Wall clock time and date at job start Tue Mar 31 2020 22:29:43 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 1.31406 * 1 3 3 Si 1.86803 * 119.99928 * 2 1 4 4 H 1.48503 * 109.47190 * 270.00261 * 3 2 1 5 5 H 1.48502 * 109.47147 * 30.00630 * 3 2 1 6 6 H 1.48503 * 109.46745 * 150.00692 * 3 2 1 7 7 C 1.38948 * 119.99938 * 180.02562 * 2 1 3 8 8 H 1.08001 * 120.00161 * 179.97438 * 7 2 1 9 9 N 1.37096 * 120.00333 * 359.97438 * 7 2 1 10 10 C 1.34775 * 120.00019 * 179.97438 * 9 7 2 11 11 O 1.21287 * 120.00379 * 0.02562 * 10 9 7 12 12 C 1.50699 * 119.99574 * 179.97438 * 10 9 7 13 13 N 1.46898 * 109.47144 * 180.02562 * 12 10 9 14 14 C 1.46904 * 111.00031 * 179.97438 * 13 12 10 15 15 C 1.53004 * 109.46764 * 184.91129 * 14 13 12 16 16 H 1.08993 * 110.00035 * 55.70691 * 15 14 13 17 17 C 1.54326 * 109.88356 * 294.61040 * 15 14 13 18 18 C 1.55152 * 102.94713 * 218.39478 * 17 15 14 19 19 C 1.54904 * 101.61481 * 35.48022 * 18 17 15 20 20 N 1.47024 * 109.88001 * 176.80601 * 15 14 13 21 21 C 1.34767 * 125.64970 * 298.41070 * 20 15 14 22 22 O 1.21570 * 119.99974 * 4.69621 * 21 20 15 23 23 C 1.47760 * 120.00292 * 184.69083 * 21 20 15 24 24 C 1.39346 * 124.11648 * 179.72589 * 23 21 20 25 25 N 1.30091 * 112.14205 * 179.85247 * 24 23 21 26 26 S 1.55918 * 108.75604 * 0.40017 * 25 24 23 27 27 N 1.31485 * 124.11313 * 0.02661 * 23 21 20 28 28 H 0.96998 * 120.00223 * 359.97438 * 1 2 3 29 29 H 0.97004 * 119.99893 * 0.02562 * 9 7 2 30 30 H 1.09007 * 109.47261 * 60.00299 * 12 10 9 31 31 H 1.08998 * 109.47561 * 300.00514 * 12 10 9 32 32 H 1.00903 * 110.99625 * 56.04860 * 13 12 10 33 33 H 1.08998 * 109.47141 * 64.91528 * 14 13 12 34 34 H 1.08998 * 109.47074 * 304.90606 * 14 13 12 35 35 H 1.09002 * 110.71560 * 100.02763 * 17 15 14 36 36 H 1.09003 * 110.71948 * 336.75771 * 17 15 14 37 37 H 1.08994 * 111.00743 * 153.57655 * 18 17 15 38 38 H 1.09000 * 111.00133 * 277.39256 * 18 17 15 39 39 H 1.09001 * 110.36798 * 81.85070 * 19 18 17 40 40 H 1.09001 * 110.36983 * 204.17088 * 19 18 17 41 41 H 1.07999 * 123.92770 * 0.02562 * 24 23 21 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 1.3141 0.0000 0.0000 3 14 2.2481 1.6178 0.0000 4 1 2.4955 2.0465 -1.4001 5 1 1.4456 2.6527 0.7002 6 1 3.5457 1.4401 0.6999 7 6 2.0088 -1.2033 -0.0005 8 1 3.0888 -1.2034 -0.0010 9 7 1.3234 -2.3907 -0.0005 10 6 1.9973 -3.5578 -0.0016 11 8 3.2102 -3.5578 -0.0021 12 6 1.2438 -4.8629 -0.0010 13 7 2.1983 -5.9794 -0.0017 14 6 1.4979 -7.2708 -0.0006 15 6 2.5184 -8.4042 0.1221 16 1 3.1321 -8.2587 1.0110 17 6 3.4144 -8.4420 -1.1338 18 6 3.6038 -9.9621 -1.3800 19 6 2.2235 -10.5215 -0.9541 20 7 1.8226 -9.6970 0.2010 21 6 0.9607 -10.0674 1.1685 22 8 0.6363 -9.2734 2.0301 23 6 0.4099 -11.4384 1.1821 24 6 -0.4809 -11.9133 2.1427 25 7 -0.8174 -13.1517 1.9297 26 16 -0.0757 -13.6608 0.6562 27 7 0.7050 -12.3605 0.2925 28 1 -0.4850 0.8400 0.0004 29 1 0.3533 -2.3907 -0.0005 30 1 0.6161 -4.9205 -0.8903 31 1 0.6180 -4.9208 0.8896 32 1 2.8337 -5.9124 0.7792 33 1 0.9407 -7.3828 -0.9306 34 1 0.8088 -7.3096 0.8430 35 1 4.3726 -7.9606 -0.9385 36 1 2.9118 -7.9740 -1.9803 37 1 3.8002 -10.1660 -2.4326 38 1 4.3988 -10.3636 -0.7516 39 1 1.5035 -10.4130 -1.7653 40 1 2.3120 -11.5678 -0.6618 41 1 -0.8511 -11.3212 2.9666 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001483922021.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 22:29:43 Heat of formation + Delta-G solvation = -21.199306 kcal Electronic energy + Delta-G solvation = -26256.982166 eV Core-core repulsion = 22298.365637 eV Total energy + Delta-G solvation = -3958.616529 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.61 seconds Orbital eigenvalues (eV) -42.30713 -40.80061 -40.11345 -38.61474 -36.65838 -35.80432 -34.78899 -33.28273 -32.56086 -31.34614 -28.60489 -28.22780 -26.38859 -25.34939 -24.11451 -23.00713 -21.88006 -21.20263 -20.44471 -20.40389 -19.87905 -18.29189 -17.93448 -17.56369 -17.20025 -16.84165 -16.51467 -16.43038 -16.06445 -15.85794 -15.40293 -15.20480 -15.09411 -14.89295 -14.30490 -14.06016 -13.79646 -13.49437 -13.36794 -13.23525 -13.18430 -12.85505 -12.77179 -12.56966 -12.41969 -12.32193 -12.27581 -12.11910 -11.85112 -11.65694 -11.53780 -11.50679 -11.19321 -10.38273 -10.27530 -10.02540 -9.76704 -9.40183 -8.46800 -5.95930 -0.68500 0.32101 0.41193 0.61646 1.38332 1.41797 1.55033 1.72166 1.92422 2.03509 2.29341 2.90676 3.20015 3.24415 3.47366 3.52520 3.69338 3.79165 3.87768 3.99563 4.24697 4.25733 4.31355 4.40349 4.45610 4.49436 4.54130 4.68775 4.75438 4.93359 5.02118 5.04194 5.15681 5.25910 5.37344 5.40630 5.42172 5.80597 6.04270 6.29436 6.30685 6.58774 6.84010 7.11493 7.54661 8.09349 8.70737 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.025181 B = 0.001961 C = 0.001856 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1111.697860 B =14271.947467 C =15079.582013 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.921 5.921 2 C -0.015 4.015 3 Si 0.996 3.004 4 H -0.270 1.270 5 H -0.271 1.271 6 H -0.272 1.272 7 C -0.333 4.333 8 H 0.081 0.919 9 N -0.573 5.573 10 C 0.441 3.559 11 O -0.619 6.619 12 C 0.065 3.935 13 N -0.665 5.665 14 C 0.057 3.943 15 C 0.141 3.859 16 