Wall clock time and date at job start Tue Mar 31 2020 22:49:25 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 1.31614 * 1 3 3 Si 1.86799 * 120.00182 * 2 1 4 4 H 1.48502 * 109.47163 * 269.99732 * 3 2 1 5 5 H 1.48495 * 109.47176 * 29.99963 * 3 2 1 6 6 H 1.48500 * 109.47256 * 149.99918 * 3 2 1 7 7 C 1.38809 * 119.99978 * 180.02562 * 2 1 3 8 8 H 1.08001 * 120.00470 * 197.85142 * 7 2 1 9 9 N 1.36939 * 120.00142 * 17.85092 * 7 2 1 10 10 C 1.46842 * 120.38681 * 208.90987 * 9 7 2 11 11 C 1.53354 * 108.81512 * 236.88145 * 10 9 7 12 12 C 1.53182 * 108.76640 * 308.68628 * 11 10 9 13 13 C 1.52844 * 117.65744 * 269.97015 * 12 11 10 14 14 C 1.52815 * 117.71249 * 201.11481 * 12 11 10 15 15 H 1.09007 * 117.50234 * 215.12933 * 14 12 11 16 16 N 1.46498 * 117.50368 * 0.13865 * 14 12 11 17 17 C 1.34772 * 120.00216 * 205.00219 * 16 14 12 18 18 O 1.21534 * 120.00137 * 359.97438 * 17 16 14 19 19 C 1.48054 * 120.00060 * 180.27512 * 17 16 14 20 20 C 1.39770 * 119.47296 * 179.45012 * 19 17 16 21 21 C 1.38134 * 119.57717 * 179.77577 * 20 19 17 22 22 C 1.39257 * 118.37662 * 0.47645 * 21 20 19 23 23 N 1.37346 * 133.61002 * 179.72741 * 22 21 20 24 24 H 0.96994 * 125.05070 * 0.03881 * 23 22 21 25 25 C 1.36722 * 109.89235 * 180.02562 * 23 22 21 26 26 C 1.34282 * 110.02389 * 0.02562 * 25 23 22 27 27 C 1.41194 * 119.09936 * 359.76753 * 22 21 20 28 28 N 1.32443 * 119.47044 * 359.72354 * 19 17 16 29 29 C 1.53185 * 115.07782 * 55.44364 * 12 11 10 30 30 C 1.46847 * 120.37891 * 28.88993 * 9 7 2 31 31 H 0.97002 * 119.99544 * 0.02562 * 1 2 3 32 32 H 1.09003 * 109.58375 * 117.08400 * 10 9 7 33 33 H 1.09003 * 109.58346 * 356.68565 * 10 9 7 34 34 H 1.09000 * 109.58983 * 188.89561 * 11 10 9 35 35 H 1.09004 * 109.58187 * 68.46471 * 11 10 9 36 36 H 1.09008 * 117.50249 * 144.81691 * 13 12 11 37 37 H 1.08994 * 117.50555 * 359.76426 * 13 12 11 38 38 H 0.97004 * 119.99985 * 24.99651 * 16 14 12 39 39 H 1.08004 * 120.20795 * 0.02562 * 20 19 17 40 40 H 1.08001 * 120.81247 * 180.24396 * 21 20 19 41 41 H 1.08003 * 124.98431 * 180.02562 * 25 23 22 42 42 H 1.08007 * 126.48351 * 179.97438 * 26 25 23 43 43 H 1.09006 * 109.58824 * 64.34168 * 29 12 11 44 44 H 1.08996 * 109.58890 * 184.76778 * 29 12 11 45 45 H 1.09009 * 109.57725 * 242.92248 * 30 9 7 46 46 H 1.09003 * 109.58201 * 3.31743 * 30 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 2.2502 1.6177 0.0000 4 1 2.4978 2.0464 -1.4001 5 1 1.4477 2.6526 0.7000 6 1 3.5477 1.4401 0.7000 7 6 2.0102 -1.2021 -0.0005 8 1 3.0512 -1.2249 0.2862 9 7 1.3750 -2.3594 -0.3646 10 6 1.8050 -3.6490 0.1905 11 6 2.1665 -4.5893 -0.9658 12 6 1.0057 -4.6104 -1.9651 13 6 -0.0887 -5.6574 -1.7593 14 6 0.9057 -5.8048 -2.9131 15 1 0.5381 -5.6172 -3.9220 16 7 1.9273 -6.8483 -2.7966 17 6 2.2155 -7.6304 -3.8556 18 8 1.6276 -7.4703 -4.9072 19 6 3.2436 -8.6891 -3.7361 20 6 3.5255 -9.5014 -4.8380 