Wall clock time and date at job start Tue Mar 31 2020 15:10:00 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 1.31511 * 1 3 3 Si 1.86801 * 119.99843 * 2 1 4 4 H 1.48500 * 109.46927 * 270.00210 * 3 2 1 5 5 H 1.48498 * 109.47123 * 30.00283 * 3 2 1 6 6 H 1.48503 * 109.47167 * 150.00021 * 3 2 1 7 7 C 1.37872 * 120.00091 * 180.02562 * 2 1 3 8 8 H 1.08003 * 120.00426 * 359.97438 * 7 2 1 9 9 C 1.50706 * 120.00250 * 180.02562 * 7 2 1 10 10 N 1.46497 * 109.47174 * 179.97438 * 9 7 2 11 11 C 1.34777 * 119.99525 * 179.97438 * 10 9 7 12 12 O 1.21283 * 120.00463 * 0.02562 * 11 10 9 13 13 C 1.50700 * 119.99675 * 179.72583 * 11 10 9 14 14 C 1.53004 * 109.47208 * 180.27843 * 13 11 10 15 15 H 1.08996 * 109.53612 * 305.00143 * 14 13 11 16 16 C 1.53821 * 109.53911 * 184.83498 * 14 13 11 17 17 S 1.82103 * 106.86131 * 174.36258 * 16 14 13 18 18 O 1.42098 * 110.76430 * 154.03924 * 17 16 14 19 19 O 1.42100 * 110.76414 * 291.55918 * 17 16 14 20 20 C 1.76703 * 102.90335 * 42.79967 * 17 16 14 21 21 C 1.38247 * 119.07841 * 166.86512 * 20 17 16 22 22 C 1.38166 * 120.28597 * 179.55153 * 21 20 17 23 23 C 1.38293 * 119.68000 * 359.88578 * 22 21 20 24 24 C 1.37796 * 120.16618 * 0.27820 * 23 22 21 25 25 C 1.38426 * 120.42480 * 346.80268 * 20 17 16 26 26 O 1.35155 * 123.60005 * 1.84233 * 25 20 17 27 27 H 0.97004 * 120.00400 * 359.97438 * 1 2 3 28 28 H 1.08995 * 109.46956 * 59.99427 * 9 7 2 29 29 H 1.09001 * 109.46317 * 299.99874 * 9 7 2 30 30 H 0.97000 * 120.00580 * 0.02562 * 10 9 7 31 31 H 1.09009 * 109.47352 * 300.27556 * 13 11 10 32 32 H 1.08998 * 109.47585 * 60.27844 * 13 11 10 33 33 H 1.09002 * 109.97836 * 293.70155 * 16 14 13 34 34 H 1.09004 * 109.97378 * 55.03127 * 16 14 13 35 35 H 1.07999 * 119.85431 * 359.57584 * 21 20 17 36 36 H 1.07996 * 120.15825 * 179.89844 * 22 21 20 37 37 H 1.07997 * 119.91428 * 180.25853 * 23 22 21 38 38 H 1.08003 * 119.73632 * 180.02562 * 24 23 22 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 1.3151 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 2.4965 2.0464 -1.4001 5 1 1.4465 2.6527 0.7001 6 1 3.5467 1.4402 0.7000 7 6 2.0045 -1.1940 -0.0005 8 1 1.4646 -2.1294 -0.0005 9 6 3.5116 -1.1940 0.0000 10 7 3.9998 -2.5752 -0.0001 11 6 5.3249 -2.8214 -0.0001 12 8 6.1131 -1.8996 0.0004 13 6 5.8273 -4.2422 0.0060 14 6 7.3573 -4.2422 0.0116 15 1 7.7249 -3.6555 -0.8302 16 6 7.8722 -5.6870 -0.1043 17 16 9.6839 -5.5911 -0.2616 18 8 10.2944 -6.7842 0.2107 19 8 10.0517 -5.0181 -1.5089 20 6 10.1196 -4.3661 0.9350 21 6 11.4466 -4.2194 1.2938 22 6 11.8163 -3.2632 2.2201 23 6 10.8520 -2.4498 2.7867 24 6 9.5281 -2.5959 2.4336 25 6 9.1452 -3.5641 1.5038 26 8 7.8274 -3.6767 1.2255 27 1 -0.4851 0.8400 0.0004 28 1 3.8745 -0.6807 0.8904 29 1 3.8751 -0.6796 -0.8895 30 1 3.3696 -3.3126 -0.0009 31 1 5.4607 -4.7534 0.8963 32 1 5.4673 -4.7588 -0.8837 33 1 7.6054 -6.2504 0.7899 34 1 7.4467 -6.1643 -0.9871 35 1 12.1975 -4.8547 0.8479 36 1 12.8533 -3.1515 2.5001 37 1 11.1373 -1.6984 3.5080 38 1 8.7809 -1.9567 2.8801 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC001156060248.mol2 38 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 15:10:00 Heat of formation + Delta-G solvation = -137.924307 kcal Electronic energy + Delta-G solvation = -25091.252322 eV Core-core repulsion = 21218.526334 eV Total