Wall clock time and date at job start Tue Mar 31 2020 06:01:56 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 1.31518 * 1 3 3 Si 1.86795 * 119.99898 * 2 1 4 4 H 1.48506 * 109.46710 * 179.97438 * 3 2 1 5 5 H 1.48498 * 109.47105 * 299.99594 * 3 2 1 6 6 H 1.48502 * 109.47275 * 60.00124 * 3 2 1 7 7 C 1.37876 * 119.99753 * 179.97438 * 2 1 3 8 8 H 1.08003 * 119.99762 * 173.52484 * 7 2 1 9 9 C 1.50698 * 120.00179 * 353.52814 * 7 2 1 10 10 C 1.52999 * 115.54927 * 84.88610 * 9 7 2 11 11 S 1.81395 * 109.47340 * 63.81871 * 10 9 7 12 12 C 1.81400 * 102.99992 * 174.89890 * 11 10 9 13 13 H 1.09000 * 109.24934 * 305.59535 * 12 11 10 14 14 C 1.52732 * 109.25158 * 65.06374 * 12 11 10 15 15 C 1.53330 * 108.39881 * 171.29851 * 14 12 11 16 16 C 1.52738 * 108.37569 * 290.13670 * 15 14 12 17 17 C 1.50624 * 110.58227 * 51.14819 * 16 15 14 18 18 C 1.38910 * 117.74849 * 162.49079 * 17 16 15 19 19 C 1.37940 * 120.54255 * 179.44070 * 18 17 16 20 20 C 1.38265 * 119.76848 * 0.02562 * 19 18 17 21 21 C 1.37928 * 119.77402 * 0.12755 * 20 19 18 22 22 C 1.37665 * 122.56262 * 342.17016 * 17 16 15 23 23 C 1.52992 * 117.50141 * 230.55531 * 9 7 2 24 24 C 1.52994 * 117.49900 * 299.21780 * 9 7 2 25 25 H 0.97004 * 119.99741 * 4.99064 * 1 2 3 26 26 H 1.08997 * 109.47206 * 303.81658 * 10 9 7 27 27 H 1.08999 * 109.47329 * 183.82339 * 10 9 7 28 28 H 1.08995 * 109.67807 * 51.57554 * 14 12 11 29 29 H 1.08997 * 109.67450 * 291.02435 * 14 12 11 30 30 H 1.09003 * 109.68066 * 49.85584 * 15 14 12 31 31 H 1.08999 * 109.68232 * 170.41055 * 15 14 12 32 32 H 1.09007 * 109.25203 * 171.44162 * 16 15 14 33 33 H 1.09004 * 109.25239 * 290.87025 * 16 15 14 34 34 H 1.07995 * 119.72665 * 359.42666 * 18 17 16 35 35 H 1.08001 * 120.11208 * 180.02562 * 19 18 17 36 36 H 1.08001 * 120.10837 * 180.10476 * 20 19 18 37 37 H 1.08002 * 119.72496 * 180.02562 * 21 20 19 38 38 H 1.09005 * 117.50359 * 215.00571 * 23 9 7 39 39 H 1.09003 * 117.50040 * 0.02562 * 23 9 7 40 40 H 1.08998 * 117.50154 * 359.97065 * 24 9 7 41 41 H 1.08998 * 117.50161 * 144.97751 * 24 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 1.3152 0.0000 0.0000 3 14 2.2491 1.6177 0.0000 4 1 3.7092 1.3463 0.0006 5 1 1.8904 2.3963 -1.2125 6 1 1.8904 2.3964 1.2125 7 6 2.0045 -1.1941 0.0005 8 1 3.0794 -1.1971 -0.1049 9 6 1.2582 -2.4949 0.1482 10 6 0.6910 -3.0809 -1.1463 11 16 2.0535 -3.5033 -2.2668 12 6 1.2067 -4.3126 -3.6519 13 1 0.5967 -5.1317 -3.2710 14 6 0.3063 -3.2981 -4.3538 15 6 -0.2280 -3.9350 -5.6422 16 6 0.9308 -4.0724 -6.6278 17 6 2.1029 -4.7571 -5.9749 18 6 