21 6 4.4876 -10.4867 -4.7302 22 6 5.1416 -10.6427 -3.5107 23 7 6.1182 -11.4979 -3.0620 24 1 6.5374 -12.1926 -3.5934 25 6 6.4116 -11.2242 -1.7550 26 6 5.6539 -10.2056 -1.3172 27 6 4.8039 -9.7907 -2.4366 28 7 3.8775 -8.8547 -2.5851 29 6 0.5853 -3.2383 -2.5010 30 6 0.2555 -2.3249 -1.3143 31 1 -0.4849 0.8401 -0.0004 32 1 0.9942 -4.0838 0.7750 33 1 2.6775 -3.5002 0.8268 34 1 2.3351 -5.5947 -0.5801 35 1 3.0684 -4.2295 -1.4609 36 1 -1.1109 -5.3728 -2.0090 37 1 0.0173 -6.3368 -0.9136 38 1 2.3963 -6.9763 -1.9572 39 1 2.9974 -9.3570 -5.7689 40 1 4.7242 -11.1232 -5.5701 41 1 7.1451 -11.7500 -1.1618 42 1 5.6682 -9.7737 -0.3273 43 1 1.4021 -2.8058 -3.0790 44 1 -0.2952 -3.3474 -3.1341 45 1 -0.6514 -2.6775 -0.8229 46 1 0.1082 -1.3045 -1.6685 RHF calculation, no. of doubly occupied orbitals= 63 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). 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 ZINC001016725953.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 22:49:25 Heat of formation + Delta-G solvation = 62.676098 kcal Electronic energy + Delta-G solvation = -28560.874951 eV Core-core repulsion = 24644.399108 eV Total energy + Delta-G solvation = -3916.475843 eV No. of doubly occupied orbitals = 63 Molecular weight (most abundant/longest-lived isotopes) = 340.164 amu Computer time = 0.83 seconds Orbital eigenvalues (eV) -42.58120 -41.16976 -39.90274 -38.43405 -37.12487 -34.63040 -33.85326 -33.29771 -31.70064 -31.10439 -30.46565 -29.87900 -26.26504 -25.87910 -24.13145 -24.01129 -23.13302 -22.49237 -21.75739 -21.47029 -19.81649 -19.32487 -18.93156 -18.20371 -17.83078 -17.17318 -16.75589 -16.37888 -16.01547 -15.78256 -15.58636 -15.55466 -15.27459 -15.00062 -14.78203 -14.48616 -14.18405 -14.01262 -13.89732 -13.76665 -13.65213 -13.48216 -13.26181 -13.09956 -12.88479 -12.58978 -12.53311 -12.24850 -12.00469 -11.78736 -11.47624 -11.42599 -11.38227 -11.23768 -10.77134 -10.50401 -10.45599 -9.76925 -9.45148 -9.10881 -8.61534 -7.84911 -5.31239 -0.29716 0.01400 1.46793 1.48896 1.57242 1.62088 1.72443 1.94648 2.08091 2.52457 2.82179 2.96251 3.01161 3.29477 3.60128 3.64109 3.72821 3.80401 3.86888 3.97997 3.99589 4.00780 4.13220 4.44488 4.52476 4.54463 4.59802 4.68138 4.73076 4.84647 4.88069 4.92096 4.97048 5.01995 5.02941 5.08494 5.17487 5.31352 5.36452 5.37475 5.40525 5.49086 5.55578 5.66772 5.78570 5.84884 6.37661 6.42457 6.56796 6.80010 7.10959 7.17541 7.89525 8.41064 9.20196 Molecular weight = 340.16amu Principal moments of inertia in cm(-1) A = 0.017385 B = 0.002321 C = 0.002157 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1610.205774 B =12063.447094 C =12974.883564 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.932 5.932 2 C -0.050 4.050 3 Si 0.965 3.035 4 H -0.287 1.287 5 H -0.294 1.294 6 H -0.269 1.269 7 C -0.263 4.263 8 H 0.064 0.936 9 N -0.608 5.608 10 