Wall clock time and date at job start Tue Mar 31 2020 20:12:32 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 1.86803 * 119.99628 * 2 1 4 4 H 1.48497 * 109.47380 * 180.02562 * 3 2 1 5 5 H 1.48496 * 109.47220 * 300.00416 * 3 2 1 6 6 H 1.48508 * 109.47009 * 60.00133 * 3 2 1 7 7 C 1.37871 * 120.00410 * 180.02562 * 2 1 3 8 8 H 1.08003 * 119.99917 * 179.97438 * 7 2 1 9 9 C 1.50699 * 120.00042 * 359.97438 * 7 2 1 10 10 N 1.46498 * 109.47352 * 179.97438 * 9 7 2 11 11 C 1.34771 * 120.00199 * 179.97438 * 10 9 7 12 12 O 1.21285 * 120.00232 * 0.02562 * 11 10 9 13 13 C 1.50709 * 119.99927 * 179.97438 * 11 10 9 14 14 O 1.42904 * 109.46584 * 180.02562 * 13 11 10 15 15 C 1.34944 * 116.99436 * 180.02562 * 14 13 11 16 16 O 1.21663 * 120.00105 * 0.02562 * 15 14 13 17 17 C 1.46137 * 119.99937 * 180.02562 * 15 14 13 18 18 S 1.75803 * 125.49054 * 4.68048 * 17 15 14 19 19 C 1.70536 * 91.75316 * 180.20800 * 18 17 15 20 20 C 1.33462 * 111.33286 * 359.80394 * 19 18 17 21 21 C 1.37908 * 125.49361 * 184.53197 * 17 15 14 22 22 C 1.48226 * 123.58593 * 0.02562 * 21 17 15 23 23 N 1.34130 * 126.68733 * 311.20940 * 22 21 17 24 24 N 1.28980 * 107.25749 * 179.81287 * 23 22 21 25 25 N 1.28723 * 108.97284 * 0.37069 * 24 23 22 26 26 H 0.96997 * 125.33012 * 179.88964 * 25 24 23 27 27 N 1.28864 * 109.34135 * 359.62005 * 25 24 23 28 28 H 0.97001 * 120.00404 * 359.97438 * 1 2 3 29 29 H 1.09000 * 109.46799 * 60.00108 * 9 7 2 30 30 H 1.09001 * 109.47073 * 300.00061 * 9 7 2 31 31 H 0.97009 * 120.00005 * 0.02562 * 10 9 7 32 32 H 1.08995 * 109.46628 * 60.00746 * 13 11 10 33 33 H 1.08993 * 109.47431 * 300.00611 * 13 11 10 34 34 H 1.08000 * 124.33670 * 179.83212 * 19 18 17 35 35 H 1.07997 * 122.46739 * 180.02562 * 20 19 18 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 3.7091 1.3466 -0.0006 5 1 1.8902 2.3965 -1.2124 6 1 1.8903 2.3965 1.2126 7 6 2.0046 -1.1940 -0.0005 8 1 3.0846 -1.1939 -0.0010 9 6 1.2512 -2.4991 -0.0005 10 7 2.2032 -3.6126 -0.0018 11 6 1.7541 -4.8832 -0.0015 12 8 0.5617 -5.1050 -0.0006 13 6 2.7335 -6.0287 -0.0033 14 8 2.0190 -7.2662 -0.0032 15 6 2.7541 -8.3979 -0.0042 16 8 3.9690 -8.3341 -0.0047 17 6 2.0907 -9.7000 -0.0047 18 16 0.3562 -9.9618 -0.1209 19 6 0.5532 -11.6538 -0.0386 20 6 1.8411 -11.9882 0.0646 21 6 2.7247 -10.9216 0.0830 22 6 4.1948 -11.0766 0.1922 23 7 5.1222 -10.4844 -0.5749 24 7 6.2757 -10.8781 -0.1532 25 7 6.1067 -11.6901 0.8312 26 1 6.8171 -12.1289 1.3248 27 7 4.8460 -11.8244 1.0621 28 1 -0.4851 0.8400 0.0004 29 1 0.6242 -2.5566 -0.8903 30 1 0.6249 -2.5571 0.8897 31 1 3.1570 -3.4353 -0.0021 32 1 3.3614 -5.9711 0.8858 33 1 3.3589 -5.9706 -0.8941 34 1 -0.2601 -12.3639 -0.0669 35 1 2.1702 -13.0148 0.1288 RHF calculation, no. of doubly occupied orbitals= 58 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 ZINC001592678348.mol2 35 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 20:12:32 Heat of formation + Delta-G solvation = 21.327450 kcal Electronic energy + Delta-G solvation = -24990.777275 eV Core-core repulsion = 20925.483228 eV Total energy + Delta-G solvation = -4065.294046 eV No. of doubly occupied orbitals = 58 Molecular