Wall clock time and date at job start Tue Mar 31 2020 18:02:50 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 1.31611 * 1 3 3 Si 1.86806 * 119.99537 * 2 1 4 4 H 1.48504 * 109.46831 * 240.00066 * 3 2 1 5 5 H 1.48497 * 109.47092 * 0.02562 * 3 2 1 6 6 H 1.48502 * 109.47108 * 120.00545 * 3 2 1 7 7 C 1.38807 * 120.00453 * 180.02562 * 2 1 3 8 8 H 1.08000 * 120.00037 * 163.07085 * 7 2 1 9 9 N 1.36936 * 120.00146 * 343.06993 * 7 2 1 10 10 C 1.46929 * 120.62795 * 331.83792 * 9 7 2 11 11 C 1.53194 * 108.77428 * 233.63055 * 10 9 7 12 12 C 1.53039 * 109.31363 * 305.36497 * 11 10 9 13 13 C 1.52994 * 109.46286 * 181.38890 * 12 11 10 14 14 N 1.46496 * 109.47380 * 174.97182 * 13 12 11 15 15 C 1.34780 * 120.00137 * 180.27215 * 14 13 12 16 16 O 1.21695 * 119.99689 * 359.72796 * 15 14 13 17 17 C 1.46583 * 119.99906 * 179.72265 * 15 14 13 18 18 C 1.35866 * 125.41471 * 179.97438 * 17 15 14 19 19 C 1.39171 * 114.00008 * 179.97438 * 18 17 15 20 20 C 1.34361 * 113.99968 * 0.02562 * 19 18 17 21 21 S 1.71486 * 111.07360 * 359.71673 * 20 19 18 22 22 C 1.52370 * 110.38795 * 179.97438 * 20 19 18 23 23 C 1.54154 * 104.90175 * 342.44799 * 22 20 19 24 24 C 1.52825 * 136.18834 * 180.02562 * 19 18 17 25 25 C 1.53037 * 109.52833 * 61.36792 * 12 11 10 26 26 C 1.46928 * 120.63307 * 151.85906 * 9 7 2 27 27 H 0.96996 * 120.00735 * 359.97438 * 1 2 3 28 28 H 1.08996 * 109.58762 * 113.84145 * 10 9 7 29 29 H 1.09004 * 109.70497 * 353.48300 * 10 9 7 30 30 H 1.08997 * 109.49662 * 185.41395 * 11 10 9 31 31 H 1.08998 * 109.52510 * 65.33496 * 11 10 9 32 32 H 1.09001 * 109.45705 * 301.36159 * 12 11 10 33 33 H 1.09006 * 109.47424 * 54.96728 * 13 12 11 34 34 H 1.09007 * 109.47049 * 294.97331 * 13 12 11 35 35 H 0.97001 * 120.00316 * 359.97438 * 14 13 12 36 36 H 1.08005 * 123.00318 * 0.02562 * 18 17 15 37 37 H 1.09007 * 110.35098 * 223.59039 * 22 20 19 38 38 H 1.09003 * 110.44710 * 101.35406 * 22 20 19 39 39 H 1.09007 * 110.95885 * 268.59695 * 23 22 20 40 40 H 1.08999 * 110.99215 * 144.87392 * 23 22 20 41 41 H 1.09004 * 110.33220 * 316.50543 * 24 19 18 42 42 H 1.09000 * 110.33363 * 78.63235 * 24 19 18 43 43 H 1.09004 * 109.49372 * 58.58280 * 25 12 11 44 44 H 1.09000 * 109.49882 * 178.67778 * 25 12 11 45 45 H 1.09003 * 109.58013 * 246.15498 * 26 9 7 46 46 H 1.08999 * 109.58577 * 6.44026 * 26 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 1.3161 0.0000 0.0000 3 14 2.2500 1.6179 0.0000 4 1 3.1037 1.6965 -1.2126 5 1 1.2849 2.7465 0.0006 6 1 3.1039 1.6965 1.2125 7 6 2.0102 -1.2021 -0.0005 8 1 3.0551 -1.2221 -0.2729 9 7 1.3702 -2.3625 0.3443 10 6 0.2264 -2.3409 1.2662 11 6 0.4985 -3.3202 2.4124 12 6 0.8136 -4.7016 1.8340 13 6 1.0519 -5.6905 2.9767 14 7 1.2348 -7.0363 2.4278 15 6 1.4548 -8.0774 3.2550 16 8 1.5065 -7.8986 4.4576 17 6 1.6318 -9.4250 2.7060 18 6 