Wall clock time and date at job start Wed Apr 1 2020 05:29:25 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 1.31516 * 1 3 3 Si 1.86800 * 120.00017 * 2 1 4 4 H 1.48501 * 109.47057 * 359.97438 * 3 2 1 5 5 H 1.48500 * 109.47389 * 119.99828 * 3 2 1 6 6 H 1.48504 * 109.47102 * 240.00177 * 3 2 1 7 7 C 1.37871 * 120.00217 * 179.97438 * 2 1 3 8 8 H 1.08005 * 120.00140 * 180.02562 * 7 2 1 9 9 C 1.50706 * 120.00102 * 0.02562 * 7 2 1 10 10 C 1.52998 * 109.47348 * 179.97438 * 9 7 2 11 11 S 1.81399 * 109.47111 * 180.02562 * 10 9 7 12 12 O 1.42106 * 110.54100 * 291.62280 * 11 10 9 13 13 O 1.42100 * 110.54266 * 68.37418 * 11 10 9 14 14 N 1.65599 * 104.44810 * 180.02562 * 11 10 9 15 15 C 1.34772 * 120.00110 * 64.99735 * 14 11 10 16 16 O 1.21284 * 120.00168 * 0.02562 * 15 14 11 17 17 C 1.50709 * 119.99747 * 179.97438 * 15 14 11 18 18 C 1.53652 * 112.53777 * 56.31675 * 17 15 14 19 19 C 1.54071 * 101.00866 * 91.29213 * 18 17 15 20 20 C 1.51123 * 104.43894 * 25.68612 * 19 18 17 21 21 O 1.21278 * 124.73032 * 169.23109 * 20 19 18 22 22 N 1.35824 * 110.54199 * 349.21659 * 20 19 18 23 23 C 1.46839 * 138.49583 * 165.20812 * 22 20 19 24 24 C 1.54427 * 113.56256 * 195.65835 * 23 22 20 25 25 S 1.83544 * 112.61782 * 289.95533 * 17 15 14 26 26 H 0.97001 * 119.99646 * 179.97438 * 1 2 3 27 27 H 1.09001 * 109.46564 * 300.00328 * 9 7 2 28 28 H 1.09006 * 109.46863 * 59.99666 * 9 7 2 29 29 H 1.09000 * 109.46986 * 300.00089 * 10 9 7 30 30 H 1.09002 * 109.46857 * 60.00224 * 10 9 7 31 31 H 0.97002 * 119.99347 * 244.99779 * 14 11 10 32 32 H 1.09006 * 111.18353 * 208.37434 * 18 17 15 33 33 H 1.08994 * 111.18607 * 332.68654 * 18 17 15 34 34 H 1.09003 * 109.98156 * 267.13976 * 19 18 17 35 35 H 1.08998 * 110.91331 * 144.70657 * 19 18 17 36 36 H 1.09007 * 108.67661 * 316.73259 * 23 22 20 37 37 H 1.08996 * 108.67634 * 74.75677 * 23 22 20 38 38 H 1.08999 * 110.98851 * 135.57817 * 24 23 22 39 39 H 1.09000 * 110.98690 * 259.38996 * 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 1.3152 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 1.2842 2.7465 -0.0006 5 1 3.1029 1.6965 1.2125 6 1 3.1029 1.6964 -1.2125 7 6 2.0046 -1.1940 0.0005 8 1 3.0846 -1.1940 0.0010 9 6 1.2511 -2.4992 0.0005 10 6 2.2454 -3.6621 0.0005 11 16 1.3384 -5.2330 -0.0002 12 8 0.6640 -5.4200 1.2366 13 8 0.6648 -5.4193 -1.2375 14 7 2.5206 -6.3927 0.0006 15 6 3.3463 -6.5124 1.0589 16 8 3.2233 -5.7713 2.0110 17 6 4.4218 -7.5682 1.0598 18 6 5.3596 -7.4546 -0.1521 19 6 6.4612 -6.5378 0.4133 20 6 6.4149 -6.7694 1.9060 21 8 7.2483 -6.3730 2.6929 22 7 5.3097 -7.4832 2.2435 23 6 4.7986 -8.2410 3.3926 24 6 3.6094 -9.1627 3.0447 25 16 3.7432 -9.2670 1.2087 26 1 -0.4850 -0.8401 -0.0004 27 1 0.6241 -2.5566 0.8903 28 1 0.6247 -2.5571 -0.8897 29 1 2.8720 -3.6043 -0.8894 30 1 2.8720 -3.6043 0.8906 31 1 2.6187 -6.9856 -0.7608 32 1 5.7755 -8.4257 -0.4207 33 1 4.8521 -6.9973 -1.0013 34 1 6.2348 -5.4970 0.1818 35 1 7.4381 -6.8121 0.0150 36 1 5.6069 -8.8512 3.7958 37 1 4.4781 -7.5368 4.1604 38 1 3.7302 -10.1450 3.5014 39 1 2.6639 -8.7092 3.3421 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 ZINC000776123553.