Wall clock time and date at job start Mon Mar 30 2020 01:40:58 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 1.31522 * 1 3 3 Si 1.86796 * 119.99628 * 2 1 4 4 H 1.48502 * 109.47591 * 270.00615 * 3 2 1 5 5 H 1.48505 * 109.46984 * 30.00661 * 3 2 1 6 6 H 1.48504 * 109.46982 * 150.00358 * 3 2 1 7 7 C 1.37875 * 120.00281 * 180.02562 * 2 1 3 8 8 H 1.07998 * 120.00272 * 179.97438 * 7 2 1 9 9 C 1.50699 * 119.99731 * 359.97438 * 7 2 1 10 10 C 1.53001 * 109.47013 * 180.02562 * 9 7 2 11 11 S 1.81398 * 109.47332 * 180.02562 * 10 9 7 12 12 C 1.81399 * 103.00251 * 174.85775 * 11 10 9 13 13 H 1.09005 * 109.06790 * 308.64005 * 12 11 10 14 14 C 1.52777 * 109.08373 * 67.69409 * 12 11 10 15 15 C 1.52983 * 108.50420 * 211.99018 * 14 12 11 16 16 C 1.52567 * 109.64559 * 299.12943 * 15 14 12 17 17 C 1.53089 * 107.82757 * 326.89959 * 16 15 14 18 18 C 1.50583 * 110.88365 * 93.25509 * 17 16 15 19 19 C 1.39010 * 117.44489 * 130.53643 * 18 17 16 20 20 C 1.37917 * 120.54134 * 177.42529 * 19 18 17 21 21 C 1.38265 * 119.69477 * 0.07110 * 20 19 18 22 22 C 1.37881 * 119.77430 * 0.55026 * 21 20 19 23 23 C 1.37301 * 122.72672 * 309.01473 * 18 17 16 24 24 H 0.96998 * 119.99831 * 359.97438 * 1 2 3 25 25 H 1.08999 * 109.47460 * 60.00371 * 9 7 2 26 26 H 1.09000 * 109.47753 * 299.99972 * 9 7 2 27 27 H 1.09000 * 109.47563 * 59.99655 * 10 9 7 28 28 H 1.09006 * 109.46840 * 299.99701 * 10 9 7 29 29 H 1.09001 * 109.62441 * 92.29010 * 14 12 11 30 30 H 1.08993 * 109.63046 * 331.69755 * 14 12 11 31 31 H 1.09002 * 109.43786 * 59.17761 * 15 14 12 32 32 H 1.09007 * 109.43190 * 179.08532 * 15 14 12 33 33 H 1.08994 * 109.79249 * 86.51772 * 16 15 14 34 34 H 1.09004 * 109.79380 * 207.36158 * 16 15 14 35 35 H 1.08998 * 109.19848 * 332.90035 * 17 16 15 36 36 H 1.08999 * 109.21431 * 213.61524 * 17 16 15 37 37 H 1.08000 * 119.73154 * 357.40329 * 19 18 17 38 38 H 1.07999 * 120.15197 * 180.10123 * 20 19 18 39 39 H 1.08000 * 120.11570 * 180.56554 * 21 20 19 40 40 H 1.07996 * 119.69791 * 179.83068 * 22 21 20 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 2.2491 1.6178 0.0000 4 1 2.4965 2.0466 -1.4000 5 1 1.4465 2.6526 0.7002 6 1 3.5467 1.4402 0.7000 7 6 2.0047 -1.1940 -0.0005 8 1 3.0846 -1.1940 -0.0010 9 6 1.2512 -2.4991 -0.0005 10 6 2.2454 -3.6620 -0.0005 11 16 1.3385 -5.2330 -0.0013 12 6 2.6591 -6.4665 -0.1596 13 1 3.2944 -6.2016 -1.0049 14 6 3.4993 -6.4654 1.1164 15 6 4.9419 -6.8172 0.7482 16 6 4.9867 -8.2071 0.1206 17 6 3.8963 -9.0548 0.7809 18 6 2.6189 -9.0007 -0.0147 19 6 2.0017 -10.2086 -0.3185 20 6 0.8018 -10.2311 -0.9981 21 6 0.2093 -9.0421 -1.3814 22 6 0.8277 -7.8443 -1.0914 23 6 2.0421 -7.8202 -0.4133 24 1 -0.4850 0.8400 0.0004 25 1 0.6242 -2.5567 -0.8903 26 1 0.6248 -2.5571 0.8896 27 1 2.8722 -3.6043 0.8894 28 1 2.8721 -3.6042 -0.8906 29 1 3.1080 -7.2068 1.8130 30 1 3.4688 -5.4766 1.5740 31 1 5.3233 -6.0852 0.0362 32 1 5.5589 -6.8047 1.6467 33 1 4.8003 -8.1345 -0.9508 34 1 5.9625 -8.6601 0.2964 35 1 3.7085 -8.6776 1.7861 36 1 4.2351 -10.0889 0.8445 37 1 2.4657 -11.1371 -0.0202 38 1 0.3270 -11.1731 -1.2295 39 1 -0.7348 -9.0514 -1.9058 40 1 0.3652 -6.9164 -1.3938 RHF calculation, no. of doubly occupied orbitals= 49 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) 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 ZINC000359030115.mol2 40 