H 0.069 0.931 17 C -0.111 4.111 18 C -0.126 4.126 19 C 0.097 3.903 20 N -0.593 5.593 21 C 0.610 3.390 22 O -0.556 6.556 23 C -0.001 4.001 24 C 0.087 3.913 25 N -0.600 5.600 26 S 0.797 5.203 27 N -0.551 5.551 28 H 0.278 0.722 29 H 0.396 0.604 30 H 0.104 0.896 31 H 0.058 0.942 32 H 0.344 0.656 33 H 0.077 0.923 34 H 0.031 0.969 35 H 0.084 0.916 36 H 0.079 0.921 37 H 0.107 0.893 38 H 0.080 0.920 39 H 0.075 0.925 40 H 0.109 0.891 41 H 0.218 0.782 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -0.749 -31.487 -2.399 31.587 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 -0.562 5.562 2 C -0.215 4.215 3 Si 0.819 3.181 4 H -0.195 1.195 5 H -0.196 1.196 6 H -0.197 1.197 7 C -0.463 4.463 8 H 0.099 0.901 9 N -0.211 5.211 10 C 0.228 3.772 11 O -0.506 6.506 12 C -0.067 4.067 13 N -0.298 5.298 14 C -0.073 4.073 15 C 0.038 3.962 16 H 0.087 0.913 17 C -0.149 4.149 18 C -0.164 4.164 19 C -0.025 4.025 20 N -0.325 5.325 21 C 0.393 3.607 22 O -0.434 6.434 23 C -0.173 4.173 24 C -0.104 4.104 25 N -0.443 5.443 26 S 0.839 5.161 27 N -0.403 5.403 28 H 0.087 0.913 29 H 0.230 0.770 30 H 0.122 0.878 31 H 0.076 0.924 32 H 0.162 0.838 33 H 0.095 0.905 34 H 0.049 0.951 35 H 0.103 0.897 36 H 0.098 0.902 37 H 0.125 0.875 38 H 0.099 0.901 39 H 0.093 0.907 40 H 0.127 0.873 41 H 0.235 0.765 Dipole moment (debyes) X Y Z Total from point charges -0.306 -32.818 -3.475 33.003 hybrid contribution -0.694 2.754 1.974 3.458 sum -1.000 -30.065 -1.501 30.119 Atomic orbital electron populations 1.69679 1.06910 1.29330 1.50315 1.26094 0.96583 1.02563 0.96259 0.84891 0.77850 0.76665 0.78700 1.19515 1.19595 1.19673 1.19690 0.92767 0.83920 1.49908 0.90120 1.41938 1.09338 1.04759 1.65026 1.20721 0.88226 0.85957 0.82292 1.90480 1.15602 1.87897 1.56578 1.21517 0.94058 0.88369 1.02777 1.60096 1.18562 1.00174 1.50948 1.22267 0.95836 0.88052 1.01144 1.21582 0.92564 0.81603 1.00480 0.91260 1.22562 0.99495 0.97321 0.95520 1.22863 0.95937 0.93880 1.03729 1.22829 0.96376 0.96564 0.86692 1.48382 1.42626 1.16860 1.24651 1.16714 0.78514 0.84477 0.80955 1.90840 1.60644 1.52640 1.39309 1.22068 1.03655 0.96068 0.95535 1.23785 0.95471 0.90038 1.01124 1.72151 1.30705 1.16839 1.24567 1.78834 1.16231 1.13856 1.07226 1.72508 1.28376 1.08980 1.30474 0.91292 0.77047 0.87785 0.92412 0.83815 0.90468 0.95119 0.89718 0.90217 0.87481 0.90142 0.90665 0.87303 0.76537 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 -0.92 -50.72 13.05 21.66 0.28 -50.44 16 2 C -0.02 -0.84 5.50 84.93 0.47 -0.37 16 3 Si 1.00 43.54 29.55 68.60 2.03 45.57 16 4 H -0.27 -11.40 7.11 