weight (most abundant/longest-lived isotopes) = 337.068 amu Computer time = 0.70 seconds Orbital eigenvalues (eV) -45.42857 -41.83673 -40.41480 -39.17499 -37.52324 -36.17846 -35.26579 -34.41450 -34.03366 -31.73314 -30.54026 -28.64666 -27.15904 -25.56512 -24.73333 -24.02872 -23.17307 -21.66895 -20.72281 -20.15336 -19.76316 -19.08781 -18.22717 -18.07169 -17.95052 -17.50780 -17.00267 -16.85604 -16.29345 -16.22105 -15.54356 -15.32266 -14.75214 -14.67014 -14.55469 -14.11964 -14.10498 -13.88382 -13.62600 -13.56456 -13.18631 -12.91504 -12.75581 -12.39726 -12.22738 -12.19068 -12.06635 -11.91357 -11.80758 -11.61762 -11.46725 -10.91425 -10.82745 -10.07502 -9.92707 -9.63422 -8.29461 -6.45655 -0.97709 0.08999 0.23989 0.75305 0.87645 1.14094 1.21563 1.44688 1.44944 1.45162 1.54076 1.58712 1.74066 2.33369 2.54566 2.69502 3.05854 3.35300 3.63168 3.74710 3.97915 4.00778 4.03271 4.14105 4.32346 4.46427 4.74577 4.96908 5.04768 5.08087 5.14481 5.22890 5.41984 5.62533 5.62933 5.82525 6.45718 6.63166 6.77360 7.14944 7.20130 7.34782 8.82846 Molecular weight = 337.07amu Principal moments of inertia in cm(-1) A = 0.018585 B = 0.002288 C = 0.002054 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1506.216286 B =12235.967316 C =13629.014876 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.929 5.929 2 C 0.005 3.995 3 Si 0.984 3.016 4 H -0.254 1.254 5 H -0.279 1.279 6 H -0.279 1.279 7 C -0.556 4.556 8 H 0.085 0.915 9 C 0.267 3.733 10 N -0.699 5.699 11 C 0.502 3.498 12 O -0.578 6.578 13 C 0.062 3.938 14 O -0.338 6.338 15 C 0.530 3.470 16 O -0.496 6.496 17 C -0.273 4.273 18 S 0.325 5.675 19 C -0.204 4.204 20 C -0.132 4.132 21 C 0.053 3.947 22 C 0.212 3.788 23 N -0.261 5.261 24 N -0.065 5.065 25 N -0.202 5.202 26 H 0.494 0.506 27 N -0.280 5.280 28 H 0.269 0.731 29 H -0.006 1.006 30 H -0.006 1.006 31 H 0.412 0.588 32 H 0.119 0.881 33 H 0.120 0.880 34 H 0.222 0.778 35 H 0.177 0.823 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 8.211 -29.833 1.981 31.005 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 -0.568 5.568 2 C -0.195 4.195 3 Si 0.807 3.193 4 H -0.178 1.178 5 H -0.205 1.205 6 H -0.205 1.205 7 C -0.594 4.594 8 H 0.103 0.897 9 C 0.144 3.856 10 N -0.350 5.350 11 C 0.288 3.712 12 O -0.459 6.459 13 C -0.015 4.015 14 O -0.254 6.254 15 C 0.374 3.626 16 O -0.385 6.385 17 C -0.394 4.394 18 S 0.596 5.404 19 C -0.342 4.342 20 C -0.162 4.162 21 C 0.031 3.969 22 C -0.070 4.070 23 N -0.133 5.133 24 N -0.060 5.060 25 N -0.053 5.053 26 H 0.353 0.647 27 N -0.134 5.134 28 H 0.078 0.922 29 H 0.012 0.988 30 H 0.012 0.988 31 H 0.248 0.752 32 H 0.136 0.864 33 H 0.138 0.862 34 H 0.238 0.762 35 H 0.194 0.806 Dipole moment (debyes) X Y Z Total from point charges 6.894 -28.736 1.667 29.598 hybrid contribution 1.875 0.012 0.577 1.962 sum 8.769 -28.724 2.244 30.116 Atomic orbital electron populations 1.70131 1.08171 1.28555 1.49907 1.26030 0.95785 1.03792 0.93876 0.85119 0.79051 0.77418 0.77678 1.17785 1.20461 1.20452 1.21629 0.94377 0.90434 1.52921 0.89749 1.18644 0.88530 0.83666 0.94716 1.46044 1.11743 1.04708 1.72507 1.20557 0.89195 0.84567 0.76884 1.90679 