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 01:40:58 Heat of formation + Delta-G solvation = -15.286686 kcal Electronic energy + Delta-G solvation = -18727.521565 eV Core-core repulsion = 16017.419125 eV Total energy + Delta-G solvation = -2710.102440 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 276.124 amu Computer time = 0.58 seconds Orbital eigenvalues (eV) -41.08844 -37.69811 -35.79543 -33.91969 -32.95887 -32.12214 -30.48881 -27.36223 -26.43730 -25.60671 -23.43853 -23.01227 -21.38695 -20.66934 -18.69018 -17.71581 -17.03924 -16.72550 -16.52681 -16.38253 -15.67963 -15.46417 -15.07504 -14.82323 -14.53099 -14.32684 -13.84912 -13.70256 -13.58915 -13.50734 -13.15795 -12.96477 -12.59691 -12.42464 -12.25896 -12.12058 -11.72733 -11.71433 -11.62909 -11.53739 -11.34905 -11.16300 -10.66441 -10.61915 -9.67018 -9.49035 -8.62664 -8.24486 -6.38447 0.30689 0.47608 0.86147 1.39764 1.41555 1.52848 1.73571 2.39313 2.85115 3.08607 3.52948 3.67590 3.94308 3.97716 4.04301 4.18085 4.22678 4.23743 4.31375 4.36794 4.41230 4.48719 4.65725 4.78143 4.81940 4.84486 4.89259 4.97791 5.05340 5.11779 5.22396 5.31531 5.32861 5.35925 5.47243 5.48788 5.60114 5.64884 5.71876 5.72834 6.09441 6.12919 6.75590 7.31178 8.87381 Molecular weight = 276.12amu Principal moments of inertia in cm(-1) A = 0.027637 B = 0.003962 C = 0.003535 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1012.887111 B = 7066.159229 C = 7918.298284 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.932 5.932 2 C 0.002 3.998 3 Si 0.972 3.028 4 H -0.271 1.271 5 H -0.281 1.281 6 H -0.260 1.260 7 C -0.543 4.543 8 H 0.066 0.934 9 C 0.046 3.954 10 C -0.052 4.052 11 S -0.302 6.302 12 C 0.004 3.996 13 H 0.087 0.913 14 C -0.116 4.116 15 C -0.118 4.118 16 C -0.112 4.112 17 C -0.086 4.086 18 C -0.072 4.072 19 C -0.125 4.125 20 C -0.119 4.119 21 C -0.133 4.133 22 C -0.134 4.134 23 C -0.076 4.076 24 H 0.266 0.734 25 H -0.005 1.005 26 H -0.005 1.005 27 H 0.075 0.925 28 H 0.070 0.930 29 H 0.087 0.913 30 H 0.057 0.943 31 H 0.057 0.943 32 H 0.083 0.917 33 H 0.053 0.947 34 H 0.090 0.910 35 H 0.084 0.916 36 H 0.093 0.907 37 H 0.151 0.849 38 H 0.149 0.851 39 H 0.134 0.866 40 H 0.116 0.884 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 9.279 -22.521 0.297 24.360 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 -0.572 5.572 2 C -0.197 4.197 3 Si 0.796 3.204 4 H -0.196 1.196 5 H -0.206 1.206 6 H -0.184 1.184 7 C -0.582 4.582 8 H 0.085 0.915 9 C 0.008 3.992 10 C -0.199 4.199 11 S -0.070 6.070 12 C -0.124 4.124 13 H 0.105 0.895 14 C -0.155 4.155 15 C -0.157 4.157 16 C -0.150 4.150 17 C -0.123 4.123 18 C -0.073 4.073 19 C -0.142 4.142 20 C -0.137 4.137 21 C -0.151 4.151 22 C -0.153 4.153 23 C -0.077 4.077 24 H 0.075 0.925 25 H 0.013 0.987 26 H 0.013 0.987 27 H 0.093 0.907 28 H 0.089 0.911 29 H 0.105 0.895 30 H 0.076 0.924 31 H 0.076 0.924 32 H 0.101 0.899 33 H 0.072 0.928 34 H 0.109 0.891 35 H 0.102 0.898 36 H 0.111 0.889 37 H 0.168 0.832 38 H 0.167 0.833 39 H 0.151 0.849 40 H 0.134 0.866 Dipole moment (debyes) X Y Z Total from point charges 8.012 -22.542 0.373 23.926 hybrid contribution 0.850 1.641 -0.330 1.877 sum 8.862 -20.901 0.043 22.702 Atomic orbital electron populations 1.70121 1.08009 1.28074 1.50950 1.26032 0.95782 1.03557 0.94287 0.85342 0.78634 0.77823 0.78614 1.19621 1.20644 1.18391 1.21541 