1.8588 -10.5487 3.4352 19 6 1.9901 -11.7035 2.6697 20 6 1.8691 -11.4991 1.3472 21 16 1.5765 -9.8447 1.0032 22 6 2.0267 -12.8122 0.5905 23 6 2.7014 -13.7691 1.5933 24 6 2.2428 -13.1855 2.9437 25 6 2.0688 -4.6171 0.9626 26 6 1.8145 -3.6528 -0.2002 27 1 -0.4851 0.8400 0.0004 28 1 -0.6767 -2.6418 0.7352 29 1 0.0966 -1.3358 1.6675 30 1 -0.3819 -3.3857 3.0517 31 1 1.3479 -2.9686 2.9981 32 1 -0.0265 -5.0419 1.2285 33 1 0.1924 -5.6852 3.6471 34 1 1.9453 -5.3989 3.5292 35 1 1.1933 -7.1790 1.4692 36 1 1.9303 -10.5462 4.5129 37 1 2.6608 -12.6715 -0.2849 38 1 1.0522 -13.1998 0.2935 39 1 3.7867 -13.7295 1.5002 40 1 2.3379 -14.7887 1.4651 41 1 3.0255 -13.3041 3.6930 42 1 1.3251 -13.6712 3.2756 43 1 2.9036 -4.2529 1.5615 44 1 2.3063 -5.6057 0.5698 45 1 1.0408 -4.0606 -0.8509 46 1 2.7337 -3.5123 -0.7690 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 ZINC000123000911.mol2 46 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 18:02:50 Heat of formation + Delta-G solvation = -12.227315 kcal Electronic energy + Delta-G solvation = -25635.285880 eV Core-core repulsion = 22036.480712 eV Total energy + Delta-G solvation = -3598.805168 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 334.146 amu Computer time = 0.83 seconds Orbital eigenvalues (eV) -41.08494 -40.21866 -39.31577 -36.49718 -35.34319 -34.54254 -32.60181 -31.44657 -29.77581 -29.30409 -28.12148 -25.96822 -24.46477 -23.76598 -22.82330 -22.44847 -21.43611 -20.69633 -19.71032 -19.00843 -18.60367 -17.35289 -16.87083 -16.83806 -16.59159 -16.39374 -15.74053 -15.51215 -15.31263 -15.14092 -14.96116 -14.78031 -14.07501 -13.90276 -13.79754 -13.74750 -13.41645 -13.32776 -13.01444 -12.96118 -12.82736 -12.69357 -12.55663 -12.29187 -12.04835 -12.03545 -11.91180 -11.85504 -11.70707 -11.65195 -11.39199 -11.14806 -11.09871 -10.52659 -10.28170 -9.66404 -9.32726 -8.66624 -7.86918 -5.31858 -0.53588 0.31899 0.89508 1.25869 1.46334 1.49066 1.55481 2.00371 2.07460 2.51564 3.27374 3.46002 3.56885 3.69968 3.76693 3.85493 3.91817 4.05117 4.16307 4.19100 4.37107 4.47944 4.52385 4.63724 4.65446 4.69106 4.75806 4.81266 4.85667 4.91648 4.92248 4.97705 5.00482 5.10178 5.16503 5.23682 5.25052 5.26782 5.29445 5.36371 5.38514 5.41336 5.54636 5.65924 5.78466 6.33734 6.40366 6.99882 7.16182 7.88309 8.39190 9.19143 Molecular weight = 334.15amu Principal moments of inertia in cm(-1) A = 0.029078 B = 0.002095 C = 0.002015 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 962.685528 B =13362.537104 C =13892.541144 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.934 5.934 2 C -0.051 4.051 3 Si 0.965 3.035 4 H -0.275 1.275 5 H -0.294 1.294 6 H -0.280 1.280 7 C -0.262 4.262 8 H 0.064 0.936 9 N -0.612 5.612 10 C 0.177 3.823 11 C -0.122 4.122 12 C -0.079 4.079 13 C 0.136 3.864 14 N -0.711 5.711 15 C 