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 05:29:25 Heat of formation + Delta-G solvation = -156.051506 kcal Electronic energy + Delta-G solvation = -27260.395594 eV Core-core repulsion = 23227.760790 eV Total energy + Delta-G solvation = -4032.634804 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 348.069 amu Computer time = 0.74 seconds Orbital eigenvalues (eV) -42.46882 -40.61577 -38.48737 -37.94866 -37.39366 -36.39308 -36.12259 -34.97898 -33.08047 -30.83546 -29.62781 -27.19196 -25.56896 -24.45379 -23.95701 -22.78025 -21.19205 -20.69152 -19.88136 -19.47619 -18.77995 -18.46238 -17.70458 -17.43247 -17.08745 -16.79193 -16.64519 -16.19280 -15.77471 -15.67440 -15.39966 -15.26391 -15.00357 -14.90934 -14.64725 -14.25945 -14.08568 -13.92454 -13.75329 -13.52486 -13.41646 -13.06781 -12.93587 -12.68599 -12.56322 -12.50232 -12.42485 -12.30831 -12.07894 -11.98574 -11.87763 -11.57445 -11.20136 -10.78569 -10.64317 -10.14877 -9.16010 -8.77584 -6.51823 -1.22423 -0.18660 0.59879 0.94692 1.00001 1.27257 1.51614 1.52361 1.60575 1.79858 2.34820 2.53803 2.57854 2.72583 2.96865 3.02347 3.07067 3.42057 3.55208 3.72238 3.75365 3.79136 3.85975 4.15382 4.29314 4.43119 4.43897 4.52807 4.62885 4.70223 4.81091 4.91435 4.93150 4.96012 5.36644 5.73223 5.76483 6.02844 6.04515 6.42049 6.74804 7.30281 8.62510 Molecular weight = 348.07amu Principal moments of inertia in cm(-1) A = 0.014409 B = 0.003578 C = 0.003149 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1942.743252 B = 7824.467723 C = 8888.785532 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.933 5.933 2 C -0.038 4.038 3 Si 1.120 2.880 4 H -0.283 1.283 5 H -0.271 1.271 6 H -0.260 1.260 7 C -0.614 4.614 8 H 0.066 0.934 9 C 0.006 3.994 10 C -0.574 4.574 11 S 2.600 3.400 12 O -0.973 6.973 13 O -0.958 6.958 14 N -1.024 6.024 15 C 0.544 3.456 16 O -0.505 6.505 17 C 0.133 3.867 18 C -0.102 4.102 19 C -0.143 4.143 20 C 0.535 3.465 21 O -0.557 6.557 22 N -0.610 5.610 23 C 0.111 3.889 24 C -0.081 4.081 25 S -0.192 6.192 26 H 0.256 0.744 27 H 0.000 1.000 28 H 0.016 0.984 29 H 0.159 0.841 30 H 0.131 0.869 31 H 0.453 0.547 32 H 0.141 0.859 33 H 0.135 0.865 34 H 0.120 0.880 35 H 0.153 0.847 36 H 0.108 0.892 37 H 0.070 0.930 38 H 0.164 0.836 39 H 0.100 0.900 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 13.942 -23.828 -2.137 27.690 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 -0.236 4.236 3 Si 0.940 3.060 4 H -0.209 1.209 5 H -0.196 1.196 6 H -0.184 1.184 7 C -0.653 4.653 8 H 0.084 0.916 9 C -0.033 4.033 10 C -0.707 4.707 11 S 2.698 3.302 12 O -0.963 6.963 13 O -0.949 6.949 14 N -0.791 5.791 15 C 0.325 3.675 16 O -0.377 6.377 17 C -0.070 4.070 18 C -0.140 4.140 19 C -0.184 4.184 20 C 0.326 3.674 21 O -0.434 6.434 22 N -0.347 5.347 23 C -0.011 4.011 24 C -0.229 4.229 25 S 0.037 5.963 26 H 0.065 0.935 27 H 0.018 0.982 28 H 0.034 0.966 29 H 0.177 0.823 30 H 0.149 0.851 31 H 0.294 0.706 32 H 0.159 0.841 33 H 0.153 0.847 34 H 0.138 0.862 35 H 0.170 0.830 36 H 0.126 0.874 37 H 0.088 0.912 38 H 0.182 0.818 39 H 0.119 0.881 Dipole moment (debyes) X Y Z Total from point charges 12.980 -22.639 -1.644 26.148 hybrid contribution 0.198 -0.646 1.033 1.234 sum 13.178 -23.285 -0.612 26.763 Atomic orbital electron populations 1.70926 1.08091 1.29976 1.47998 1.27594 0.96548 1.07140 0.92338 0.82909 0.74142 0.70621 0.78321 1.20875 1.19598 1.18437 1.22279 0.95178 0.91756 1.56078 0.91573 1.18995 0.94166 0.94081 0.96020 1.30163 1.12706 1.15075 1.12724 1.05500 0.74603 0.76668 