energy + Delta-G solvation = -3872.725988 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 325.086 amu Computer time = 0.64 seconds Orbital eigenvalues (eV) -41.66821 -40.44526 -38.93323 -38.24118 -37.18003 -36.15235 -34.62038 -34.34591 -32.35049 -31.06688 -30.74339 -28.92006 -25.23122 -24.38881 -23.76122 -22.67792 -21.44134 -20.24614 -19.76410 -19.18504 -18.43911 -18.12610 -17.53983 -17.02279 -16.99638 -16.73816 -16.39738 -16.21386 -15.98848 -15.71915 -15.31668 -15.02341 -14.75306 -14.33473 -14.25261 -14.17990 -13.65270 -13.52663 -13.37494 -13.25427 -13.24079 -13.02757 -12.92879 -12.66898 -12.64992 -12.18415 -11.94730 -11.81090 -11.64185 -11.55850 -10.92072 -10.79654 -10.48141 -9.90254 -9.49205 -8.40166 -6.46594 -1.11253 -0.23150 0.21641 1.31798 1.34761 1.46430 1.56144 1.69454 1.79998 2.27281 2.34300 2.42069 2.50713 2.89679 2.95690 3.32311 3.54222 3.57960 3.71840 3.97510 3.98552 4.18089 4.19759 4.27184 4.32947 4.52424 4.58539 4.73321 4.75983 4.81726 4.88030 5.04575 5.11525 5.27566 5.32914 5.54434 5.63074 6.08904 6.28523 6.55288 6.86531 7.16505 7.45060 8.74471 Molecular weight = 325.09amu Principal moments of inertia in cm(-1) A = 0.020429 B = 0.003057 C = 0.002774 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1370.242604 B = 9157.584604 C =10090.044038 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.931 5.931 2 C 0.026 3.974 3 Si 0.935 3.065 4 H -0.266 1.266 5 H -0.274 1.274 6 H -0.262 1.262 7 C -0.544 4.544 8 H 0.062 0.938 9 C 0.231 3.769 10 N -0.705 5.705 11 C 0.494 3.506 12 O -0.591 6.591 13 C -0.119 4.119 14 C 0.112 3.888 15 H 0.087 0.913 16 C -0.615 4.615 17 S 2.504 3.496 18 O -0.953 6.953 19 O -0.962 6.962 20 C -0.735 4.735 21 C -0.015 4.015 22 C -0.166 4.166 23 C -0.034 4.034 24 C -0.184 4.184 25 C 0.204 3.796 26 O -0.315 6.315 27 H 0.272 0.728 28 H 0.009 0.991 29 H 0.010 0.990 30 H 0.412 0.588 31 H 0.141 0.859 32 H 0.167 0.833 33 H 0.185 0.815 34 H 0.204 0.796 35 H 0.147 0.853 36 H 0.167 0.833 37 H 0.167 0.833 38 H 0.135 0.865 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 21.045 -13.550 3.536 25.279 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 -0.570 5.570 2 C -0.174 4.174 3 Si 0.759 3.241 4 H -0.191 1.191 5 H -0.199 1.199 6 H -0.186 1.186 7 C -0.582 4.582 8 H 0.081 0.919 9 C 0.107 3.893 10 N -0.356 5.356 11 C 0.282 3.718 12 O -0.473 6.473 13 C -0.159 4.159 14 C 0.055 3.945 15 H 0.105 0.895 16 C -0.747 4.747 17 S 2.687 3.313 18 O -0.950 6.950 19 O -0.960 6.960 20 C -0.822 4.822 21 C -0.034 4.034 22 C -0.184 4.184 23 C -0.052 4.052 24 C -0.203 4.203 25 C 0.157 3.843 26 O -0.228 6.228 27 H 0.081 0.919 28 H 0.027 0.973 29 H 0.028 0.972 30 H 0.248 0.752 31 H 0.159 0.841 32 H 0.184 0.816 33 H 0.203 0.797 34 H 0.221 0.779 35 H 0.165 0.835 36 H 0.184 0.816 37 H 0.185 0.815 38 H 0.153 0.847 Dipole moment (debyes) X Y Z Total from point charges 21.861 -13.184 3.094 25.716 hybrid contribution -0.784 1.214 0.392 1.498 sum 21.077 -11.970 3.486 24.488 Atomic orbital electron populations 1.69975 1.07648 1.28555 1.50851 1.25576 0.95492 1.02583 0.93734 0.85897 0.79227 0.79612 0.79379 1.19085 1.19946 1.18626 1.21315 0.90015 0.94585 1.52317 0.91948 1.19061 0.93268 0.81462 0.95503 1.45996 1.06859 1.09582 1.73114 1.21315 0.82092 0.92733 0.75682 1.90683 1.56227 1.48322 