Wall clock time and date at job start Tue Mar 31 2020 06:34:08 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 1.31510 * 1 3 3 Si 1.86801 * 120.00196 * 2 1 4 4 H 1.48499 * 109.47012 * 240.00110 * 3 2 1 5 5 H 1.48501 * 109.46998 * 0.02562 * 3 2 1 6 6 H 1.48497 * 109.47068 * 120.00059 * 3 2 1 7 7 C 1.37882 * 119.99810 * 179.97438 * 2 1 3 8 8 H 1.08001 * 119.99995 * 174.95382 * 7 2 1 9 9 C 1.50699 * 120.00002 * 354.96013 * 7 2 1 10 10 O 1.45207 * 112.85064 * 64.94997 * 9 7 2 11 11 C 1.34899 * 116.99764 * 54.49726 * 10 9 7 12 12 O 1.21629 * 119.99902 * 355.18940 * 11 10 9 13 13 C 1.46394 * 119.99888 * 175.18595 * 11 10 9 14 14 C 1.35971 * 125.42068 * 180.02562 * 13 11 10 15 15 C 1.39116 * 113.99120 * 180.23784 * 14 13 11 16 16 C 1.34414 * 114.00295 * 359.48560 * 15 14 13 17 17 S 1.71479 * 111.08619 * 0.50602 * 16 15 14 18 18 C 1.52370 * 110.37672 * 180.33351 * 16 15 14 19 19 C 1.54158 * 104.90932 * 17.80842 * 18 16 15 20 20 C 1.52820 * 136.18386 * 180.42531 * 15 14 13 21 21 C 1.53776 * 113.69097 * 196.21855 * 9 7 2 22 22 C 1.53785 * 87.08116 * 89.12943 * 21 9 7 23 23 C 1.53781 * 113.61609 * 293.75710 * 9 7 2 24 24 H 0.97003 * 120.00138 * 5.00280 * 1 2 3 25 25 H 1.08001 * 123.00694 * 359.97247 * 14 13 11 26 26 H 1.09000 * 110.35435 * 136.66352 * 18 16 15 27 27 H 1.09000 * 110.35235 * 258.84644 * 18 16 15 28 28 H 1.09003 * 110.96161 * 91.39857 * 19 18 16 29 29 H 1.08993 * 110.96406 * 215.10790 * 19 18 16 30 30 H 1.08998 * 110.48851 * 42.83008 * 20 15 14 31 31 H 1.09001 * 110.19732 * 280.69287 * 20 15 14 32 32 H 1.08999 * 113.61481 * 203.67634 * 21 9 7 33 33 H 1.09002 * 113.61292 * 334.57690 * 21 9 7 34 34 H 1.09007 * 113.60870 * 270.88589 * 22 21 9 35 35 H 1.08993 * 113.69281 * 139.99206 * 22 21 9 36 36 H 1.09000 * 113.60891 * 25.34560 * 23 9 7 37 37 H 1.08999 * 113.61841 * 156.16705 * 23 9 7 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 2.2492 1.6177 0.0000 4 1 3.1029 1.6963 -1.2125 5 1 1.2842 2.7465 0.0006 6 1 3.1029 1.6963 1.2125 7 6 2.0045 -1.1941 0.0005 8 1 3.0813 -1.1960 -0.0817 9 6 1.2553 -2.4966 0.1158 10 8 0.3930 -2.7539 -1.0239 11 6 0.9660 -2.7223 -2.2448 12 8 2.1332 -2.4006 -2.3606 13 6 0.1829 -3.0755 -3.4302 14 6 0.6471 -3.0818 -4.7082 15 6 -0.3041 -3.4514 -5.6536 16 6 -1.5075 -3.7462 -5.1323 17 16 -1.5040 -3.5588 -3.4278 18 6 -2.4798 -4.1464 -6.2350 19 6 -1.5880 -4.4924 -7.4439 20 6 -0.3387 -3.6322 -7.1707 21 6 2.1467 -3.6906 0.4957 22 6 1.8614 -3.3354 1.9645 23 6 0.5565 -2.6875 1.4723 24 1 -0.4850 0.8369 -0.0733 25 1 1.6622 -2.8191 -4.9667 26 1 -3.0605 -5.0172 -5.9308 27 1 -3.1424 -3.3152 -6.4763 28 1 -1.3367 -5.5530 -7.4523 29 1 -2.0668 -4.1997 -8.3782 30 1 0.5584 -4.1474 -7.5140 31 1 -0.4304 -2.6641 -7.6631 32 1 1.7382 -4.6545 0.1923 33 1 3.1912 -3.5638 0.2107 34 1 2.5703 -2.6232 2.3871 35 1 1.7035 -4.2048 2.6026 36 1 0.3172 -1.7507 1.9757 37 1 -0.2877 -3.3760 1.4356 RHF calculation, no. of doubly occupied orbitals= 51 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 ZINC000788144708.mol2 37 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 06:34:08 Heat of formation + Delta-G solvation = -46.177891 kcal Electronic energy + Delta-G solvation = -21085.021150 