0.73407 1.93562 1.71509 1.84756 1.46445 1.93591 1.70801 1.85306 1.45156 1.54753 1.47598 1.49418 1.27362 1.20798 0.81828 0.83969 0.80937 1.90963 1.69561 1.43497 1.33671 1.24275 0.93299 0.94190 0.95223 1.22770 0.93121 1.04733 0.93392 1.22496 1.04196 1.03720 0.87977 1.21974 0.78075 0.74732 0.92658 1.90727 1.42884 1.51463 1.58279 1.49829 1.19406 1.53237 1.12269 1.21771 0.97742 0.94745 0.86872 1.24939 1.00453 1.05301 0.92209 1.88356 1.85163 1.11687 1.11057 0.93496 0.98174 0.96628 0.82342 0.85072 0.70620 0.84080 0.84726 0.86215 0.82953 0.87375 0.91202 0.81800 0.88137 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 -58.11 13.65 21.45 0.29 -57.82 16 2 C -0.04 -2.20 5.46 84.65 0.46 -1.74 16 3 Si 1.12 49.35 29.90 68.60 2.05 51.40 16 4 H -0.28 -12.56 7.11 99.48 0.71 -11.85 16 5 H -0.27 -11.18 7.11 99.48 0.71 -10.47 16 6 H -0.26 -10.29 7.11 99.48 0.71 -9.58 16 7 C -0.61 -34.39 9.11 25.60 0.23 -34.16 16 8 H 0.07 3.48 7.74 -2.91 -0.02 3.46 16 9 C 0.01 0.33 4.29 29.85 0.13 0.46 16 10 C -0.57 -21.68 5.82 71.98 0.42 -21.26 16 11 S 2.60 87.63 5.11 -56.49 -0.29 87.34 16 12 O -0.97 -41.08 17.04 -120.71 -2.06 -43.14 16 13 O -0.96 -34.48 18.08 -127.65 -2.31 -36.79 16 14 N -1.02 -22.08 5.36 -173.53 -0.93 -23.01 16 15 C 0.54 13.06 6.60 87.66 0.58 13.64 16 16 O -0.51 -16.96 14.74 13.37 0.20 -16.76 16 17 C 0.13 2.19 0.72 44.14 0.03 2.23 16 18 C -0.10 -0.78 6.23 31.18 0.19 -0.59 16 19 C -0.14 -1.64 6.78 30.34 0.21 -1.43 16 20 C 0.53 12.00 8.38 87.63 0.73 12.73 16 21 O -0.56 -17.56 18.03 -3.02 -0.05 -17.62 16 22 N -0.61 -12.26 2.92 -777.15 -2.27 -14.53 16 23 C 0.11 1.84 7.25 86.80 0.63 2.47 16 24 C -0.08 -0.98 7.55 72.47 0.55 -0.43 16 25 S -0.19 -2.57 22.33 -56.49 -1.26 -3.84 16 26 H 0.26 16.14 7.22 -92.71 -0.67 15.47 16 27 H 0.00 0.00 8.01 -2.39 -0.02 -0.02 16 28 H 0.02 0.82 8.01 -2.38 -0.02 0.80 16 29 H 0.16 4.78 8.14 -2.39 -0.02 4.76 16 30 H 0.13 5.00 7.19 -2.39 -0.02 4.99 16 31 H 0.45 5.47 8.29 -96.75 -0.80 4.67 16 32 H 0.14 0.40 7.90 -2.38 -0.02 0.39 16 33 H 0.13 0.32 7.35 -2.39 -0.02 0.30 16 34 H 0.12 1.35 8.14 -2.39 -0.02 1.33 16 35 H 0.15 0.86 8.14 -2.39 -0.02 0.84 16 36 H 0.11 1.38 8.14 -2.38 -0.02 1.36 16 37 H 0.07 1.41 8.14 -2.39 -0.02 1.39 16 38 H 0.16 0.83 8.14 -2.39 -0.02 0.81 16 39 H 0.10 1.46 8.14 -2.39 -0.02 1.44 16 Total: -1.00 -90.71 355.38 -2.06 -92.77 By element: Atomic # 1 Polarization: 9.69 SS G_CDS: 0.40 Total: 10.08 kcal Atomic # 6 Polarization: -32.26 SS G_CDS: 4.16 Total: -28.09 kcal Atomic # 7 Polarization: -92.45 SS G_CDS: -2.90 Total: -95.36 kcal Atomic # 8 Polarization: -110.08 SS G_CDS: -4.22 Total: -114.30 kcal Atomic # 14 Polarization: 49.35 SS G_CDS: 2.05 Total: 51.40 kcal Atomic # 16 Polarization: 85.05 SS G_CDS: -1.55 Total: 83.50 kcal Total: -90.71 -2.06 -92.77 kcal The number of atoms in the molecule is 39 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. ZINC000776123553.mol2 39 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 -63.279 kcal (2) G-P(sol) polarization free energy of solvation -90.712 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -153.991 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.061 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -92.773 kcal (6) G-S(sol) free energy of system = (1) + (5) -156.052 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.74 seconds