0.93656 0.91376 1.51638 0.91538 1.18657 0.93635 0.91492 0.95419 1.23355 1.00198 0.92882 1.03507 1.87009 1.19862 1.03052 1.97111 1.22047 0.95820 0.92738 1.01830 0.89476 1.22102 0.95590 1.02429 0.95413 1.21651 0.94732 0.97630 1.01691 1.21539 0.99262 0.94660 0.99491 1.20815 0.90860 1.02033 0.98544 1.19777 0.97524 0.91628 0.98407 1.21566 0.95834 0.97666 0.99166 1.21453 0.95858 0.98544 0.97809 1.21305 1.00675 0.92349 1.00798 1.21592 0.95617 0.99120 0.99000 1.19190 0.95657 0.92495 1.00404 0.92550 0.98664 0.98708 0.90686 0.91096 0.89473 0.92385 0.92401 0.89866 0.92795 0.89133 0.89778 0.88892 0.83173 0.83338 0.84850 0.86613 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 -0.93 -57.71 13.29 21.45 0.28 -57.43 16 2 C 0.00 0.11 5.46 84.65 0.46 0.57 16 3 Si 0.97 44.27 29.54 68.60 2.03 46.30 16 4 H -0.27 -11.89 7.11 99.48 0.71 -11.19 16 5 H -0.28 -12.52 7.11 99.48 0.71 -11.81 16 6 H -0.26 -11.19 7.11 99.48 0.71 -10.48 16 7 C -0.54 -31.27 9.11 25.60 0.23 -31.04 16 8 H 0.07 3.61 7.74 -2.91 -0.02 3.59 16 9 C 0.05 2.56 4.98 29.85 0.15 2.71 16 10 C -0.05 -2.26 5.58 71.98 0.40 -1.86 16 11 S -0.30 -11.79 18.69 -56.49 -1.06 -12.85 16 12 C 0.00 0.11 2.29 29.84 0.07 0.18 16 13 H 0.09 2.61 7.70 -2.40 -0.02 2.59 16 14 C -0.12 -2.94 5.08 30.51 0.15 -2.78 16 15 C -0.12 -2.26 5.64 30.44 0.17 -2.09 16 16 C -0.11 -1.80 5.75 30.48 0.18 -1.63 16 17 C -0.09 -1.38 5.18 29.84 0.15 -1.22 16 18 C -0.07 -1.55 5.13 -19.94 -0.10 -1.66 16 19 C -0.12 -2.27 9.56 22.38 0.21 -2.05 16 20 C -0.12 -2.24 10.05 22.20 0.22 -2.01 16 21 C -0.13 -3.14 10.05 22.19 0.22 -2.92 16 22 C -0.13 -3.91 8.96 22.40 0.20 -3.71 16 23 C -0.08 -2.10 5.35 -19.81 -0.11 -2.21 16 24 H 0.27 15.37 8.31 -92.71 -0.77 14.60 16 25 H -0.01 -0.30 8.14 -2.39 -0.02 -0.32 16 26 H -0.01 -0.33 8.14 -2.39 -0.02 -0.35 16 27 H 0.07 3.13 7.14 -2.39 -0.02 3.11 16 28 H 0.07 2.98 8.14 -2.39 -0.02 2.96 16 29 H 0.09 2.08 5.38 -2.39 -0.01 2.07 16 30 H 0.06 1.67 6.50 -2.39 -0.02 1.66 16 31 H 0.06 1.19 8.05 -2.39 -0.02 1.17 16 32 H 0.08 1.33 8.14 -2.38 -0.02 1.31 16 33 H 0.05 1.01 7.80 -2.39 -0.02 0.99 16 34 H 0.09 1.06 8.14 -2.38 -0.02 1.04 16 35 H 0.08 1.38 5.77 -2.39 -0.01 1.37 16 36 H 0.09 1.04 7.71 -2.39 -0.02 1.02 16 37 H 0.15 1.77 7.81 -2.91 -0.02 1.75 16 38 H 0.15 1.88 8.06 -2.91 -0.02 1.86 16 39 H 0.13 2.66 8.06 -2.91 -0.02 2.64 16 40 H 0.12 3.85 6.31 -2.98 -0.02 3.84 16 Total: -1.00 -67.19 324.03 4.89 -62.30 By element: Atomic # 1 Polarization: 12.38 SS G_CDS: 1.01 Total: 13.39 kcal Atomic # 6 Polarization: -54.34 SS G_CDS: 2.62 Total: -51.72 kcal Atomic # 7 Polarization: -57.71 SS G_CDS: 0.28 Total: -57.43 kcal Atomic # 14 Polarization: 44.27 SS G_CDS: 2.03 Total: 46.30 kcal Atomic # 16 Polarization: -11.79 SS G_CDS: -1.06 Total: -12.85 kcal Total: -67.19 4.89 -62.30 kcal The number of atoms in the molecule is 40 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. ZINC000359030115.mol2 40 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 47.017 kcal (2) G-P(sol) polarization free energy of solvation -67.190 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -20.173 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.886 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -62.304 kcal (6) G-S(sol) free energy of system = (1) + (5) -15.287 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.58 seconds