17 16 15 19 19 C 1.50700 * 120.00120 * 180.02562 * 17 16 15 20 20 C 1.53003 * 109.46948 * 179.97438 * 19 17 16 21 21 C 1.50697 * 109.47315 * 180.02562 * 20 19 17 22 22 C 1.35342 * 126.91177 * 84.99960 * 21 20 19 23 23 N 1.33773 * 106.49829 * 179.97438 * 22 21 20 24 24 N 1.28635 * 108.88594 * 0.02562 * 23 22 21 25 25 N 1.28719 * 110.17703 * 359.75045 * 24 23 22 26 26 H 0.96994 * 125.87429 * 180.23633 * 25 24 23 27 27 C 1.47067 * 87.88528 * 27.11900 * 16 15 14 28 28 H 0.96999 * 120.00159 * 0.02562 * 1 2 3 29 29 H 1.09003 * 109.46848 * 59.99924 * 10 9 7 30 30 H 1.09000 * 109.46820 * 299.99938 * 10 9 7 31 31 H 0.96994 * 119.99541 * 0.02562 * 13 11 10 32 32 H 1.08994 * 113.28068 * 21.93803 * 14 13 11 33 33 H 1.09005 * 113.46950 * 332.74494 * 15 14 13 34 34 H 1.08994 * 113.52293 * 202.30979 * 15 14 13 35 35 H 1.08990 * 109.46997 * 299.99606 * 19 17 16 36 36 H 1.09001 * 109.47038 * 60.00166 * 19 17 16 37 37 H 1.08997 * 109.47259 * 300.00495 * 20 19 17 38 38 H 1.09008 * 109.46812 * 59.99730 * 20 19 17 39 39 H 1.07997 * 126.75412 * 359.94862 * 22 21 20 40 40 H 1.09007 * 113.46858 * 87.65629 * 27 16 15 41 41 H 1.08993 * 113.47208 * 218.09965 * 27 16 15 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 3.1041 1.6965 -1.2125 5 1 1.2852 2.7465 -0.0006 6 1 3.1040 1.6966 1.2125 7 6 2.0104 -1.2019 0.0005 8 1 3.0903 -1.2019 0.0010 9 16 1.1294 -2.7279 0.0005 10 6 2.5160 -3.8914 0.0021 11 6 1.9876 -5.3026 0.0017 12 8 0.7913 -5.5023 0.0000 13 7 2.8443 -6.3430 0.0022 14 6 2.3306 -7.7150 0.0024 15 6 3.2984 -8.7495 -0.5887 16 7 3.8890 -8.8859 0.7512 17 6 5.0916 -9.2329 1.2511 18 8 5.9972 -9.5298 0.5010 19 6 5.3106 -9.2532 2.7419 20 6 6.7498 -9.6784 3.0402 21 6 6.9687 -9.6993 4.5311 22 6 6.6862 -10.7149 5.3799 23 7 7.0416 -10.2995 6.6009 24 7 7.5123 -9.1056 6.5138 25 7 7.4917 -8.7083 5.2897 26 1 7.7966 -7.8461 4.9667 27 6 2.5879 -8.4832 1.3061 28 1 -0.4850 0.8400 -0.0004 29 1 3.1239 -3.7309 0.8925 30 1 3.1253 -3.7317 -0.8875 31 1 3.8011 -6.1833 0.0032 32 1 1.3099 -7.7929 -0.3720 33 1 3.9847 -8.3309 -1.3249 34 1 2.8051 -9.6557 -0.9399 35 1 5.1338 -8.2576 3.1487 36 1 4.6205 -9.9611 3.2009 37 1 6.9262 -10.6741 2.6334 38 1 7.4402 -8.9708 2.5811 39 1 6.2578 -11.6723 5.1224 40 1 1.9044 -9.3183 1.4600 41 1 2.6699 -7.8383 2.1810 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001721327365.mol2 41 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 22:26:31 Heat of formation + Delta-G solvation = 29.076692 kcal Electronic energy + Delta-G solvation = -25366.788438 eV Core-core repulsion = 21410.352040 eV Total energy + Delta-G solvation = -3956.436398 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.63 seconds Orbital eigenvalues (eV) -44.31634 -41.79760 -40.30964 -38.95411 -35.46880 -34.76408 -34.57438 -34.16897 -31.74233 -30.87804 -29.44494 -27.65876 -27.12885 -25.73623 -24.01202 -23.15112 -22.43420 -21.73642 -19.96275 -19.81840 -19.27112 -18.21660 -17.90392 -17.26085 -17.20552 -16.89249 -16.87412 -16.68994 -16.31048 -16.00521 -15.45045 -15.15386 -14.99799 -14.74691 -14.42483 -14.21546 -13.90241 -13.84693 -13.45056 -13.38262 -13.17040 -12.93707 -12.87108 -12.76295 -12.63447 -12.35697 -12.03956 -11.82735 -11.75326 -11.62582 -11.13188 -11.03034 -10.97137 -10.28245 -10.19256 -10.16127 -9.79951 -8.65624 -8.34868 -6.12165 0.53026 1.25904 1.43123 1.46045 1.50187 1.54735 1.55739 1.56648 1.76149 1.91623 2.18324 2.27686 2.99363 3.18855 3.30453 3.41170 3.62030 3.76950 3.85595 3.92920 3.96719 4.02906 4.22537 4.29534 4.32234 4.43399 4.49327 4.51325 4.56082 4.63829 4.66828 4.77713 4.84024 4.97354 5.02505 5.19106 5.41728 5.47340 5.94632 6.19333 6.40778 6.66454 7.06874 7.06908 7.18898 7.41098 8.73743 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.011341 B = 0.002118 C = 0.001878 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2468.319153 B =13215.946381 C =14907.265182 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 0.015 3.985 3 Si 0.995 3.005 4 H -0.263 1.263 5 H -0.279 1.279 6 H -0.263 1.263 7 C -0.548 4.548 8 H 0.081 0.919 9 S -0.144 6.144 10 C -0.133 4.133 11 C 0.544 3.456 12 O -0.555 6.555 13 N -0.696 5.696 14 C 0.100 3.900 15 C 0.101 3.899 16 N -0.649 5.649 17 C 0.542 3.458 18 O -0.580 6.580 19 C -0.124 4.124 20 C -0.024 4.024 21 C 0.007 3.993 22 C -0.053 4.053 23 N -0.304 5.304 24 N -0.114 5.114 25 N -0.376 5.376 26 H 0.461 0.539 27 C 0.093 3.907 28 H 0.271 0.729 29 H 0.109 0.891 30 H 0.107 0.893 31 H 0.412 0.588 32 H 0.124 0.876 33 H 0.077 0.923 34 H 0.125 0.875 35 H 0.104 0.896 36 H 0.120 0.880 37 H 0.108 0.892 38 H 0.089 0.911 39 H 0.216 0.784 40 H 0.128 0.872 41 H 0.086 0.914 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 13.081 -22.533 3.833 26.335 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 -0.546 5.546 2 C -0.190 4.190 3 Si 0.817 3.183 4 H -0.188 1.188 5 H -0.205 1.205 6 H -0.187 1.187 7 C -0.696 4.696 8 H 0.100 0.900 9 S 0.083 5.917 10 C -0.284 4.284 11 C 0.330 3.670 12 O -0.432 6.432 13 N -0.349 5.349 14 C -0.007 4.007 15 C -0.023 4.023 16 N -0.384 5.384 17 C 0.334 3.666 18 O -0.460 6.460 19 C -0.164 4.164 20 C -0.064 4.064 21 C -0.128 4.128 22 C -0.211 4.211 23 N -0.170 5.170 24 N -0.094 5.094 25 N -0.099 5.099 26 H 0.310 0.690 27 C -0.031 4.031 28 H 0.080 0.920 29 H 0.127 0.873 30 H 0.125 0.875 31 H 0.248 0.752 32 H 0.141 0.859 33 H 0.096 0.904 34 H 0.143 0.857 35 H 0.122 0.878 36 H 0.138 0.862 37 H 0.126 0.874 38 H 0.108 0.892 39 H 0.233 0.767 40 H 0.146 0.854 41 H 0.104 0.896 Dipole moment (debyes) X Y Z Total from point charges 11.981 -22.736 5.080 26.197 hybrid contribution 1.886 1.700 -1.265 2.836 sum 13.867 -21.037 3.815 25.483 Atomic orbital electron populations 1.70160 1.07858 1.28661 1.47906 1.26080 0.95945 1.03198 0.93812 0.85055 0.77859 0.75980 0.79434 1.18778 1.20462 1.18736 1.23165 0.95310 0.92180 1.58915 0.90042 1.85516 1.10183 0.98968 1.97042 1.23381 1.03698 0.94625 1.06686 1.19930 0.86161 0.86313 0.74620 1.90708 1.17008 1.85854 1.49593 1.45353 1.09965 1.04190 1.75376 1.22290 0.99833 0.80547 0.98007 1.23481 0.93468 0.98632 0.86673 1.49801 1.10123 1.67585 1.10893 1.20556 0.79925 0.74808 0.91342 1.90735 1.42647 1.50568 1.62074 1.21596 0.98524 1.05742 0.90577 1.19835 0.96107 1.05845 0.84586 1.22422 