eV Core-core repulsion = 17919.063880 eV Total energy + Delta-G solvation = -3165.957270 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 292.092 amu Computer time = 0.49 seconds Orbital eigenvalues (eV) -41.12542 -40.30757 -38.85369 -36.07714 -35.27785 -34.37670 -29.65758 -29.22529 -28.11873 -26.39389 -25.66840 -24.15384 -22.70717 -21.24833 -20.49790 -19.44873 -19.28972 -18.07088 -17.14554 -16.89176 -16.78512 -16.50781 -16.13544 -15.69700 -15.49437 -14.84859 -14.26045 -13.75619 -13.72138 -13.55260 -13.33684 -13.05518 -12.99337 -12.89978 -12.79712 -12.69147 -12.24537 -12.15165 -12.01217 -11.92535 -11.76454 -11.67311 -11.64487 -11.28769 -10.84162 -10.55780 -10.46643 -9.65880 -9.31434 -8.21015 -6.35551 -0.49942 0.39439 1.04645 1.30589 1.32660 1.34492 1.42214 2.12601 2.25524 2.35521 3.10143 3.57846 3.61956 3.94351 3.99190 4.12866 4.18789 4.22152 4.33840 4.36649 4.53431 4.67346 4.82236 4.83727 4.88340 4.92616 4.96429 4.99022 5.12079 5.18747 5.26207 5.35076 5.39232 5.41678 5.43318 5.62194 5.74306 5.91224 6.37862 6.65552 7.22709 7.36432 8.83041 Molecular weight = 292.09amu Principal moments of inertia in cm(-1) A = 0.020643 B = 0.004963 C = 0.004529 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1356.043871 B = 5640.412820 C = 6180.427876 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.890 5.890 2 C 0.032 3.968 3 Si 0.946 3.054 4 H -0.286 1.286 5 H -0.276 1.276 6 H -0.260 1.260 7 C -0.518 4.518 8 H 0.047 0.953 9 C 0.209 3.791 10 O -0.354 6.354 11 C 0.528 3.472 12 O -0.531 6.531 13 C -0.282 4.282 14 C -0.047 4.047 15 C -0.159 4.159 16 C -0.225 4.225 17 S 0.261 5.739 18 C -0.043 4.043 19 C -0.107 4.107 20 C -0.055 4.055 21 C -0.157 4.157 22 C -0.108 4.108 23 C -0.103 4.103 24 H 0.264 0.736 25 H 0.141 0.859 26 H 0.094 0.906 27 H 0.098 0.902 28 H 0.083 0.917 29 H 0.109 0.891 30 H 0.083 0.917 31 H 0.087 0.913 32 H 0.076 0.924 33 H 0.049 0.951 34 H 0.076 0.924 35 H 0.094 0.906 36 H 0.053 0.947 37 H 0.072 0.928 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -6.768 -9.839 -11.903 16.861 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 -0.527 5.527 2 C -0.171 4.171 3 Si 0.771 3.229 4 H -0.212 1.212 5 H -0.201 1.201 6 H -0.184 1.184 7 C -0.555 4.555 8 H 0.065 0.935 9 C 0.175 3.825 10 O -0.271 6.271 11 C 0.373 3.627 12 O -0.423 6.423 13 C -0.400 4.400 14 C -0.081 4.081 15 C -0.171 4.171 16 C -0.345 4.345 17 S 0.532 5.468 18 C -0.083 4.083 19 C -0.146 4.146 20 C -0.094 4.094 21 C -0.194 4.194 22 C -0.145 4.145 23 C -0.141 4.141 24 H 0.073 0.927 25 H 0.158 0.842 26 H 0.112 0.888 27 H 0.116 0.884 28 H 0.102 0.898 29 H 0.127 0.873 30 H 0.102 0.898 31 H 0.105 0.895 32 H 0.095 0.905 33 H 0.067 0.933 34 H 0.095 0.905 35 H 0.112 0.888 36 H 0.072 0.928 37 H 0.091 0.909 Dipole moment (debyes) X Y Z Total from point charges -7.705 -9.803 -10.590 16.359 hybrid contribution 2.027 1.602 -0.799 2.704 sum -5.678 -8.201 -11.388 15.139 Atomic orbital electron populations 1.70094 1.06730 1.27728 1.48175 1.25678 0.95682 1.02031 0.93707 0.85808 0.78806 0.79484 0.78801 1.21165 1.20080 1.18431 1.20972 0.92739 0.90322 1.51466 0.93472 1.21594 0.87825 0.92794 0.80300 1.86516 1.45468 1.80038 