3.0823 -5.2918 -6.8021 19 6 4.1862 -5.9212 -6.2653 20 6 4.3194 -6.0215 -4.8928 21 6 3.3463 -5.4939 -4.0698 22 6 2.2332 -4.8610 -4.6084 23 6 1.7549 -3.4777 1.2103 24 6 0.4521 -2.7052 1.4315 25 1 -0.4850 0.8369 -0.0731 26 1 0.0422 -2.3467 -1.6238 27 1 0.1169 -3.9788 -0.9178 28 1 0.8805 -2.4042 -4.5970 29 1 -0.5266 -3.0341 -3.7021 30 1 -0.6407 -4.9194 -5.4213 31 1 -1.0023 -3.2997 -6.0721 32 1 0.6044 -4.6589 -7.4867 33 1 1.2354 -3.0815 -6.9647 34 1 2.9786 -5.2144 -7.8743 35 1 4.9437 -6.3342 -6.9150 36 1 5.1822 -6.5116 -4.4666 37 1 3.4514 -5.5723 -2.9978 38 1 1.6777 -4.5418 0.9869 39 1 2.6213 -3.1833 1.8026 40 1 0.4620 -1.9028 2.1692 41 1 -0.4824 -3.2607 1.3535 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) 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 ZINC001559363799.mol2 41 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 06:01:56 Heat of formation + Delta-G solvation = 16.367510 kcal Electronic energy + Delta-G solvation = -20291.684275 eV Core-core repulsion = 17454.728323 eV Total energy + Delta-G solvation = -2836.955952 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 288.124 amu Computer time = 0.52 seconds Orbital eigenvalues (eV) -40.86274 -38.42494 -36.97551 -33.99996 -33.50441 -31.19549 -29.96706 -29.12976 -27.35606 -24.73149 -23.60550 -23.11416 -22.94164 -21.15274 -20.28578 -18.28565 -17.45999 -16.84561 -16.63270 -16.40647 -16.26857 -15.70634 -15.17764 -15.09988 -14.99988 -14.61749 -14.18192 -13.88133 -13.73916 -13.55796 -13.33667 -13.01236 -12.90872 -12.86178 -12.57057 -12.35997 -12.27935 -12.08827 -11.96488 -11.63361 -11.51371 -11.28440 -10.88047 -10.56741 -10.46028 -9.86013 -9.60559 -9.44155 -8.37394 -8.10703 -6.20358 0.31180 0.50949 1.06399 1.37354 1.40683 1.51242 1.94580 2.42433 2.89587 3.17160 3.52455 3.60286 3.70266 3.93599 4.07055 4.15408 4.20213 4.27540 4.30668 4.36970 4.41704 4.55363 4.58971 4.63027 4.68443 4.73951 4.89621 4.94754 4.98138 5.00000 5.00350 5.10583 5.17508 5.21525 5.28647 5.36739 5.59174 5.61042 5.62853 5.66958 5.75839 5.77954 6.15955 6.38839 6.82623 7.46765 8.97276 Molecular weight = 288.12amu Principal moments of inertia in cm(-1) A = 0.018731 B = 0.004669 C = 0.004495 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1494.528998 B = 5995.369667 C = 6227.863297 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.906 5.906 2 C 0.032 3.968 3 Si 0.942 3.058 4 H -0.273 1.273 5 H -0.280 1.280 6 H -0.279 1.279 7 C -0.495 4.495 8 H 0.044 0.956 9 C 0.028 3.972 10 C -0.017 4.017 11 S -0.261 6.261 12 C -0.014 4.014 13 