Wall clock time and date at job start Tue Mar 31 2020 22:39:30 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 1.31634 * 1 3 3 Si 1.86800 * 119.99493 * 2 1 4 4 H 1.48501 * 109.47057 * 180.02562 * 3 2 1 5 5 H 1.48500 * 109.47389 * 300.00153 * 3 2 1 6 6 H 1.48500 * 109.47148 * 59.99944 * 3 2 1 7 7 C 1.38795 * 120.00230 * 180.02562 * 2 1 3 8 8 H 1.08009 * 119.99630 * 180.27659 * 7 2 1 9 9 S 1.76199 * 120.00161 * 359.97438 * 7 2 1 10 10 C 1.81000 * 99.99871 * 180.02562 * 9 7 2 11 11 C 1.50703 * 109.47042 * 180.02562 * 10 9 7 12 12 O 1.21275 * 119.99945 * 359.97438 * 11 10 9 13 13 N 1.34775 * 119.99776 * 180.02562 * 11 10 9 14 14 C 1.46504 * 119.99565 * 179.97438 * 13 11 10 15 15 C 1.53006 * 109.47032 * 179.97438 * 14 13 11 16 16 H 1.09005 * 115.51477 * 29.42372 * 15 14 13 17 17 C 1.52991 * 117.44805 * 243.99812 * 15 14 13 18 18 H 1.09002 * 119.52511 * 4.09236 * 17 15 14 19 19 C 1.57646 * 116.14096 * 161.43725 * 17 15 14 20 20 N 1.48554 * 104.59365 * 87.43927 * 19 17 15 21 21 C 1.46902 * 111.00012 * 200.32482 * 20 19 17 22 22 H 1.08998 * 110.43492 * 56.11401 * 21 20 19 23 23 C 1.54633 * 110.48441 * 293.57576 * 21 20 19 24 24 C 1.54831 * 101.60355 * 266.08163 * 23 21 20 25 25 N 1.46766 * 105.49373 * 334.56404 * 24 23 21 26 26 C 1.34418 * 111.29840 * 17.04150 * 25 24 23 27 27 O 1.21287 * 124.94072 * 179.62916 * 26 25 24 28 28 C 1.48567 * 104.22188 * 319.87784 * 20 19 17 29 29 C 1.52996 * 117.44531 * 174.83456 * 15 14 13 30 30 H 1.09007 * 119.52408 * 355.91958 * 29 15 14 31 31 H 0.96991 * 120.00676 * 359.97438 * 1 2 3 32 32 H 1.09000 * 109.47385 * 299.99958 * 10 9 7 33 33 H 1.09005 * 109.47046 * 60.00120 * 10 9 7 34 34 H 0.96993 * 120.00370 * 359.97438 * 13 11 10 35 35 H 1.08996 * 109.47377 * 299.99327 * 14 13 11 36 36 H 1.09001 * 109.47256 * 60.00369 * 14 13 11 37 37 H 1.08993 * 110.94851 * 328.38403 * 19 17 15 38 38 H 1.09009 * 109.96841 * 205.99299 * 19 17 15 39 39 H 1.08998 * 110.96882 * 24.23626 * 23 21 20 40 40 H 1.08993 * 110.96881 * 147.99826 * 23 21 20 41 41 H 1.09000 * 110.21629 * 215.57190 * 24 23 21 42 42 H 1.08996 * 110.33322 * 93.62420 * 24 23 21 43 43 H 0.96999 * 124.34979 * 197.01597 * 25 24 23 44 44 H 1.08994 * 110.41126 * 280.70759 * 28 20 19 45 45 H 1.09002 * 110.50884 * 158.31493 * 28 20 19 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 2.2502 1.6178 0.0000 4 1 3.7102 1.3466 -0.0006 5 1 1.8914 2.3966 -1.2125 6 1 1.8914 2.3965 1.2125 7 6 2.0104 -1.2020 -0.0005 8 1 3.0904 -1.2019 0.0040 9 16 1.1295 -2.7280 -0.0005 10 6 2.5161 -3.8913 -0.0005 11 6 1.9877 -5.3026 -0.0012 12 8 0.7915 -5.5023 -0.0011 13 7 2.8446 -6.3429 -0.0008 14 6 2.3309 -7.7150 -0.0008 15 6 3.5031 -8.6984 -0.0009 16 1 4.4135 -8.3438 0.4823 17 6 3.6607 -9.6076 -1.2213 18 1 2.9890 -9.4870 -2.0713 