99.48 0.71 -10.70 16 5 H -0.27 -11.23 7.11 99.48 0.71 -10.53 16 6 H -0.27 -11.91 7.11 99.48 0.71 -11.20 16 7 C -0.33 -19.29 9.68 84.04 0.81 -18.48 16 8 H 0.08 4.94 7.16 -2.91 -0.02 4.92 16 9 N -0.57 -30.32 5.29 -306.99 -1.62 -31.95 16 10 C 0.44 21.66 7.82 87.66 0.69 22.34 16 11 O -0.62 -34.82 15.78 -3.05 -0.05 -34.87 16 12 C 0.07 2.41 6.16 85.56 0.53 2.94 16 13 N -0.67 -22.18 5.92 -517.92 -3.06 -25.24 16 14 C 0.06 1.57 5.08 86.30 0.44 2.01 16 15 C 0.14 3.26 3.04 45.34 0.14 3.40 16 16 H 0.07 1.75 8.14 -2.39 -0.02 1.73 16 17 C -0.11 -2.07 6.25 31.78 0.20 -1.87 16 18 C -0.13 -1.58 7.08 31.98 0.23 -1.35 16 19 C 0.10 1.42 6.25 86.84 0.54 1.96 16 20 N -0.59 -12.45 3.07 -791.41 -2.43 -14.88 16 21 C 0.61 14.55 7.67 86.76 0.67 15.21 16 22 O -0.56 -16.90 15.62 -3.94 -0.06 -16.96 16 23 C 0.00 -0.02 6.71 41.98 0.28 0.26 16 24 C 0.09 1.45 11.22 85.22 0.96 2.41 16 25 N -0.60 -8.97 11.41 -92.47 -1.05 -10.02 16 26 S 0.80 7.27 23.69 -56.49 -1.34 5.93 16 27 N -0.55 -7.76 8.22 -80.61 -0.66 -8.42 16 28 H 0.28 14.28 8.31 -92.71 -0.77 13.51 16 29 H 0.40 19.99 7.90 -92.71 -0.73 19.26 16 30 H 0.10 3.47 8.14 -2.38 -0.02 3.45 16 31 H 0.06 2.00 8.14 -2.39 -0.02 1.99 16 32 H 0.34 12.11 8.36 -89.69 -0.75 11.36 16 33 H 0.08 2.03 8.07 -2.39 -0.02 2.01 16 34 H 0.03 0.96 6.59 -2.39 -0.02 0.94 16 35 H 0.08 1.67 8.14 -2.39 -0.02 1.65 16 36 H 0.08 1.60 7.80 -2.39 -0.02 1.58 16 37 H 0.11 0.92 8.14 -2.39 -0.02 0.90 16 38 H 0.08 0.94 8.14 -2.39 -0.02 0.92 16 39 H 0.08 1.04 8.14 -2.39 -0.02 1.02 16 40 H 0.11 1.44 5.82 -2.39 -0.01 1.43 16 41 H 0.22 3.21 8.06 -2.91 -0.02 3.19 16 Total: -1.00 -72.99 360.41 -2.41 -75.40 By element: Atomic # 1 Polarization: 37.80 SS G_CDS: -0.38 Total: 37.42 kcal Atomic # 6 Polarization: 22.52 SS G_CDS: 5.94 Total: 28.46 kcal Atomic # 7 Polarization: -132.40 SS G_CDS: -8.55 Total: -140.94 kcal Atomic # 8 Polarization: -51.72 SS G_CDS: -0.11 Total: -51.83 kcal Atomic # 14 Polarization: 43.54 SS G_CDS: 2.03 Total: 45.57 kcal Atomic # 16 Polarization: 7.27 SS G_CDS: -1.34 Total: 5.93 kcal Total: -72.99 -2.41 -75.40 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. ZINC001483922021.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 54.199 kcal (2) G-P(sol) polarization free energy of solvation -72.991 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -18.792 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.407 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.398 kcal (6) G-S(sol) free energy of system = (1) + (5) -21.199 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.61 seconds