H 0.088 0.912 14 C -0.112 4.112 15 C -0.109 4.109 16 C -0.078 4.078 17 C -0.078 4.078 18 C -0.128 4.128 19 C -0.118 4.118 20 C -0.133 4.133 21 C -0.124 4.124 22 C -0.076 4.076 23 C -0.183 4.183 24 C -0.151 4.151 25 H 0.260 0.740 26 H 0.056 0.944 27 H 0.058 0.942 28 H 0.060 0.940 29 H 0.056 0.944 30 H 0.070 0.930 31 H 0.086 0.914 32 H 0.100 0.900 33 H 0.079 0.921 34 H 0.148 0.852 35 H 0.149 0.851 36 H 0.138 0.862 37 H 0.117 0.883 38 H 0.089 0.911 39 H 0.076 0.924 40 H 0.062 0.938 41 H 0.076 0.924 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 2.003 -11.786 -14.394 18.712 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 -0.544 5.544 2 C -0.169 4.169 3 Si 0.768 3.232 4 H -0.197 1.197 5 H -0.206 1.206 6 H -0.205 1.205 7 C -0.533 4.533 8 H 0.063 0.937 9 C 0.027 3.973 10 C -0.165 4.165 11 S -0.028 6.028 12 C -0.142 4.142 13 H 0.106 0.894 14 C -0.152 4.152 15 C -0.149 4.149 16 C -0.115 4.115 17 C -0.079 4.079 18 C -0.145 4.145 19 C -0.136 4.136 20 C -0.151 4.151 21 C -0.144 4.144 22 C -0.077 4.077 23 C -0.221 4.221 24 C -0.191 4.191 25 H 0.069 0.931 26 H 0.075 0.925 27 H 0.076 0.924 28 H 0.078 0.922 29 H 0.075 0.925 30 H 0.089 0.911 31 H 0.104 0.896 32 H 0.119 0.881 33 H 0.098 0.902 34 H 0.166 0.834 35 H 0.167 0.833 36 H 0.156 0.844 37 H 0.135 0.865 38 H 0.108 0.892 39 H 0.094 0.906 40 H 0.081 0.919 41 H 0.095 0.905 Dipole moment (debyes) X Y Z Total from point charges 2.944 -11.451 -14.147 18.438 hybrid contribution -1.025 1.004 0.556 1.539 sum 1.919 -10.447 -13.591 17.250 Atomic orbital electron populations 1.70067 1.06783 1.27150 1.50357 1.25536 0.95510 1.01440 0.94374 0.85752 0.79211 0.80607 0.77618 1.19720 1.20633 1.20507 1.20523 0.92437 0.90035 1.50260 0.93741 1.18563 0.99003 0.94046 0.85691 1.22769 0.96148 0.99869 0.97699 1.87013 1.18660 1.76138 1.20998 1.21963 0.97620 0.99283 0.95295 0.89425 1.21827 0.98166 0.97377 0.97784 1.21559 0.97911 1.01409 0.93980 1.20542 0.91954 1.00782 0.98227 1.19876 0.97708 0.98542 0.91788 1.21440 0.93851 0.98615 1.00627 1.21439 0.98326 0.98827 0.95058 1.21323 0.99075 1.00353 0.94317 1.21422 0.94356 0.98034 1.00566 1.19125 0.95640 0.99757 0.93169 1.22986 0.97296 0.96511 1.05272 1.22505 0.93596 1.01164 1.01859 0.93114 0.92545 0.92375 0.92167 0.92540 0.91145 0.89553 0.88134 0.90232 0.83408 0.83293 0.84426 0.86454 0.89221 0.90552 0.91938 0.90516 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 -51.54 12.94 21.45 0.28 -51.26 16 2 C 0.03 1.76 5.39 84.65 0.46 2.22 16 3 Si 0.94 44.43 29.55 68.60 2.03 46.46 16 4 H -0.27 -12.78 7.11 