1.15045 1.19795 0.85022 0.74102 0.83806 1.90740 1.18733 1.45288 1.87548 1.23635 1.00936 1.19656 0.95820 1.20356 1.01074 0.97048 0.89585 1.20652 0.92224 1.05180 0.99011 1.26508 1.02405 1.06042 0.99533 1.82998 1.03845 1.60714 0.99245 1.21102 0.95331 1.02549 0.89275 1.22332 0.93846 1.00462 0.97938 1.21127 1.00421 1.01516 0.86330 1.23520 0.99567 0.98128 0.98228 1.22422 0.97027 1.00430 0.94604 1.22859 0.96868 0.99622 0.94776 0.92721 0.84164 0.88799 0.88360 0.89830 0.87255 0.89847 0.89459 0.90545 0.93256 0.90544 0.88758 0.92791 0.90943 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 -0.89 -52.29 12.54 21.45 0.27 -52.02 16 2 C 0.03 1.82 5.24 84.66 0.44 2.27 16 3 Si 0.95 45.89 29.54 68.60 2.03 47.91 16 4 H -0.29 -14.25 7.11 99.48 0.71 -13.54 16 5 H -0.28 -12.80 7.11 99.48 0.71 -12.10 16 6 H -0.26 -11.93 7.11 99.48 0.71 -11.22 16 7 C -0.52 -30.14 6.29 25.60 0.16 -29.98 16 8 H 0.05 2.86 7.82 -2.91 -0.02 2.83 16 9 C 0.21 11.00 0.50 -11.02 -0.01 11.00 16 10 O -0.35 -19.06 9.78 -58.13 -0.57 -19.63 16 11 C 0.53 27.65 7.57 69.94 0.53 28.18 16 12 O -0.53 -30.62 15.19 19.41 0.29 -30.33 16 13 C -0.28 -12.02 6.41 23.87 0.15 -11.87 16 14 C -0.05 -1.72 9.99 21.95 0.22 -1.50 16 15 C -0.16 -4.49 6.49 -19.84 -0.13 -4.62 16 16 C -0.23 -5.97 7.10 25.35 0.18 -5.79 16 17 S 0.26 8.77 22.92 -56.49 -1.29 7.47 16 18 C -0.04 -0.70 6.80 30.78 0.21 -0.49 16 19 C -0.11 -1.33 7.11 31.36 0.22 -1.11 16 20 C -0.06 -1.00 6.81 30.91 0.21 -0.79 16 21 C -0.16 -7.03 7.29 31.12 0.23 -6.81 16 22 C -0.11 -4.23 7.81 31.12 0.24 -3.99 16 23 C -0.10 -4.81 7.19 31.12 0.22 -4.58 16 24 H 0.26 14.78 8.32 -92.71 -0.77 14.01 16 25 H 0.14 5.15 8.04 -2.91 -0.02 5.12 16 26 H 0.09 1.23 8.14 -2.39 -0.02 1.21 16 27 H 0.10 1.36 8.14 -2.39 -0.02 1.34 16 28 H 0.08 0.93 8.14 -2.39 -0.02 0.91 16 29 H 0.11 0.79 8.14 -2.39 -0.02 0.77 16 30 H 0.08 1.36 8.14 -2.39 -0.02 1.34 16 31 H 0.09 1.43 8.14 -2.39 -0.02 1.41 16 32 H 0.08 3.15 8.14 -2.39 -0.02 3.13 16 33 H 0.05 2.29 8.09 -2.39 -0.02 2.27 16 34 H 0.08 3.05 8.14 -2.38 -0.02 3.03 16 35 H 0.09 2.94 8.14 -2.39 -0.02 2.92 16 36 H 0.05 2.72 7.63 -2.39 -0.02 2.70 16 37 H 0.07 3.11 8.14 -2.39 -0.02 3.09 16 Total: -1.00 -72.11 325.22 4.69 -67.42 By element: Atomic # 1 Polarization: 8.18 SS G_CDS: 1.07 Total: 9.25 kcal Atomic # 6 Polarization: -32.96 SS G_CDS: 2.89 Total: -30.07 kcal Atomic # 7 Polarization: -52.29 SS G_CDS: 0.27 Total: -52.02 kcal Atomic # 8 Polarization: -49.69 SS G_CDS: -0.27 Total: -49.96 kcal Atomic # 14 Polarization: 45.89 SS G_CDS: 2.03 Total: 47.91 kcal Atomic # 16 Polarization: 8.77 SS G_CDS: -1.29 Total: 7.47 kcal Total: -72.11 4.69 -67.42 kcal The number of atoms in the molecule is 37 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. ZINC000788144708.mol2 37 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 21.246 kcal (2) G-P(sol) polarization free energy of solvation -72.112 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -50.866 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.688 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.424 kcal (6) G-S(sol) free energy of system = (1) + (5) -46.178 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.49 seconds