Wall clock time and date at job start Tue Mar 31 2020 05:51:07 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 C 2 2 C 1.53003 * 1 3 3 C 1.53001 * 109.46925 * 2 1 4 4 C 1.52997 * 109.47386 * 179.97438 * 3 2 1 5 5 N 1.46495 * 109.47470 * 180.02562 * 4 3 2 6 6 C 1.36935 * 119.99997 * 265.79539 * 5 4 3 7 7 H 1.08004 * 120.00324 * 140.62292 * 6 5 4 8 8 C 1.38816 * 120.00035 * 320.61883 * 6 5 4 9 9 N 1.31615 * 119.99687 * 157.37465 * 8 6 5 10 10 Si 1.86792 * 119.99740 * 337.37603 * 8 6 5 11 11 H 1.48506 * 109.47195 * 94.99675 * 10 8 6 12 12 H 1.48497 * 109.47178 * 214.99516 * 10 8 6 13 13 H 1.48502 * 109.47352 * 334.99761 * 10 8 6 14 14 C 1.46500 * 120.00121 * 85.78981 * 5 4 3 15 15 C 1.50697 * 109.47041 * 87.11433 * 14 5 4 16 16 C 1.36131 * 119.77106 * 258.08929 * 15 14 5 17 17 C 1.38813 * 120.59210 * 180.25418 * 16 15 14 18 18 C 1.37501 * 120.18781 * 0.04400 * 17 16 15 19 19 C 1.39813 * 120.17817 * 359.95951 * 18 17 16 20 20 S 1.75897 * 130.56904 * 180.02562 * 19 18 17 21 21 C 1.75298 * 92.19912 * 179.97438 * 20 19 18 22 22 C 1.31825 * 111.40784 * 0.02562 * 21 20 19 23 23 C 1.39777 * 119.75634 * 0.02562 * 19 18 17 24 24 H 1.08996 * 109.47406 * 60.00172 * 1 2 3 25 25 H 1.09002 * 109.46746 * 179.97438 * 1 2 3 26 26 H 1.08999 * 109.47017 * 299.99674 * 1 2 3 27 27 H 1.08996 * 109.47372 * 239.99657 * 2 1 3 28 28 H 1.09004 * 109.47061 * 119.99774 * 2 1 3 29 29 H 1.09002 * 109.46990 * 59.99790 * 3 2 1 30 30 H 1.08996 * 109.46938 * 300.00114 * 3 2 1 31 31 H 1.08996 * 109.47054 * 59.99570 * 4 3 2 32 32 H 1.09004 * 109.46918 * 299.99968 * 4 3 2 33 33 H 0.97001 * 119.99165 * 180.02562 * 9 8 6 34 34 H 1.09003 * 109.47170 * 327.11113 * 14 5 4 35 35 H 1.09008 * 109.47371 * 207.11266 * 14 5 4 36 36 H 1.08005 * 119.70607 * 0.25193 * 16 15 14 37 37 H 1.07998 * 119.90303 * 180.02562 * 17 16 15 38 38 H 1.07999 * 119.91389 * 179.97438 * 18 17 16 39 39 H 1.08004 * 124.29896 * 179.97438 * 21 20 19 40 40 H 1.07995 * 122.55291 * 180.02562 * 22 21 20 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 6 2.0400 1.4425 0.0000 4 6 3.5699 1.4426 0.0006 5 7 4.0582 2.8238 0.0013 6 6 4.3689 3.4407 -1.1811 7 1 4.1171 4.4803 -1.3304 8 6 5.0077 2.7299 -2.1880 9 7 4.9172 3.1335 -3.4375 10 14 5.9954 1.2007 -1.7694 11 1 5.1436 -0.0027 -1.9470 12 1 7.1733 1.1106 -2.6692 13 1 6.4544 1.2785 -0.3593 14 6 4.2140 3.5451 1.2668 15 6 5.5785 3.2632 1.8410 16 6 5.7117 2.3707 2.8602 17 6 6.9597 2.1020 3.4054 18 6 8.0779 2.7381 2.9197 19 6 7.9641 3.6585 1.8734 20 16 9.1912 4.6146 1.0525 21 6 8.0044 5.3534 -0.0052 22 6 6.7898 4.9088 0.2497 23 6 6.7087 3.9307 1.3224 24 1 -0.3634 0.5138 -0.8900 25 1 -0.3633 -1.0277 -0.0005 26 1 -0.3633 0.5138 0.8900 27 1 1.8934 -0.5139 -0.8899 28 1 1.8934 -0.5138 0.8900 29 1 1.6766 1.9563 0.8900 30 1 1.6766 1.9563 -0.8900 31 1 3.9337 0.9287 -0.8890 32 1 3.9329 0.9290 0.8909 33 1 5.3633 2.6365 -4.1410 34 1 3.4488 3.2154 1.9696 35 1 4.1082 4.6156 1.0904 36 1 4.8386 1.8671 3.2483 37 1 7.0527 1.3916 4.2135 38 1 9.0466 2.5260 3.3475 39 1 8.2384 6.0811 -0.7682 40 1 5.9213 5.2449 -0.2971 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 ZINC001236689066.mol2 40 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 05:51:07 Heat of formation + Delta-G solvation = 37.429291 kcal Electronic energy + Delta-G