Wall clock time and date at job start Wed Apr 1 2020 04:44:48 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 1.31511 * 1 3 3 Si 1.86797 * 120.00148 * 2 1 4 4 H 1.48500 * 109.47134 * 269.99876 * 3 2 1 5 5 H 1.48499 * 109.47048 * 29.99775 * 3 2 1 6 6 H 1.48504 * 109.47097 * 149.99898 * 3 2 1 7 7 C 1.37876 * 119.99916 * 179.97438 * 2 1 3 8 8 H 1.08002 * 120.00363 * 180.02562 * 7 2 1 9 9 C 1.50699 * 120.00072 * 0.02562 * 7 2 1 10 10 C 1.53003 * 109.47101 * 179.97438 * 9 7 2 11 11 C 1.53006 * 109.47188 * 179.97438 * 10 9 7 12 12 S 1.81397 * 109.47042 * 180.02562 * 11 10 9 13 13 O 1.42099 * 110.54585 * 68.37477 * 12 11 10 14 14 O 1.42105 * 110.54280 * 291.62071 * 12 11 10 15 15 C 1.76204 * 104.44630 * 179.97438 * 12 11 10 16 16 N 1.29326 * 126.06501 * 90.02412 * 15 12 11 17 17 N 1.26094 * 117.96941 * 179.97438 * 16 15 12 18 18 C 1.30245 * 117.62096 * 359.97438 * 17 16 15 19 19 N 1.38704 * 126.16445 * 179.97438 * 18 17 16 20 20 C 1.47024 * 110.98999 * 236.34569 * 19 18 17 21 21 C 1.53103 * 109.24985 * 182.35198 * 20 19 18 22 22 O 1.43012 * 109.29295 * 303.21723 * 21 20 19 23 23 C 1.43011 * 113.74271 * 58.65008 * 22 21 20 24 24 C 1.47018 * 111.00060 * 0.02562 * 19 18 17 25 25 S 1.76477 * 126.06837 * 270.28311 * 15 12 11 26 26 H 0.96999 * 120.00053 * 0.02562 * 1 2 3 27 27 H 1.09001 * 109.47213 * 59.99896 * 9 7 2 28 28 H 1.09005 * 109.46776 * 299.99565 * 9 7 2 29 29 H 1.09001 * 109.47163 * 59.99876 * 10 9 7 30 30 H 1.09000 * 109.47390 * 299.99651 * 10 9 7 31 31 H 1.09001 * 109.47036 * 59.99963 * 11 10 9 32 32 H 1.09000 * 109.46805 * 300.00174 * 11 10 9 33 33 H 1.08998 * 109.47369 * 62.43923 * 20 19 18 34 34 H 1.08998 * 109.54483 * 302.30131 * 20 19 18 35 35 H 1.09002 * 109.50635 * 183.25881 * 21 20 19 36 36 H 1.09003 * 109.50698 * 63.17493 * 21 20 19 37 37 H 1.08997 * 109.50806 * 61.26171 * 23 22 21 38 38 H 1.08997 * 109.50924 * 181.35636 * 23 22 21 39 39 H 1.08994 * 109.50209 * 57.67529 * 24 19 18 40 40 H 1.09003 * 109.54070 * 297.56494 * 24 19 18 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 1.3151 0.0000 0.0000 3 14 2.2491 1.6177 0.0000 4 1 2.4967 2.0464 -1.4001 5 1 1.4466 2.6526 0.7000 6 1 3.5467 1.4401 0.7001 7 6 2.0045 -1.1941 0.0005 8 1 3.0845 -1.1941 0.0010 9 6 1.2510 -2.4991 0.0005 10 6 2.2452 -3.6621 0.0005 11 6 1.4802 -4.9872 0.0012 12 16 2.6590 -6.3659 0.0019 13 8 3.3558 -6.4256 1.2390 14 8 3.3558 -6.4269 -1.2351 15 6 1.6478 -7.8089 0.0034 16 7 1.2109 -8.4334 -1.0414 17 7 0.4948 -9.4558 -0.8628 18 6 0.2458 -9.8116 0.3651 19 7 -0.5168 -10.8996 0.7634 20 6 -1.6165 -10.4781 1.6435 21 6 -2.3950 -11.7128 2.1055 22 8 -2.8617 -12.4326 0.9611 23 6 -1.8163 -12.8589 0.0833 24 6 -1.0324 -11.6358 -0.4000 25 16 1.0461 -8.6545 1.4307 26 1 -0.4850 0.8400 -0.0004 27 1 0.6246 -2.5571 -0.8897 28 1 0.6240 -2.5567 0.8904 29 1 2.8719 -3.6043 0.8905 30 1 2.8719 -3.6044 -0.8895 31 1 0.8533 -5.0452 -0.8886 32 1 0.8539 -5.0446 0.8914 33 1 -2.2832 -9.8105 1.0978 34 1 -1.2103 -9.9583 2.5113 35 1 -3.2458 -11.4011 2.7113 36 1 -1.7421 -12.3543 2.6976 37 1 -1.1460 -13.5333 0.6161 38 1 -2.2485 -13.3766 -0.7730 39 1 -0.1995 -11.9603 -1.0237 40 1 -1.6901 -10.9877 -0.9794 RHF