1.18603 1.85232 1.51353 1.22358 0.92960 0.79311 1.06872 1.86175 1.40634 1.14151 1.84416 1.19890 0.85365 0.83867 0.73438 1.90964 1.14361 1.87454 1.45752 1.23590 1.01447 0.92642 1.21715 1.83864 0.96474 0.98657 1.61436 1.25893 1.02013 1.02019 1.04263 1.19910 0.91128 1.00135 1.04997 1.16790 0.86715 0.91841 1.01539 1.23079 0.95707 0.95507 0.92736 1.76315 0.94302 1.19137 1.23548 1.78902 1.19530 1.05545 1.02026 1.47777 1.06132 1.29104 1.22276 0.64697 1.74927 0.91980 1.23257 1.23230 0.92186 0.98797 0.98803 0.75203 0.86367 0.86181 0.76162 0.80604 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 -55.51 13.29 21.45 0.28 -55.22 16 2 C 0.00 0.27 5.46 84.65 0.46 0.74 16 3 Si 0.98 42.17 29.54 68.60 2.03 44.20 16 4 H -0.25 -10.12 7.11 99.48 0.71 -9.41 16 5 H -0.28 -11.76 7.11 99.48 0.71 -11.06 16 6 H -0.28 -11.75 7.11 99.48 0.71 -11.04 16 7 C -0.56 -29.93 9.28 25.60 0.24 -29.69 16 8 H 0.08 4.11 7.60 -2.91 -0.02 4.09 16 9 C 0.27 14.46 5.43 85.63 0.46 14.92 16 10 N -0.70 -29.37 5.55 -466.78 -2.59 -31.96 16 11 C 0.50 20.55 7.91 87.66 0.69 21.24 16 12 O -0.58 -29.01 16.50 15.99 0.26 -28.75 16 13 C 0.06 1.93 5.86 71.24 0.42 2.34 16 14 O -0.34 -11.09 9.50 -52.14 -0.50 -11.59 16 15 C 0.53 16.14 7.89 69.87 0.55 16.69 16 16 O -0.50 -16.66 13.63 19.30 0.26 -16.39 16 17 C -0.27 -6.66 6.48 24.24 0.16 -6.50 16 18 S 0.33 5.54 22.91 -56.49 -1.29 4.25 16 19 C -0.20 -1.98 10.88 66.74 0.73 -1.25 16 20 C -0.13 -1.75 10.01 21.25 0.21 -1.54 16 21 C 0.05 1.13 5.90 -20.63 -0.12 1.01 16 22 C 0.21 5.14 7.08 137.25 0.97 6.11 16 23 N -0.26 -7.34 10.46 -52.26 -0.55 -7.89 16 24 N -0.06 -1.47 13.47 37.02 0.50 -0.97 16 25 N -0.20 -3.00 7.90 37.02 0.29 -2.71 16 26 H 0.49 1.95 8.96 -347.53 -3.12 -1.16 16 27 N -0.28 -5.38 12.41 -52.21 -0.65 -6.03 16 28 H 0.27 14.97 8.31 -92.71 -0.77 14.20 16 29 H -0.01 -0.36 8.14 -2.39 -0.02 -0.38 16 30 H -0.01 -0.36 8.14 -2.39 -0.02 -0.38 16 31 H 0.41 14.14 8.32 -92.70 -0.77 13.37 16 32 H 0.12 3.13 8.13 -2.39 -0.02 3.11 16 33 H 0.12 3.21 8.13 -2.39 -0.02 3.19 16 34 H 0.22 0.29 8.06 -2.91 -0.02 0.26 16 35 H 0.18 1.46 8.06 -2.91 -0.02 1.43 16 Total: -1.00 -82.89 340.46 0.14 -82.75 By element: Atomic # 1 Polarization: 8.92 SS G_CDS: -2.68 Total: 6.23 kcal Atomic # 6 Polarization: 19.30 SS G_CDS: 4.77 Total: 24.07 kcal Atomic # 7 Polarization: -102.06 SS G_CDS: -2.71 Total: -104.77 kcal Atomic # 8 Polarization: -56.77 SS G_CDS: 0.03 Total: -56.73 kcal Atomic # 14 Polarization: 42.17 SS G_CDS: 2.03 Total: 44.20 kcal Atomic # 16 Polarization: 5.54 SS G_CDS: -1.29 Total: 4.25 kcal Total: -82.89 0.14 -82.75 kcal The number of atoms in the molecule is 35 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. ZINC001592678348.mol2 35 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 104.076 kcal (2) G-P(sol) polarization free energy of solvation -82.893 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 21.183 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.144 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -82.749 kcal (6) G-S(sol) free energy of system = (1) + (5) 21.327 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.70 seconds