Wall clock time and date at job start Mon Mar 30 2020 03:21:28 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 1.31523 * 1 3 3 Si 1.86801 * 119.99885 * 2 1 4 4 H 1.48497 * 109.47029 * 240.00022 * 3 2 1 5 5 H 1.48496 * 109.47199 * 359.97438 * 3 2 1 6 6 H 1.48502 * 109.47134 * 120.00138 * 3 2 1 7 7 C 1.37874 * 120.00092 * 180.02562 * 2 1 3 8 8 H 1.07997 * 120.00559 * 180.02562 * 7 2 1 9 9 C 1.50707 * 119.99712 * 359.97438 * 7 2 1 10 10 C 1.53004 * 109.47017 * 180.02562 * 9 7 2 11 11 N 1.46897 * 109.47155 * 180.02562 * 10 9 7 12 12 C 1.46901 * 110.99808 * 179.97438 * 11 10 9 13 13 H 1.09002 * 110.33869 * 34.29970 * 12 11 10 14 14 C 1.54063 * 110.38139 * 272.02953 * 12 11 10 15 15 N 1.48244 * 106.69781 * 242.07641 * 14 12 11 16 16 C 1.48807 * 105.17544 * 332.52105 * 15 14 12 17 17 C 1.54991 * 110.37733 * 156.57192 * 12 11 10 18 18 H 1.09007 * 113.20296 * 265.40889 * 17 12 11 19 19 C 1.54011 * 107.05883 * 31.51356 * 17 12 11 20 20 C 1.53157 * 108.50309 * 45.88395 * 19 17 12 21 21 C 1.47678 * 108.91332 * 88.17275 * 15 14 12 22 22 H 0.96998 * 119.99748 * 0.02562 * 1 2 3 23 23 H 1.09002 * 109.46910 * 60.00404 * 9 7 2 24 24 H 1.08996 * 109.46872 * 299.99966 * 9 7 2 25 25 H 1.08998 * 109.47164 * 59.99842 * 10 9 7 26 26 H 1.09006 * 109.47169 * 300.00199 * 10 9 7 27 27 H 1.00895 * 111.00033 * 303.95133 * 11 10 9 28 28 H 1.08999 * 110.01205 * 1.38557 * 14 12 11 29 29 H 1.09000 * 110.01261 * 122.71972 * 14 12 11 30 30 H 1.09000 * 110.92984 * 160.89565 * 16 15 14 31 31 H 1.09001 * 110.93138 * 284.55694 * 16 15 14 32 32 H 1.08994 * 109.63771 * 165.59121 * 19 17 12 33 33 H 1.08998 * 109.63078 * 286.18769 * 19 17 12 34 34 H 1.09000 * 109.36623 * 174.18878 * 20 19 17 35 35 H 1.08993 * 109.36784 * 293.93838 * 20 19 17 36 36 H 1.09005 * 109.50045 * 72.86058 * 21 15 14 37 37 H 1.08996 * 109.49860 * 192.97036 * 21 15 14 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 1.6178 0.0000 4 1 3.1029 1.6964 -1.2125 5 1 1.2842 2.7464 -0.0006 6 1 3.1030 1.6964 1.2125 7 6 2.0046 -1.1940 -0.0005 8 1 3.0846 -1.1941 -0.0001 9 6 1.2510 -2.4992 -0.0005 10 6 2.2453 -3.6621 -0.0005 11 7 1.5108 -4.9343 -0.0012 12 6 2.4353 -6.0759 -0.0018 13 1 3.3299 -5.8392 0.5742 14 6 2.8126 -6.4599 -1.4453 15 7 2.3285 -7.8448 -1.6580 16 6 2.3315 -8.4702 -0.3077 17 6 1.7389 -7.3346 0.5753 18 1 1.9218 -7.4762 1.6405 19 6 0.2460 -7.2318 0.2114 20 6 0.1314 -6.8292 -1.2618 21 6 0.9325 -7.7956 -2.1373 22 1 -0.4850 0.8400 -0.0004 23 1 0.6241 -2.5567 -0.8904 24 1 0.6248 -2.5570 0.8897 25 1 2.8720 -3.6044 0.8894 26 1 2.8720 -3.6044 -0.8905 27 1 0.8742 -4.9846 0.7800 28 1 2.3290 -5.7833 -2.1498 29 1 3.8945 -6.4187 -1.5716 30 1 1.6927 -9.3532 -0.2862 31 1 3.3461 -8.7177 0.0046 32 1 -0.2360 -8.1971 0.3658 33 1 -0.2319 -6.4766 0.8355 34 1 -0.9161 -6.8526 -1.5625 35 1 0.5225 -5.8202 -1.3923 36 1 0.9147 -7.4502 -3.1710 37 1 0.4922 -8.7909 -2.0779 RHF calculation, no. of doubly occupied orbitals= 43 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). 