solvation = -21141.704847 eV Core-core repulsion = 18240.236291 eV Total energy + Delta-G solvation = -2901.468555 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 289.120 amu Computer time = 0.55 seconds Orbital eigenvalues (eV) -40.63047 -38.16094 -36.01043 -35.44254 -33.97065 -32.26829 -30.29750 -29.58721 -27.46077 -25.35556 -24.46187 -23.44863 -22.12530 -21.82053 -21.23015 -18.75765 -18.42978 -17.32168 -16.82473 -16.33591 -16.19116 -15.90836 -15.66135 -15.11993 -14.94210 -14.55570 -14.41860 -14.33728 -14.05434 -13.52801 -13.32173 -13.25383 -12.98839 -12.88072 -12.60316 -12.30915 -12.13578 -12.08471 -11.94700 -11.88269 -11.66643 -11.61718 -11.45198 -11.23442 -10.66181 -10.33767 -9.35639 -8.72907 -8.55309 -8.21245 -5.54729 -0.10827 0.38141 0.68267 1.07062 1.21352 1.35002 1.46225 1.50144 2.39127 2.80170 3.08193 3.52389 3.83301 3.96551 4.08639 4.13524 4.23098 4.38423 4.42011 4.45210 4.46841 4.50000 4.67801 4.78879 4.88496 4.93057 5.00282 5.04523 5.04890 5.11749 5.16245 5.17284 5.23994 5.39080 5.46215 5.49687 5.56472 5.60189 5.78705 5.96638 6.08621 6.19106 7.00813 7.64021 8.07510 8.97942 Molecular weight = 289.12amu Principal moments of inertia in cm(-1) A = 0.016447 B = 0.006640 C = 0.005509 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1702.024862 B = 4215.847488 C = 5081.463307 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.144 4.144 2 C -0.123 4.123 3 C -0.121 4.121 4 C 0.134 3.866 5 N -0.604 5.604 6 C -0.226 4.226 7 H 0.050 0.950 8 C 0.001 3.999 9 N -0.941 5.941 10 Si 0.915 3.085 11 H -0.281 1.281 12 H -0.321 1.321 13 H -0.263 1.263 14 C 0.179 3.821 15 C -0.065 4.065 16 C -0.129 4.129 17 C -0.098 4.098 18 C -0.109 4.109 19 C -0.160 4.160 20 S 0.065 5.935 21 C -0.215 4.215 22 C -0.101 4.101 23 C -0.081 4.081 24 H 0.043 0.957 25 H 0.064 0.936 26 H 0.063 0.937 27 H 0.042 0.958 28 H 0.073 0.927 29 H 0.070 0.930 30 H 0.037 0.963 31 H 0.026 0.974 32 H 0.056 0.944 33 H 0.259 0.741 34 H 0.083 0.917 35 H 0.054 0.946 36 H 0.148 0.852 37 H 0.163 0.837 38 H 0.144 0.856 39 H 0.177 0.823 40 H 0.136 0.864 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 0.891 -2.866 14.695 14.998 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 C -0.201 4.201 2 C -0.161 4.161 3 C -0.161 4.161 4 C 0.010 3.990 5 N -0.325 5.325 6 C -0.356 4.356 7 H 0.068 0.932 8 C -0.196 4.196 9 N -0.585 5.585 10 Si 0.746 3.254 11 H -0.208 1.208 12 H -0.251 1.251 13 H -0.187 1.187 14 C 0.054 3.946 15 C -0.070 4.070 16 C -0.150 4.150 17 C -0.118 4.118 18 C -0.132 4.132 19 C -0.275 4.275 20 S 0.326 5.674 21 C -0.348 4.348 22 C -0.130 4.130 23 C -0.089 4.089 24 H 0.063 0.937 25 H 0.083 0.917 26 H 0.082 0.918 27 H 0.061 0.939 28 H 0.092 0.908 29 H 0.088 0.912 30 H 0.056 0.944 31 H 0.044 0.956 32 H 0.074 0.926 33 H 0.068 0.932 34 H 0.101 0.899 35 H 0.073 0.927 36 H 0.165 0.835 37 H 0.180 0.820 38 H 0.162 0.838 39 H 0.195 0.805 40 H 0.154 0.846 Dipole moment (debyes) X Y Z Total from point charges 2.466 -2.650 14.592 15.034 hybrid contribution -0.618 -0.615 -1.158 1.449 sum 1.848 -3.265 13.434 13.948 Atomic orbital electron populations 1.21713 0.94614 1.01996 1.01810 1.21502 0.96926 0.96149 1.01545 1.21948 0.96133 0.96719 1.01310 1.21235 0.93878 0.85212 0.98724 1.44308 1.74252 1.12215 1.01686 1.18507 1.30402 0.96509 