calculation, no. of doubly occupied orbitals= 59 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 ZINC001318564427.mol2 40 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 04:44:48 Heat of formation + Delta-G solvation = -70.631215 kcal Electronic energy + Delta-G solvation = -25259.072065 eV Core-core repulsion = 21327.860024 eV Total energy + Delta-G solvation = -3931.212041 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 347.081 amu Computer time = 0.58 seconds Orbital eigenvalues (eV) -42.62773 -40.82983 -38.38595 -37.41378 -37.28550 -36.49551 -34.18168 -32.69811 -32.30214 -29.74688 -29.38605 -26.83775 -25.65293 -25.51019 -23.26216 -22.32457 -21.67133 -20.77787 -20.09085 -19.20820 -18.59787 -17.80442 -17.66560 -17.18230 -17.03377 -16.89928 -16.46856 -16.40132 -16.16535 -15.91062 -15.79672 -15.42669 -14.96298 -14.49332 -14.11911 -13.65318 -13.59093 -13.46384 -13.38131 -13.30490 -13.01632 -12.88309 -12.75653 -12.65584 -12.57804 -12.46522 -12.18394 -11.98025 -11.74423 -11.73320 -11.70546 -11.36688 -11.26646 -11.02777 -10.83531 -10.54465 -10.03433 -8.20166 -6.30276 -1.49587 -1.23811 -0.74142 -0.35324 0.90478 1.43258 1.43661 1.47144 1.54803 1.90073 2.41784 2.52822 2.76565 2.87019 3.06491 3.14270 3.46879 3.57409 3.63580 3.64436 3.82965 3.90451 4.02564 4.06976 4.24420 4.36673 4.51766 4.64631 4.66237 4.68769 4.82076 4.87171 5.04035 5.06807 5.07263 5.49489 5.65991 5.82547 5.99788 6.21956 6.85674 6.96591 7.38949 8.91306 Molecular weight = 347.08amu Principal moments of inertia in cm(-1) A = 0.019480 B = 0.002247 C = 0.002119 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1437.020387 B =12456.932961 C =13211.188794 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.930 5.930 2 C 0.002 3.998 3 Si 0.961 3.039 4 H -0.274 1.274 5 H -0.282 1.282 6 H -0.263 1.263 7 C -0.549 4.549 8 H 0.064 0.936 9 C 0.030 3.970 10 C -0.109 4.109 11 C -0.569 4.569 12 S 2.528 3.472 13 O -0.936 6.936 14 O -0.940 6.940 15 C -0.579 4.579 16 N -0.139 5.139 17 N -0.334 5.334 18 C 0.227 3.773 19 N -0.433 5.433 20 C 0.005 3.995 21 C 0.066 3.934 22 O -0.396 6.396 23 C 0.067 3.933 24 C 0.020 3.980 25 S 0.248 5.752 26 H 0.264 0.736 27 H 0.004 0.996 28 H 0.010 0.990 29 H 0.080 0.920 30 H 0.073 0.927 31 H 0.153 0.847 32 H 0.163 0.837 33 H 0.069 0.931 34 H 0.117 0.883 35 H 0.135 0.865 36 H 0.079 0.921 37 H 0.076 0.924 38 H 0.129 0.871 39 H 0.102 0.898 40 H 0.064 0.936 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -5.886 -27.586 6.448 28.934 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 -0.570 5.570 2 C -0.196 4.196 3 Si 0.786 3.214 4 H -0.200 1.200 5 H -0.208 1.208 6 H -0.187 1.187 7 C -0.587 4.587 8 H 0.082 0.918 9 C -0.009 4.009 10 C -0.148 4.148 11 C -0.703 4.703 12 S 2.702 3.298 13 O -0.933 6.933 14 O -0.938 6.938 15 C -0.937 4.937 16 N 0.018 4.982 17 N -0.183 5.183 18 C -0.141 4.141 19 N -0.154 5.154 20 C -0.121 4.121 21 C -0.011 4.011 22 O -0.314 6.314 23 C -0.010 4.010 24 C -0.109 4.109 25 S 0.489 5.511 26 H 0.073 0.927 27 H 0.023 0.977 28 H 0.028 0.972 29 H 0.099 0.901 30 H 0.092 0.908 31 H 0.171 0.829 32 H 0.181 0.819 33 H 0.088 0.912 34 H 0.135 0.865 