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 ZINC000926131101.mol2 37 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 03:21:28 Heat of formation + Delta-G solvation = -9.082080 kcal Electronic energy + Delta-G solvation = -16075.776168 eV Core-core repulsion = 13658.843274 eV Total energy + Delta-G solvation = -2416.932895 eV No. of doubly occupied orbitals = 43 Molecular weight (most abundant/longest-lived isotopes) = 224.158 amu Computer time = 0.28 seconds Orbital eigenvalues (eV) -41.89331 -36.97626 -34.93457 -33.09327 -32.49045 -30.95256 -28.48104 -26.04316 -24.89103 -23.68434 -22.54450 -20.88506 -20.18097 -18.50926 -17.71359 -16.67519 -16.47387 -16.04960 -15.54292 -15.08893 -14.92771 -14.28792 -14.02711 -13.73755 -13.52990 -13.19409 -13.13685 -12.83052 -12.66672 -12.47484 -12.37741 -12.10894 -11.90815 -11.64925 -11.38045 -11.30064 -11.23290 -11.09525 -10.57087 -9.49177 -9.07084 -8.21441 -6.33009 1.39523 1.42566 1.50558 2.39549 3.07927 3.12043 3.33315 3.54538 3.93476 4.04415 4.23070 4.30121 4.33763 4.40526 4.52713 4.56206 4.60979 4.69445 4.75852 4.91557 4.98444 5.01363 5.05091 5.13172 5.15892 5.24428 5.29524 5.43941 5.63691 5.75910 5.79821 5.93197 6.03401 6.15184 6.30348 6.50346 6.84143 7.36423 8.90341 Molecular weight = 224.16amu Principal moments of inertia in cm(-1) A = 0.053292 B = 0.005670 C = 0.005531 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 525.285120 B = 4937.233220 C = 5060.799771 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.931 5.931 2 C 0.002 3.998 3 Si 0.966 3.034 4 H -0.267 1.267 5 H -0.282 1.282 6 H -0.267 1.267 7 C -0.546 4.546 8 H 0.059 0.941 9 C 0.035 3.965 10 C 0.082 3.918 11 N -0.672 5.672 12 C 0.058 3.942 13 H 0.046 0.954 14 C 0.041 3.959 15 N -0.503 5.503 16 C 0.037 3.963 17 C -0.126 4.126 18 H 0.102 0.898 19 C -0.099 4.099 20 C -0.178 4.178 21 C 0.040 3.960 22 H 0.264 0.736 23 H -0.006 1.006 24 H -0.010 1.010 25 H 0.016 0.984 26 H 0.056 0.944 27 H 0.339 0.661 28 H 0.064 0.936 29 H 0.077 0.923 30 H 0.093 0.907 31 H 0.089 0.911 32 H 0.070 0.930 33 H 0.054 0.946 34 H 0.053 0.947 35 H 0.099 0.901 36 H 0.066 0.934 37 H 0.081 0.919 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 3.344 -16.618 0.216 16.952 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 -0.571 5.571 2 C -0.196 4.196 3 Si 0.790 3.210 4 H -0.192 1.192 5 H -0.208 1.208 6 H -0.192 1.192 7 C -0.585 4.585 8 H 0.077 0.923 9 C -0.003 4.003 10 C -0.047 4.047 11 N -0.303 5.303 12 C -0.054 4.054 13 H 0.064 0.936 14 C -0.089 4.089 15 N -0.225 5.225 16 C -0.092 4.092 17 C -0.146 4.146 18 H 0.120 0.880 19 C -0.137 4.137 20 C -0.217 4.217 21 C -0.089 4.089 22 H 0.073 0.927 23 H 0.013 0.987 24 H 0.008 0.992 25 H 0.035 0.965 26 H 0.074 0.926 27 H 0.159 0.841 28 H 0.083 0.917 29 H 0.095 0.905 30 H 0.112 0.888 31 H 0.107 0.893 32 H 0.089 0.911 33 H 0.073 0.927 34 H 0.072 0.928 35 H 0.117 0.883 36 H 0.085 0.915 37 H 0.099 0.901 Dipole moment (debyes) X Y Z Total from point charges 3.471 -16.830 -0.914 17.209 hybrid contribution -0.172 1.723 1.455 2.262 sum 3.299 -15.107 0.541 15.473 Atomic orbital electron populations 1.70100 1.07801 1.27863 1.51365 1.25960 0.95751 1.03325 0.94587 