1.52033 1.21889 0.90821 0.93181 1.09986 1.22128 0.96587 0.89959 0.85863 0.89490 1.31017 1.21463 1.04436 1.17819 1.05113 0.78900 0.73676 0.73593 1.93571 1.74551 1.45588 1.81293 1.93593 1.82087 1.78392 1.41893 1.30249 1.02363 1.23065 1.26557 1.20907 0.92651 0.95820 0.93976 1.21588 1.01708 0.96765 0.98386 1.21605 0.90942 0.96717 0.95949 1.21203 0.98292 0.98977 1.01841 1.18539 0.81388 0.91424 0.92945 1.85400 1.20005 1.78067 1.39328 0.91894 0.97272 0.97187 0.75214 0.84135 0.81577 0.79739 0.77865 0.83482 0.81566 0.81540 0.84688 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 17. 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 -54.77 13.96 21.45 0.30 -54.47 16 2 C 0.03 1.47 5.47 84.65 0.46 1.93 16 3 Si 0.93 43.53 27.47 68.60 1.88 45.42 16 4 H -0.27 -12.01 7.11 99.48 0.71 -11.30 16 5 H -0.27 -12.30 7.11 99.48 0.71 -11.59 16 6 H -0.26 -12.14 6.54 99.48 0.65 -11.49 16 7 C -0.54 -29.11 9.83 25.60 0.25 -28.86 16 8 H 0.06 3.47 7.84 -2.91 -0.02 3.45 16 9 C 0.23 10.90 4.50 85.64 0.39 11.29 16 10 N -0.71 -25.44 5.55 -466.79 -2.59 -28.03 16 11 C 0.49 16.10 7.71 87.66 0.68 16.77 16 12 O -0.59 -24.90 15.43 10.72 0.17 -24.73 16 13 C -0.12 -2.10 5.42 29.85 0.16 -1.94 16 14 C 0.11 2.22 2.22 30.87 0.07 2.28 16 15 H 0.09 2.00 7.94 -2.39 -0.02 1.98 16 16 C -0.62 -6.69 6.14 72.26 0.44 -6.25 16 17 S 2.50 48.81 5.40 -56.49 -0.30 48.51 16 18 O -0.95 -22.26 17.84 -127.69 -2.28 -24.54 16 19 O -0.96 -25.33 17.96 -127.69 -2.29 -27.62 16 20 C -0.74 -16.88 5.71 22.32 0.13 -16.75 16 21 C -0.01 -0.30 9.56 22.25 0.21 -0.09 16 22 C -0.17 -2.74 10.07 22.27 0.22 -2.51 16 23 C -0.03 -0.60 10.02 22.18 0.22 -0.38 16 24 C -0.18 -4.34 9.90 22.49 0.22 -4.12 16 25 C 0.20 5.17 6.52 22.64 0.15 5.32 16 26 O -0.31 -8.06 8.70 -70.54 -0.61 -8.67 16 27 H 0.27 14.93 8.31 -92.71 -0.77 14.16 16 28 H 0.01 0.47 7.20 -2.39 -0.02 0.45 16 29 H 0.01 0.50 7.57 -2.39 -0.02 0.49 16 30 H 0.41 12.31 8.32 -92.71 -0.77 11.54 16 31 H 0.14 1.73 8.14 -2.38 -0.02 1.71 16 32 H 0.17 1.45 8.14 -2.39 -0.02 1.43 16 33 H 0.18 1.03 8.14 -2.39 -0.02 1.01 16 34 H 0.20 0.45 8.14 -2.39 -0.02 0.43 16 35 H 0.15 2.44 8.06 -2.91 -0.02 2.41 16 36 H 0.17 1.55 8.06 -2.91 -0.02 1.53 16 37 H 0.17 1.75 8.06 -2.91 -0.02 1.72 16 38 H 0.14 3.20 8.06 -2.91 -0.02 3.18 16 Total: -1.00 -84.48 338.10 -1.85 -86.33 By element: Atomic # 1 Polarization: 10.84 SS G_CDS: 0.27 Total: 11.11 kcal Atomic # 6 Polarization: -26.90 SS G_CDS: 3.61 Total: -23.30 kcal Atomic # 7 Polarization: -80.20 SS G_CDS: -2.29 Total: -82.50 kcal Atomic # 8 Polarization: -80.55 SS G_CDS: -5.02 Total: -85.57 kcal Atomic # 14 Polarization: 43.53 SS G_CDS: 1.88 Total: 45.42 kcal Atomic # 16 Polarization: 48.81 SS G_CDS: -0.30 Total: 48.51 kcal Total: -84.48 -1.85 -86.33 kcal The number of atoms in the molecule is 38 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. ZINC001156060248.mol2 38 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 -51.597 kcal (2) G-P(sol) polarization free energy of solvation -84.477 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -136.074 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.850 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -86.327 kcal (6) G-S(sol) free energy of system = (1) + (5) -137.924 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.64 seconds