19 6 5.0788 -10.2677 -1.4171 20 7 5.0203 -11.5226 -0.6242 21 6 6.3699 -12.0069 -0.3048 22 1 6.9374 -11.2361 0.2165 23 6 7.1067 -12.4440 -1.5921 24 6 6.7956 -13.9603 -1.6295 25 7 6.5442 -14.3434 -0.2352 26 6 6.2966 -13.2664 0.5301 27 8 6.0510 -13.2994 1.7173 28 6 4.2859 -11.1408 0.6096 29 6 3.1741 -10.1876 0.1212 30 1 2.1402 -10.4988 0.2707 31 1 -0.4851 0.8399 0.0004 32 1 3.1247 -3.7312 -0.8905 33 1 3.1247 -3.7311 0.8895 34 1 3.8013 -6.1833 -0.0004 35 1 1.7221 -7.8750 0.8890 36 1 1.7227 -7.8752 -0.8910 37 1 5.8672 -9.6163 -1.0402 38 1 5.2429 -10.4914 -2.4713 39 1 6.6974 -11.9382 -2.4666 40 1 8.1788 -12.2669 -1.5071 41 1 7.6500 -14.5105 -2.0236 42 1 5.9118 -14.1507 -2.2382 43 1 6.5550 -15.2565 0.0920 44 1 4.9503 -10.6261 1.3036 45 1 3.8510 -12.0211 1.0830 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC001485593978.mol2 45 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 22:39:30 Heat of formation + Delta-G solvation = -56.652395 kcal Electronic energy + Delta-G solvation = -25805.248493 eV Core-core repulsion = 21948.634947 eV Total energy + Delta-G solvation = -3856.613547 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 339.140 amu Computer time = 0.73 seconds Orbital eigenvalues (eV) -41.84654 -40.77602 -40.09765 -37.54293 -36.33168 -34.71652 -34.57133 -31.66046 -30.83123 -29.36301 -28.53853 -27.70053 -26.89005 -23.75742 -22.71303 -22.06713 -21.33349 -21.07226 -20.89383 -19.80379 -18.42979 -18.03074 -17.78316 -17.31425 -16.87491 -16.70381 -16.49896 -16.00710 -15.77318 -15.39301 -15.17974 -14.90159 -14.81127 -14.65324 -14.47096 -14.34552 -14.17793 -13.75175 -13.55572 -13.33055 -13.15251 -12.98900 -12.90431 -12.64170 -12.53808 -12.44360 -12.24273 -11.99088 -11.70440 -11.19694 -11.15292 -11.02995 -10.91677 -10.81933 -10.26272 -10.08844 -10.08543 -9.60901 -8.66084 -8.34127 -6.12209 1.27385 1.37828 1.42165 1.47784 1.58801 1.61217 2.18768 2.28191 2.37740 2.58466 2.92687 3.00169 3.25108 3.29522 3.34951 3.54164 3.70771 3.87002 3.99738 4.00384 4.07377 4.14552 4.20736 4.30199 4.31646 4.41120 4.46416 4.52282 4.55550 4.68566 4.71801 4.79966 4.87714 4.94052 5.04706 5.11632 5.15722 5.22775 5.42888 5.44286 5.55523 5.79627 5.87261 5.98617 6.20814 6.50643 7.07343 7.19342 7.24267 8.75390 Molecular weight = 339.14amu Principal moments of inertia in cm(-1) A = 0.030191 B = 0.001596 C = 0.001566 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 927.195890 B =17538.003696 C =17878.234508 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.912 5.912 2 C 0.013 3.987 3 Si 1.000 3.000 4 H -0.256 1.256 5 H -0.274 1.274 6 H -0.275 1.275 7 C -0.545 4.545 8 H 0.084 0.916 9 S -0.154 6.154 10 C -0.129 4.129 11 C 0.533 3.467 12 O -0.568 6.568 13 N -0.709 5.709 14 C 0.155 3.845 15 C -0.128 