C 0.148 3.852 11 C -0.083 4.083 12 C -0.113 4.113 13 C -0.166 4.166 14 C 0.080 3.920 15 H 0.127 0.873 16 N -0.672 5.672 17 C 0.574 3.426 18 O -0.569 6.569 19 C 0.047 3.953 20 C -0.111 4.111 21 C -0.079 4.079 22 C 0.061 3.939 23 N -0.572 5.572 24 H 0.440 0.560 25 C 0.102 3.898 26 C -0.221 4.221 27 C 0.058 3.942 28 N -0.442 5.442 29 C -0.093 4.093 30 C 0.181 3.819 31 H 0.250 0.750 32 H 0.019 0.981 33 H 0.054 0.946 34 H 0.076 0.924 35 H 0.052 0.948 36 H 0.107 0.893 37 H 0.105 0.895 38 H 0.415 0.585 39 H 0.155 0.845 40 H 0.178 0.822 41 H 0.230 0.770 42 H 0.162 0.838 43 H 0.047 0.953 44 H 0.070 0.930 45 H 0.002 0.998 46 H 0.055 0.945 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 13.460 -29.436 -7.054 33.127 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 -0.578 5.578 2 C -0.245 4.245 3 Si 0.793 3.207 4 H -0.214 1.214 5 H -0.220 1.220 6 H -0.193 1.193 7 C -0.393 4.393 8 H 0.081 0.919 9 N -0.331 5.331 10 C 0.022 3.978 11 C -0.122 4.122 12 C -0.114 4.114 13 C -0.204 4.204 14 C -0.026 4.026 15 H 0.145 0.855 16 N -0.321 5.321 17 C 0.361 3.639 18 O -0.448 6.448 19 C -0.099 4.099 20 C -0.134 4.134 21 C -0.107 4.107 22 C -0.052 4.052 23 N -0.177 5.177 24 H 0.281 0.719 25 C -0.026 4.026 26 C -0.246 4.246 27 C -0.079 4.079 28 N -0.154 5.154 29 C -0.132 4.132 30 C 0.055 3.945 31 H 0.059 0.941 32 H 0.037 0.963 33 H 0.072 0.928 34 H 0.095 0.905 35 H 0.071 0.929 36 H 0.126 0.874 37 H 0.124 0.876 38 H 0.253 0.747 39 H 0.173 0.827 40 H 0.196 0.804 41 H 0.246 0.754 42 H 0.180 0.820 43 H 0.066 0.934 44 H 0.089 0.911 45 H 0.020 0.980 46 H 0.074 0.926 Dipole moment (debyes) X Y Z Total from point charges 12.843 -28.757 -7.063 32.277 hybrid contribution 0.440 0.643 -0.341 0.851 sum 13.283 -28.114 -7.404 31.963 Atomic orbital electron populations 1.70183 1.06612 1.25817 1.55227 1.25780 0.96025 1.01436 1.01309 0.85303 0.78186 0.79706 0.77489 1.21379 1.22041 1.19346 1.19505 0.93037 0.86346 1.40407 0.91878 1.44238 1.37935 1.02309 1.48632 1.20967 0.97145 0.85954 0.93719 1.21427 0.95750 0.99254 0.95774 1.21803 0.99241 0.90617 0.99787 1.23609 0.95938 1.01072 0.99796 1.21766 0.93386 0.90575 0.96903 0.85540 1.45219 1.38982 1.32906 1.14973 1.18142 0.81603 0.80852 0.83280 1.90730 1.53345 1.71500 1.29259 1.20707 0.98976 0.98803 0.91429 1.21827 0.97744 0.94410 0.99373 1.20769 0.95082 0.98949 0.95909 1.19387 0.94595 0.94916 0.96283 1.41714 1.32889 1.30972 1.12082 0.71870 1.22701 0.99471 0.96716 0.83743 1.21928 1.01001 1.02621 0.99064 1.20656 0.97022 0.94206 0.96039 1.66771 1.06094 1.18556 1.23989 1.21640 1.00033 0.93540 0.98014 1.20545 0.88114 0.97642 0.88200 0.94096 0.96321 0.92779 0.90531 0.92877 0.87429 0.87638 0.74670 0.82703 0.80436 0.75411 0.82026 0.93381 0.91118 0.98020 0.92632 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 17. 