0.90187 0.93216 1.25814 0.98718 0.99868 0.95238 1.69953 1.45836 1.42836 0.99912 0.86266 0.78849 0.82166 0.78084 1.20805 1.25098 1.18727 1.20121 0.90749 0.96705 0.87015 1.20757 0.96569 0.95340 0.94295 1.20925 0.99117 0.98281 0.96675 1.21393 0.91366 0.99019 1.00047 1.20724 1.00536 0.96292 0.95622 1.23026 0.96611 1.04561 1.03299 1.83433 1.09842 1.41440 1.32640 1.25142 0.95926 1.07633 1.06121 1.21235 0.98619 0.96541 0.96652 1.19355 0.93496 0.99031 0.97049 0.93732 0.91683 0.91825 0.93904 0.90830 0.91155 0.94418 0.95585 0.92582 0.93208 0.89914 0.92724 0.83463 0.81971 0.83796 0.80521 0.84625 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 C -0.14 -3.33 9.91 71.98 0.71 -2.62 16 2 C -0.12 -3.45 5.93 30.60 0.18 -3.27 16 3 C -0.12 -4.15 5.54 30.59 0.17 -3.98 16 4 C 0.13 5.40 4.38 86.38 0.38 5.77 16 5 N -0.60 -26.53 2.02 -706.35 -1.43 -27.96 16 6 C -0.23 -12.02 7.97 84.03 0.67 -11.35 16 7 H 0.05 2.91 7.75 -2.91 -0.02 2.89 16 8 C 0.00 0.04 5.26 84.86 0.45 0.49 16 9 N -0.94 -57.92 13.97 21.65 0.30 -57.62 16 10 Si 0.92 47.61 25.18 68.60 1.73 49.34 16 11 H -0.28 -14.04 6.67 99.48 0.66 -13.38 16 12 H -0.32 -17.51 7.11 99.48 0.71 -16.80 16 13 H -0.26 -13.57 7.11 99.48 0.71 -12.86 16 14 C 0.18 6.56 5.52 85.63 0.47 7.03 16 15 C -0.07 -2.35 5.49 -19.64 -0.11 -2.46 16 16 C -0.13 -3.77 9.55 21.92 0.21 -3.56 16 17 C -0.10 -2.53 10.03 22.23 0.22 -2.31 16 18 C -0.11 -3.16 10.07 22.48 0.23 -2.93 16 19 C -0.16 -5.67 6.48 23.02 0.15 -5.52 16 20 S 0.07 2.11 23.23 -56.49 -1.31 0.80 16 21 C -0.22 -7.76 11.02 67.03 0.74 -7.02 16 22 C -0.10 -4.14 9.18 23.33 0.21 -3.93 16 23 C -0.08 -3.20 5.98 -20.35 -0.12 -3.32 16 24 H 0.04 1.10 8.14 -2.39 -0.02 1.08 16 25 H 0.06 1.27 8.14 -2.39 -0.02 1.25 16 26 H 0.06 1.31 8.14 -2.39 -0.02 1.29 16 27 H 0.04 1.32 8.14 -2.39 -0.02 1.30 16 28 H 0.07 1.79 8.14 -2.39 -0.02 1.77 16 29 H 0.07 2.13 8.14 -2.39 -0.02 2.11 16 30 H 0.04 1.50 8.14 -2.39 -0.02 1.48 16 31 H 0.03 1.21 3.75 -2.39 -0.01 1.20 16 32 H 0.06 2.00 8.10 -2.39 -0.02 1.98 16 33 H 0.26 15.43 8.31 -92.71 -0.77 14.66 16 34 H 0.08 2.48 7.89 -2.39 -0.02 2.47 16 35 H 0.05 2.08 7.78 -2.38 -0.02 2.06 16 36 H 0.15 3.40 7.98 -2.91 -0.02 3.38 16 37 H 0.16 2.82 8.06 -2.91 -0.02 2.80 16 38 H 0.14 3.30 8.06 -2.91 -0.02 3.28 16 39 H 0.18 5.52 8.06 -2.91 -0.02 5.50 16 40 H 0.14 6.06 6.36 -2.91 -0.02 6.04 16 Total: -1.00 -65.74 336.67 4.82 -60.92 By element: Atomic # 1 Polarization: 12.53 SS G_CDS: 0.97 Total: 13.50 kcal Atomic # 6 Polarization: -43.54 SS G_CDS: 4.56 Total: -38.98 kcal Atomic # 7 Polarization: -84.45 SS G_CDS: -1.13 Total: -85.57 kcal Atomic # 14 Polarization: 47.61 SS G_CDS: 1.73 Total: 49.34 kcal Atomic # 16 Polarization: 2.11 SS G_CDS: -1.31 Total: 0.80 kcal Total: -65.74 4.82 -60.92 kcal The number of atoms in the molecule is 40 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. ZINC001236689066.mol2 40 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 98.345 kcal (2) G-P(sol) polarization free energy of solvation -65.737 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 32.608 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.821 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -60.916 kcal (6) G-S(sol) free energy of system = (1) + (5) 37.429 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.55 seconds