4.128 16 H 0.119 0.881 17 C -0.141 4.141 18 H 0.132 0.868 19 C 0.065 3.935 20 N -0.494 5.494 21 C 0.035 3.965 22 H 0.077 0.923 23 C -0.120 4.120 24 C 0.103 3.897 25 N -0.717 5.717 26 C 0.518 3.482 27 O -0.583 6.583 28 C 0.069 3.931 29 C -0.160 4.160 30 H 0.117 0.883 31 H 0.271 0.729 32 H 0.112 0.888 33 H 0.110 0.890 34 H 0.417 0.583 35 H 0.060 0.940 36 H 0.064 0.936 37 H 0.062 0.938 38 H 0.112 0.888 39 H 0.113 0.887 40 H 0.104 0.896 41 H 0.107 0.893 42 H 0.082 0.918 43 H 0.416 0.584 44 H 0.044 0.956 45 H 0.069 0.931 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 20.709 -29.624 -7.071 36.830 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 -0.548 5.548 2 C -0.192 4.192 3 Si 0.821 3.179 4 H -0.180 1.180 5 H -0.199 1.199 6 H -0.200 1.200 7 C -0.693 4.693 8 H 0.102 0.898 9 S 0.073 5.927 10 C -0.280 4.280 11 C 0.319 3.681 12 O -0.446 6.446 13 N -0.363 5.363 14 C 0.032 3.968 15 C -0.147 4.147 16 H 0.137 0.863 17 C -0.159 4.159 18 H 0.150 0.850 19 C -0.062 4.062 20 N -0.221 5.221 21 C -0.077 4.077 22 H 0.095 0.905 23 C -0.157 4.157 24 C -0.020 4.020 25 N -0.371 5.371 26 C 0.304 3.696 27 O -0.462 6.462 28 C -0.058 4.058 29 C -0.179 4.179 30 H 0.135 0.865 31 H 0.080 0.920 32 H 0.130 0.870 33 H 0.128 0.872 34 H 0.255 0.745 35 H 0.078 0.922 36 H 0.083 0.917 37 H 0.080 0.920 38 H 0.130 0.870 39 H 0.131 0.869 40 H 0.122 0.878 41 H 0.125 0.875 42 H 0.100 0.900 43 H 0.255 0.745 44 H 0.063 0.937 45 H 0.088 0.912 Dipole moment (debyes) X Y Z Total from point charges 18.232 -30.278 -6.816 35.995 hybrid contribution 1.908 1.399 1.040 2.584 sum 20.140 -28.879 -5.776 35.679 Atomic orbital electron populations 1.70190 1.07995 1.28548 1.48100 1.26136 0.95963 1.03349 0.93755 0.84895 0.78634 0.76299 0.78044 1.17954 1.19910 1.20033 1.23248 0.95389 0.91956 1.58729 0.89810 1.85602 1.10676 0.99327 1.97053 1.23369 1.03514 0.94204 1.06921 1.20073 0.86183 0.86716 0.75094 1.90695 1.17520 1.86138 1.50264 1.45686 1.10366 1.04809 1.75452 1.20762 0.94976 0.79272 1.01813 1.22519 0.99424 0.90379 1.02350 0.86299 1.24381 0.98404 1.01203 0.91949 0.85016 1.23328 0.94115 0.88440 1.00302 1.65576 1.12464 1.29059 1.14957 1.22614 0.91790 0.95179 0.98163 0.90541 1.22855 1.01295 0.95213 0.96372 1.22339 1.03087 0.95706 0.80862 1.46240 1.70442 1.09098 1.11358 1.21059 0.74512 0.87864 0.86207 1.90742 1.51081 1.87587 1.16805 1.22484 0.94338 0.97404 0.91612 1.23335 0.99955 0.92341 1.02285 0.86458 0.92007 0.86959 0.87197 0.74548 0.92190 0.91730 0.91998 0.86962 0.86877 0.87798 0.87497 0.89978 0.74483 0.93726 0.91240 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 -56.09 13.22 21.65 0.29 -55.80 16 2 C 0.01 0.72 5.49 84.86 0.47 1.18 16 3 Si 1.00 43.47 29.55 68.60 2.03 45.49 16 4 H -0.26 -10.35 7.11 99.48 0.71 -9.64 16 