99.48 0.71 -12.07 16 5 H -0.28 -12.99 7.11 99.48 0.71 -12.28 16 6 H -0.28 -12.86 7.11 99.48 0.71 -12.15 16 7 C -0.49 -27.50 8.44 25.60 0.22 -27.29 16 8 H 0.04 2.57 7.82 -2.91 -0.02 2.55 16 9 C 0.03 1.41 1.34 -52.93 -0.07 1.34 16 10 C -0.02 -0.75 5.45 71.98 0.39 -0.36 16 11 S -0.26 -10.76 19.16 -56.49 -1.08 -11.84 16 12 C -0.01 -0.44 2.69 29.74 0.08 -0.36 16 13 H 0.09 2.76 8.14 -2.39 -0.02 2.74 16 14 C -0.11 -3.42 5.06 30.62 0.15 -3.26 16 15 C -0.11 -2.39 5.98 30.62 0.18 -2.21 16 16 C -0.08 -1.55 5.67 29.74 0.17 -1.38 16 17 C -0.08 -1.90 5.74 -19.86 -0.11 -2.01 16 18 C -0.13 -2.58 9.61 22.36 0.21 -2.37 16 19 C -0.12 -2.35 10.05 22.21 0.22 -2.13 16 20 C -0.13 -3.14 10.05 22.20 0.22 -2.92 16 21 C -0.12 -3.65 8.96 22.36 0.20 -3.45 16 22 C -0.08 -2.25 5.44 -19.86 -0.11 -2.36 16 23 C -0.18 -8.01 9.96 30.62 0.30 -7.70 16 24 C -0.15 -7.11 9.45 30.62 0.29 -6.82 16 25 H 0.26 14.13 8.32 -92.71 -0.77 13.36 16 26 H 0.06 2.82 7.66 -2.39 -0.02 2.81 16 27 H 0.06 2.40 8.10 -2.39 -0.02 2.38 16 28 H 0.06 2.05 8.09 -2.39 -0.02 2.03 16 29 H 0.06 1.84 7.50 -2.39 -0.02 1.83 16 30 H 0.07 1.45 8.10 -2.39 -0.02 1.43 16 31 H 0.09 1.61 8.14 -2.39 -0.02 1.59 16 32 H 0.10 1.44 8.13 -2.38 -0.02 1.42 16 33 H 0.08 1.55 8.14 -2.38 -0.02 1.53 16 34 H 0.15 2.07 8.05 -2.91 -0.02 2.05 16 35 H 0.15 2.00 8.06 -2.91 -0.02 1.98 16 36 H 0.14 2.64 8.06 -2.91 -0.02 2.62 16 37 H 0.12 3.72 7.04 -2.91 -0.02 3.70 16 38 H 0.09 3.48 8.14 -2.38 -0.02 3.46 16 39 H 0.08 3.34 8.14 -2.39 -0.02 3.32 16 40 H 0.06 3.16 8.14 -2.39 -0.02 3.14 16 41 H 0.08 3.32 8.14 -2.39 -0.02 3.30 16 Total: -1.00 -62.02 344.15 5.02 -57.00 By element: Atomic # 1 Polarization: 19.73 SS G_CDS: 0.99 Total: 20.71 kcal Atomic # 6 Polarization: -63.88 SS G_CDS: 2.81 Total: -61.06 kcal Atomic # 7 Polarization: -51.54 SS G_CDS: 0.28 Total: -51.26 kcal Atomic # 14 Polarization: 44.43 SS G_CDS: 2.03 Total: 46.46 kcal Atomic # 16 Polarization: -10.76 SS G_CDS: -1.08 Total: -11.84 kcal Total: -62.02 5.02 -57.00 kcal The number of atoms in the molecule is 41 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. ZINC001559363799.mol2 41 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 73.364 kcal (2) G-P(sol) polarization free energy of solvation -62.018 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 11.346 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 5.022 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -56.996 kcal (6) G-S(sol) free energy of system = (1) + (5) 16.368 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.52 seconds