0.589 3.411 16 O -0.575 6.575 17 C -0.296 4.296 18 C -0.043 4.043 19 C -0.157 4.157 20 C -0.219 4.219 21 S 0.249 5.751 22 C -0.047 4.047 23 C -0.112 4.112 24 C -0.059 4.059 25 C -0.116 4.116 26 C 0.140 3.860 27 H 0.250 0.750 28 H -0.001 1.001 29 H 0.052 0.948 30 H 0.070 0.930 31 H 0.051 0.949 32 H 0.078 0.922 33 H 0.068 0.932 34 H 0.061 0.939 35 H 0.408 0.592 36 H 0.143 0.857 37 H 0.090 0.910 38 H 0.099 0.901 39 H 0.079 0.921 40 H 0.104 0.896 41 H 0.080 0.920 42 H 0.089 0.911 43 H 0.052 0.948 44 H 0.080 0.920 45 H 0.019 0.981 46 H 0.052 0.948 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 3.431 -30.145 1.745 30.390 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 -0.580 5.580 2 C -0.247 4.247 3 Si 0.793 3.207 4 H -0.201 1.201 5 H -0.220 1.220 6 H -0.206 1.206 7 C -0.393 4.393 8 H 0.082 0.918 9 N -0.336 5.336 10 C 0.051 3.949 11 C -0.161 4.161 12 C -0.098 4.098 13 C 0.012 3.988 14 N -0.362 5.362 15 C 0.377 3.623 16 O -0.456 6.456 17 C -0.416 4.416 18 C -0.077 4.077 19 C -0.169 4.169 20 C -0.339 4.339 21 S 0.520 5.480 22 C -0.086 4.086 23 C -0.151 4.151 24 C -0.097 4.097 25 C -0.155 4.155 26 C 0.015 3.985 27 H 0.059 0.941 28 H 0.018 0.982 29 H 0.070 0.930 30 H 0.089 0.911 31 H 0.070 0.930 32 H 0.096 0.904 33 H 0.086 0.914 34 H 0.080 0.920 35 H 0.245 0.755 36 H 0.160 0.840 37 H 0.108 0.892 38 H 0.117 0.883 39 H 0.097 0.903 40 H 0.123 0.877 41 H 0.098 0.902 42 H 0.107 0.893 43 H 0.071 0.929 44 H 0.099 0.901 45 H 0.037 0.963 46 H 0.071 0.929 Dipole moment (debyes) X Y Z Total from point charges 3.127 -28.964 1.196 29.157 hybrid contribution 0.305 0.760 1.035 1.320 sum 3.432 -28.204 2.231 28.500 Atomic orbital electron populations 1.70161 1.06576 1.25875 1.55411 1.25780 0.96062 1.01443 1.01404 0.85379 0.77605 0.79404 0.78288 1.20055 1.22032 1.20636 1.19459 0.92771 0.86163 1.40874 0.91785 1.44323 1.35986 1.02417 1.50832 1.20570 0.87852 0.97506 0.88931 1.21978 1.01011 0.94795 0.98339 1.21164 0.98848 0.94128 0.95656 1.21384 1.01550 0.79822 0.96005 1.45828 1.72448 1.07505 1.10433 1.17185 0.75860 0.83532 0.85728 1.90796 1.53372 1.85484 1.15995 1.24113 1.20840 0.97105 0.99532 1.20364 0.96084 0.89884 1.01376 1.20676 1.06103 0.97526 0.92578 1.26219 1.06052 1.01003 1.00649 1.82705 1.66321 0.97802 1.01218 1.21080 1.02818 0.86732 0.98002 1.22328 1.01149 0.99436 0.92170 1.21123 1.02457 0.86851 0.99314 1.21943 0.96890 0.99286 0.97361 1.21062 0.97366 0.85938 0.94113 0.94125 0.98249 0.92965 0.91120 0.93026 0.90403 0.91365 0.92023 0.75547 0.83957 0.89199 0.88296 0.90273 0.87715 0.90164 0.89306 0.92939 0.90131 0.96296 0.92907 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 -55.45 11.19 21.65 0.24 -55.20 16 2 C -0.05 -2.89 4.92 84.86 0.42 -2.48 16 3 Si 0.97 45.19 29.59 68.60 2.03 47.22 16 4 H -0.27 -12.40 7.11 99.48 0.71 -11.70 16 5 H -0.29 -13.83 7.11 99.48 0.71 -13.12 16 6 H -0.28 -12.83 7.11 99.48 0.71 -12.12 16 7 C -0.26 -14.48 9.58 84.03 0.81 -13.68 16 8 H 0.06 3.45 7.88 -2.91 -0.02 3.43 16 9 N -0.61 -30.50 2.99 -699.09 -2.09 -32.60 16 10 C 0.18 8.46 5.30 86.36 0.46 8.92 16 11 C -0.12 -4.45 5.36 30.67 0.16 -4.29 16 12 C -0.08 -2.39 2.19 -10.77 -0.02 -2.41 16 13 C 0.14 3.77 5.06 86.38 0.44 4.20 16 14 N -0.71 -17.82 5.27 -467.18 -2.46 -20.28 16 15 C 0.59 16.83 7.78 86.42 0.67 17.50 16 16 O -0.57 -20.67 16.82 -4.33 -0.07 -20.74 16 17 C -0.30 -6.94 6.41 23.90 0.15 -6.79 16 18 C -0.04 -0.94 9.99 21.94 0.22 -0.73 16 19 C -0.16 -2.67 6.49 -19.84 -0.13 -2.80 16 20 C -0.22 -3.35 7.10 25.34 0.18 -3.17 16 21 S 0.25 4.20 22.15 -56.49 -1.25 2.95 16 22 C -0.05 -0.40 6.80 30.78 0.21 -0.19 16 23 C -0.11 -0.71 7.10 31.36 0.22 -0.49 16 24 C -0.06 -0.60 6.81 30.91 0.21 -0.39 16 25 C -0.12 -3.62 5.25 30.67 0.16 -3.46 16 26 C 0.14 5.59 6.52 86.36 0.56 6.16 16 27 H 0.25 14.40 8.31 -92.71 -0.77 13.63 16 28 H 0.00 -0.03 8.14 -2.39 -0.02 -0.05 16 29 H 0.05 2.86 6.06 -2.38 -0.01 2.84 16 30 H 0.07 2.31 8.14 -2.39 -0.02 2.29 16 31 H 0.05 1.96 8.14 -2.39 -0.02 1.94 16 32 H 0.08 2.28 8.14 -2.39 -0.02 2.26 16 33 H 0.07 1.92 8.14 -2.38 -0.02 1.90 16 34 H 0.06 1.84 8.14 -2.38 -0.02 1.82 16 35 H 0.41 8.43 6.76 -92.71 -0.63 7.81 16 36 H 0.14 3.20 8.05 -2.91 -0.02 3.18 16 37 H 0.09 0.60 8.14 -2.38 -0.02 0.58 16 38 H 0.10 0.62 8.14 -2.39 -0.02 0.60 16 39 H 0.08 0.48 8.14 -2.38 -0.02 0.46 16 40 H 0.10 0.24 8.14 -2.39 -0.02 0.22 16 41 H 0.08 0.75 8.14 -2.39 -0.02 0.74 16 42 H 0.09 0.76 8.14 -2.39 -0.02 0.74 16 43 H 0.05 1.76 8.14 -2.38 -0.02 1.74 16 44 H 0.08 1.98 7.15 -2.39 -0.02 1.97 16 45 H 0.02 0.75 8.14 -2.39 -0.02 0.73 16 46 H 0.05 2.08 7.93 -2.39 -0.02 2.06 16 Total: -1.00 -70.26 378.14 1.47 -68.79 By element: Atomic # 1 Polarization: 13.59 SS G_CDS: 0.35 Total: 13.95 kcal Atomic # 6 Polarization: -8.81 SS G_CDS: 4.72 Total: -4.09 kcal Atomic # 7 Polarization: -103.76 SS G_CDS: -4.31 Total: -108.07 kcal Atomic # 8 Polarization: -20.67 SS G_CDS: -0.07 Total: -20.74 kcal Atomic # 14 Polarization: 45.19 SS G_CDS: 2.03 Total: 47.22 kcal Atomic # 16 Polarization: 4.20 SS G_CDS: -1.25 Total: 2.95 kcal Total: -70.26 1.47 -68.79 kcal The number of atoms in the molecule is 46 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. ZINC000123000911.mol2 46 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 56.563 kcal (2) G-P(sol) polarization free energy of solvation -70.261 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -13.699 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.471 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.790 kcal (6) G-S(sol) free energy of system = (1) + (5) -12.227 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.83 seconds