1.03515 0.89863 0.97012 1.23987 1.06370 1.02695 0.88008 1.75091 1.13792 1.03758 1.24364 1.78288 1.20926 1.08962 1.01221 1.45235 1.41891 1.17036 1.05773 0.69048 1.23741 0.82615 0.98739 0.97959 0.91987 0.87322 0.87475 0.75159 0.85861 0.90421 0.85712 0.87758 0.86235 0.87364 0.89209 0.76713 0.85396 0.89573 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 -54.44 13.22 21.65 0.29 -54.16 16 2 C 0.01 0.81 5.49 84.86 0.47 1.28 16 3 Si 0.99 42.45 29.55 68.60 2.03 44.48 16 4 H -0.26 -10.68 7.11 99.48 0.71 -9.97 16 5 H -0.28 -11.67 7.11 99.48 0.71 -10.97 16 6 H -0.26 -10.64 7.11 99.48 0.71 -9.93 16 7 C -0.55 -30.20 9.50 67.95 0.65 -29.55 16 8 H 0.08 4.16 7.80 -2.91 -0.02 4.14 16 9 S -0.14 -7.58 20.57 -56.49 -1.16 -8.74 16 10 C -0.13 -4.77 6.16 71.23 0.44 -4.33 16 11 C 0.54 17.10 7.85 87.65 0.69 17.79 16 12 O -0.55 -22.22 15.45 -3.04 -0.05 -22.27 16 13 N -0.70 -13.77 5.39 -441.94 -2.38 -16.15 16 14 C 0.10 1.44 4.61 45.46 0.21 1.64 16 15 C 0.10 1.11 8.38 83.18 0.70 1.81 16 16 N -0.65 -7.54 3.69 -858.36 -3.17 -10.71 16 17 C 0.54 7.45 8.08 87.66 0.71 8.16 16 18 O -0.58 -12.55 16.76 -3.04 -0.05 -12.60 16 19 C -0.12 -0.87 5.51 29.85 0.16 -0.70 16 20 C -0.02 -0.17 5.07 29.85 0.15 -0.02 16 21 C 0.01 0.07 6.56 41.35 0.27 0.34 16 22 C -0.05 -0.69 11.99 83.73 1.00 0.31 16 23 N -0.30 -6.34 12.41 -58.26 -0.72 -7.07 16 24 N -0.11 -2.25 13.38 37.02 0.50 -1.76 16 25 N -0.38 -4.38 6.98 -47.79 -0.33 -4.72 16 26 H 0.46 2.31 8.96 -219.96 -1.97 0.34 16 27 C 0.09 0.87 8.23 83.18 0.68 1.56 16 28 H 0.27 15.13 8.31 -92.71 -0.77 14.36 16 29 H 0.11 3.50 8.14 -2.39 -0.02 3.48 16 30 H 0.11 3.51 8.14 -2.40 -0.02 3.49 16 31 H 0.41 6.53 8.76 -92.71 -0.81 5.72 16 32 H 0.12 2.04 7.45 -2.39 -0.02 2.02 16 33 H 0.08 1.02 8.14 -2.38 -0.02 1.00 16 34 H 0.13 0.84 8.14 -2.39 -0.02 0.82 16 35 H 0.10 0.59 8.14 -2.39 -0.02 0.58 16 36 H 0.12 0.46 8.14 -2.39 -0.02 0.44 16 37 H 0.11 0.77 8.10 -2.39 -0.02 0.75 16 38 H 0.09 0.67 8.10 -2.38 -0.02 0.65 16 39 H 0.22 1.39 8.06 -2.91 -0.02 1.37 16 40 H 0.13 0.58 8.14 -2.38 -0.02 0.56 16 41 H 0.09 0.86 8.14 -2.39 -0.02 0.85 16 Total: -1.00 -85.08 376.83 -0.62 -85.70 By element: Atomic # 1 Polarization: 11.39 SS G_CDS: -1.69 Total: 9.70 kcal Atomic # 6 Polarization: -7.84 SS G_CDS: 6.13 Total: -1.71 kcal Atomic # 7 Polarization: -88.73 SS G_CDS: -5.82 Total: -94.56 kcal Atomic # 8 Polarization: -34.77 SS G_CDS: -0.10 Total: -34.86 kcal Atomic # 14 Polarization: 42.45 SS G_CDS: 2.03 Total: 44.48 kcal Atomic # 16 Polarization: -7.58 SS G_CDS: -1.16 Total: -8.74 kcal Total: -85.08 -0.62 -85.70 kcal The number of atoms in the molecule is 41 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. ZINC001721327365.mol2 41 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 114.779 kcal (2) G-P(sol) polarization free energy of solvation -85.084 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 29.696 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.619 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -85.703 kcal (6) G-S(sol) free energy of system = (1) + (5) 29.077 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.63 seconds