5 H -0.27 -11.54 7.11 99.48 0.71 -10.83 16 6 H -0.27 -11.64 7.11 99.48 0.71 -10.93 16 7 C -0.55 -31.07 9.50 67.95 0.65 -30.42 16 8 H 0.08 4.42 7.80 -2.91 -0.02 4.39 16 9 S -0.15 -8.54 20.57 -56.49 -1.16 -9.71 16 10 C -0.13 -5.04 6.16 71.24 0.44 -4.60 16 11 C 0.53 19.49 7.85 87.66 0.69 20.18 16 12 O -0.57 -26.43 15.86 -3.01 -0.05 -26.48 16 13 N -0.71 -17.29 5.56 -463.05 -2.57 -19.87 16 14 C 0.16 3.39 5.95 86.38 0.51 3.90 16 15 C -0.13 -1.91 5.34 -10.80 -0.06 -1.97 16 16 H 0.12 1.55 8.04 -2.38 -0.02 1.53 16 17 C -0.14 -1.76 7.01 -8.77 -0.06 -1.82 16 18 H 0.13 1.61 8.12 -2.39 -0.02 1.59 16 19 C 0.06 0.59 5.66 87.63 0.50 1.08 16 20 N -0.49 -6.27 5.21 -849.43 -4.43 -10.70 16 21 C 0.03 0.38 2.39 44.91 0.11 0.49 16 22 H 0.08 0.90 8.03 -2.39 -0.02 0.88 16 23 C -0.12 -0.36 6.71 31.78 0.21 -0.14 16 24 C 0.10 0.28 7.79 86.95 0.68 0.96 16 25 N -0.72 -6.81 6.24 -459.20 -2.87 -9.68 16 26 C 0.52 8.84 7.49 87.90 0.66 9.49 16 27 O -0.58 -15.62 17.30 -3.05 -0.05 -15.68 16 28 C 0.07 1.18 5.32 86.45 0.46 1.64 16 29 C -0.16 -2.51 6.76 -9.95 -0.07 -2.57 16 30 H 0.12 1.94 8.14 -2.38 -0.02 1.92 16 31 H 0.27 15.42 8.31 -92.71 -0.77 14.65 16 32 H 0.11 3.89 8.14 -2.40 -0.02 3.87 16 33 H 0.11 3.86 8.14 -2.39 -0.02 3.84 16 34 H 0.42 7.15 8.40 -92.71 -0.78 6.37 16 35 H 0.06 1.50 8.14 -2.39 -0.02 1.48 16 36 H 0.06 1.52 7.93 -2.39 -0.02 1.50 16 37 H 0.06 0.49 7.94 -2.39 -0.02 0.47 16 38 H 0.11 0.59 7.27 -2.38 -0.02 0.57 16 39 H 0.11 0.06 6.65 -2.39 -0.02 0.05 16 40 H 0.10 0.01 8.14 -2.39 -0.02 -0.01 16 41 H 0.11 -0.23 8.14 -2.39 -0.02 -0.25 16 42 H 0.08 0.22 8.14 -2.39 -0.02 0.20 16 43 H 0.42 3.04 8.96 -92.71 -0.83 2.20 16 44 H 0.04 0.83 7.98 -2.39 -0.02 0.81 16 45 H 0.07 1.47 7.83 -2.39 -0.02 1.46 16 Total: -1.00 -84.68 384.52 -4.22 -88.90 By element: Atomic # 1 Polarization: 16.69 SS G_CDS: -0.59 Total: 16.11 kcal Atomic # 6 Polarization: -7.77 SS G_CDS: 5.18 Total: -2.59 kcal Atomic # 7 Polarization: -86.47 SS G_CDS: -9.58 Total: -96.05 kcal Atomic # 8 Polarization: -42.06 SS G_CDS: -0.10 Total: -42.16 kcal Atomic # 14 Polarization: 43.47 SS G_CDS: 2.03 Total: 45.49 kcal Atomic # 16 Polarization: -8.54 SS G_CDS: -1.16 Total: -9.71 kcal Total: -84.68 -4.22 -88.90 kcal The number of atoms in the molecule is 45 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. ZINC001485593978.mol2 45 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 32.252 kcal (2) G-P(sol) polarization free energy of solvation -84.680 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -52.428 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -4.224 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -88.904 kcal (6) G-S(sol) free energy of system = (1) + (5) -56.652 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.73 seconds