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 -56.25 11.23 21.65 0.24 -56.01 16 2 C -0.05 -2.86 4.88 84.86 0.41 -2.45 16 3 Si 0.96 45.98 29.59 68.60 2.03 48.01 16 4 H -0.29 -13.53 7.11 99.48 0.71 -12.82 16 5 H -0.29 -13.99 7.11 99.48 0.71 -13.29 16 6 H -0.27 -12.21 7.11 99.48 0.71 -11.51 16 7 C -0.26 -14.86 9.54 84.03 0.80 -14.06 16 8 H 0.06 3.50 7.89 -2.91 -0.02 3.48 16 9 N -0.61 -31.50 2.94 -698.88 -2.05 -33.55 16 10 C 0.15 6.31 6.51 86.43 0.56 6.87 16 11 C -0.08 -2.93 5.37 30.77 0.17 -2.76 16 12 C -0.11 -3.91 1.94 -52.17 -0.10 -4.02 16 13 C -0.17 -4.94 9.86 30.55 0.30 -4.63 16 14 C 0.08 2.49 6.14 44.94 0.28 2.77 16 15 H 0.13 4.19 7.40 -2.38 -0.02 4.17 16 16 N -0.67 -20.09 5.33 -445.46 -2.38 -22.47 16 17 C 0.57 18.04 7.81 86.85 0.68 18.72 16 18 O -0.57 -20.50 15.86 -3.82 -0.06 -20.56 16 19 C 0.05 1.27 6.74 42.03 0.28 1.56 16 20 C -0.11 -2.33 9.60 22.62 0.22 -2.12 16 21 C -0.08 -1.12 10.18 22.49 0.23 -0.89 16 22 C 0.06 0.91 7.29 39.25 0.29 1.20 16 23 N -0.57 -3.59 6.05 -187.39 -1.13 -4.73 16 24 H 0.44 -0.60 8.96 -92.71 -0.83 -1.43 16 25 C 0.10 0.58 11.81 83.03 0.98 1.56 16 26 C -0.22 -3.17 11.08 23.53 0.26 -2.90 16 27 C 0.06 1.23 7.52 41.93 0.32 1.55 16 28 N -0.44 -11.72 9.57 -174.25 -1.67 -13.39 16 29 C -0.09 -3.73 5.83 30.77 0.18 -3.55 16 30 C 0.18 9.01 5.40 86.43 0.47 9.47 16 31 H 0.25 14.58 8.31 -92.71 -0.77 13.80 16 32 H 0.02 0.80 8.14 -2.39 -0.02 0.78 16 33 H 0.05 2.26 7.92 -2.39 -0.02 2.25 16 34 H 0.08 2.26 6.75 -2.39 -0.02 2.24 16 35 H 0.05 1.99 8.14 -2.39 -0.02 1.97 16 36 H 0.11 3.05 8.14 -2.38 -0.02 3.04 16 37 H 0.11 2.88 8.14 -2.39 -0.02 2.86 16 38 H 0.42 11.67 6.43 -92.71 -0.60 11.08 16 39 H 0.16 3.05 7.61 -2.91 -0.02 3.02 16 40 H 0.18 1.01 8.06 -2.91 -0.02 0.98 16 41 H 0.23 -0.96 8.06 -2.91 -0.02 -0.99 16 42 H 0.16 2.04 8.06 -2.91 -0.02 2.02 16 43 H 0.05 2.02 8.14 -2.38 -0.02 2.00 16 44 H 0.07 2.52 8.10 -2.39 -0.02 2.50 16 45 H 0.00 0.09 8.14 -2.38 -0.02 0.07 16 46 H 0.06 3.14 5.93 -2.39 -0.01 3.12 16 Total: -1.00 -77.93 377.73 0.91 -77.02 By element: Atomic # 1 Polarization: 19.75 SS G_CDS: -0.40 Total: 19.35 kcal Atomic # 6 Polarization: 0.01 SS G_CDS: 6.32 Total: 6.33 kcal Atomic # 7 Polarization: -123.16 SS G_CDS: -6.99 Total: -130.15 kcal Atomic # 8 Polarization: -20.50 SS G_CDS: -0.06 Total: -20.56 kcal Atomic # 14 Polarization: 45.98 SS G_CDS: 2.03 Total: 48.01 kcal Total: -77.93 0.91 -77.02 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. ZINC001016725953.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 139.699 kcal (2) G-P(sol) polarization free energy of solvation -77.928 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 61.771 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.905 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -77.023 kcal (6) G-S(sol) free energy of system = (1) + (5) 62.676 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.83 seconds