0.85491 0.78266 0.78053 0.79173 1.19217 1.20763 1.19152 1.21593 0.93493 0.92363 1.51036 0.92284 1.18884 0.94211 0.92224 0.94941 1.21845 0.95592 0.88746 0.98520 1.60866 1.19252 1.01152 1.49081 1.22924 0.94305 0.91029 0.97115 0.93618 1.23078 1.00179 0.90203 0.95392 1.66432 1.19175 1.13751 1.23094 1.23620 1.01865 0.96492 0.87200 1.23340 0.96247 0.94433 1.00560 0.88022 1.21561 0.94812 1.00978 0.96325 1.22642 1.00305 1.03475 0.95259 1.22538 0.88146 0.99730 0.98488 0.92739 0.98743 0.99184 0.96542 0.92581 0.84095 0.91703 0.90497 0.88832 0.89288 0.91103 0.92696 0.92775 0.88330 0.91512 0.90104 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 14. 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 -57.10 13.29 21.45 0.28 -56.81 16 2 C 0.00 0.11 5.46 84.65 0.46 0.57 16 3 Si 0.97 44.42 29.54 68.60 2.03 46.45 16 4 H -0.27 -11.83 7.11 99.48 0.71 -11.12 16 5 H -0.28 -12.68 7.11 99.48 0.71 -11.97 16 6 H -0.27 -11.74 7.11 99.48 0.71 -11.03 16 7 C -0.55 -31.37 9.11 25.60 0.23 -31.14 16 8 H 0.06 3.24 7.74 -2.91 -0.02 3.22 16 9 C 0.03 1.86 5.23 29.85 0.16 2.01 16 10 C 0.08 3.41 5.47 86.30 0.47 3.89 16 11 N -0.67 -22.90 3.26 -486.20 -1.59 -24.48 16 12 C 0.06 1.60 2.96 45.96 0.14 1.73 16 13 H 0.05 1.30 7.84 -2.39 -0.02 1.28 16 14 C 0.04 1.13 6.05 86.40 0.52 1.66 16 15 N -0.50 -12.27 6.07 -877.63 -5.32 -17.59 16 16 C 0.04 0.73 6.42 86.82 0.56 1.28 16 17 C -0.13 -2.76 4.18 -8.88 -0.04 -2.80 16 18 H 0.10 1.96 8.14 -2.38 -0.02 1.94 16 19 C -0.10 -2.28 5.04 30.99 0.16 -2.13 16 20 C -0.18 -4.68 5.44 30.66 0.17 -4.51 16 21 C 0.04 0.93 5.85 86.17 0.50 1.44 16 22 H 0.26 15.20 8.31 -92.71 -0.77 14.43 16 23 H -0.01 -0.34 8.14 -2.39 -0.02 -0.36 16 24 H -0.01 -0.58 8.14 -2.39 -0.02 -0.60 16 25 H 0.02 0.68 8.08 -2.39 -0.02 0.66 16 26 H 0.06 2.36 8.14 -2.38 -0.02 2.34 16 27 H 0.34 11.48 6.81 -89.70 -0.61 10.87 16 28 H 0.06 2.08 6.77 -2.39 -0.02 2.06 16 29 H 0.08 2.04 8.14 -2.39 -0.02 2.02 16 30 H 0.09 1.57 7.70 -2.39 -0.02 1.55 16 31 H 0.09 1.60 8.14 -2.39 -0.02 1.58 16 32 H 0.07 1.38 8.07 -2.39 -0.02 1.36 16 33 H 0.05 1.38 6.81 -2.39 -0.02 1.37 16 34 H 0.05 1.39 8.14 -2.39 -0.02 1.37 16 35 H 0.10 3.23 4.12 -2.39 -0.01 3.22 16 36 H 0.07 1.63 8.14 -2.38 -0.02 1.62 16 37 H 0.08 1.62 7.87 -2.39 -0.02 1.61 16 Total: -1.00 -62.17 279.93 -0.84 -63.02 By element: Atomic # 1 Polarization: 16.99 SS G_CDS: 0.43 Total: 17.41 kcal Atomic # 6 Polarization: -31.32 SS G_CDS: 3.33 Total: -27.99 kcal Atomic # 7 Polarization: -92.26 SS G_CDS: -6.62 Total: -98.88 kcal Atomic # 14 Polarization: 44.42 SS G_CDS: 2.03 Total: 46.45 kcal Total: -62.17 -0.84 -63.02 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. ZINC000926131101.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 53.935 kcal (2) G-P(sol) polarization free energy of solvation -62.175 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -8.239 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.843 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -63.017 kcal (6) G-S(sol) free energy of system = (1) + (5) -9.082 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.28 seconds