35 H 0.152 0.848 36 H 0.098 0.902 37 H 0.094 0.906 38 H 0.146 0.854 39 H 0.120 0.880 40 H 0.082 0.918 Dipole moment (debyes) X Y Z Total from point charges -5.111 -28.048 6.483 29.238 hybrid contribution -0.474 1.274 -0.673 1.517 sum -5.585 -26.774 5.810 27.961 Atomic orbital electron populations 1.70064 1.07606 1.27827 1.51541 1.25905 0.95773 1.03157 0.94735 0.85504 0.78799 0.78687 0.78438 1.19984 1.20754 1.18722 1.21739 0.93890 0.92303 1.50751 0.91825 1.18989 0.94038 0.91475 0.96386 1.21455 0.98934 0.91167 1.03268 1.30145 1.15086 1.10522 1.14543 1.05378 0.75673 0.74590 0.74149 1.93578 1.68962 1.86038 1.44694 1.93550 1.69519 1.85557 1.45127 1.41920 1.26273 1.27871 0.97630 1.70884 1.01319 0.99514 1.26462 1.71715 1.17347 1.11262 1.18002 1.29017 0.98667 0.94713 0.91690 1.59239 1.22338 1.14283 1.19539 1.23559 0.90500 1.00930 0.97090 1.22909 0.99923 0.90292 0.87973 1.88046 1.33348 1.74001 1.36038 1.22887 0.89505 0.93356 0.95237 1.23130 1.00768 0.96811 0.90147 1.85447 1.41225 1.19162 1.05280 0.92712 0.97745 0.97165 0.90144 0.90820 0.82870 0.81936 0.91232 0.86519 0.84763 0.90249 0.90595 0.85369 0.88006 0.91800 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 -0.93 -54.72 13.29 21.45 0.28 -54.44 16 2 C 0.00 0.14 5.46 84.65 0.46 0.60 16 3 Si 0.96 43.34 29.54 68.60 2.03 45.37 16 4 H -0.27 -12.07 7.11 99.48 0.71 -11.36 16 5 H -0.28 -12.43 7.11 99.48 0.71 -11.73 16 6 H -0.26 -11.36 7.11 99.48 0.71 -10.65 16 7 C -0.55 -30.11 9.11 25.60 0.23 -29.88 16 8 H 0.06 3.34 7.74 -2.91 -0.02 3.32 16 9 C 0.03 1.46 4.97 29.85 0.15 1.61 16 10 C -0.11 -4.11 5.16 30.60 0.16 -3.95 16 11 C -0.57 -16.17 5.98 71.98 0.43 -15.74 16 12 S 2.53 74.90 5.33 -56.49 -0.30 74.60 16 13 O -0.94 -29.79 17.83 -127.65 -2.28 -32.07 16 14 O -0.94 -34.13 17.93 -127.65 -2.29 -36.42 16 15 C -0.58 -15.83 7.42 130.61 0.97 -14.86 16 16 N -0.14 -4.24 11.53 -55.34 -0.64 -4.87 16 17 N -0.33 -8.99 10.66 -55.84 -0.60 -9.58 16 18 C 0.23 4.71 7.05 179.13 1.26 5.98 16 19 N -0.43 -6.37 4.80 -701.64 -3.36 -9.74 16 20 C 0.01 0.05 5.52 86.31 0.48 0.53 16 21 C 0.07 0.44 7.01 72.02 0.50 0.95 16 22 O -0.40 -4.49 10.83 -148.98 -1.61 -6.10 16 23 C 0.07 0.58 7.01 72.02 0.50 1.08 16 24 C 0.02 0.26 5.01 86.31 0.43 0.69 16 25 S 0.25 5.01 22.73 -56.49 -1.28 3.73 16 26 H 0.26 14.63 8.31 -92.71 -0.77 13.86 16 27 H 0.00 0.22 8.14 -2.39 -0.02 0.20 16 28 H 0.01 0.51 8.14 -2.38 -0.02 0.49 16 29 H 0.08 2.85 8.14 -2.39 -0.02 2.83 16 30 H 0.07 2.73 8.14 -2.39 -0.02 2.71 16 31 H 0.15 3.97 8.14 -2.39 -0.02 3.95 16 32 H 0.16 3.67 8.14 -2.39 -0.02 3.65 16 33 H 0.07 0.77 8.14 -2.39 -0.02 0.75 16 34 H 0.12 0.76 7.60 -2.39 -0.02 0.74 16 35 H 0.13 0.35 8.14 -2.39 -0.02 0.33 16 36 H 0.08 0.39 8.14 -2.39 -0.02 0.37 16 37 H 0.08 0.52 8.14 -2.39 -0.02 0.50 16 38 H 0.13 0.66 8.14 -2.39 -0.02 0.64 16 39 H 0.10 1.42 8.04 -2.39 -0.02 1.40 16 40 H 0.06 0.99 8.14 -2.39 -0.02 0.97 16 Total: -1.00 -76.15 364.88 -3.41 -79.56 By element: Atomic # 1 Polarization: 1.90 SS G_CDS: 1.06 Total: 2.95 kcal Atomic # 6 Polarization: -58.57 SS G_CDS: 5.58 Total: -52.99 kcal Atomic # 7 Polarization: -74.32 SS G_CDS: -4.31 Total: -78.63 kcal Atomic # 8 Polarization: -68.41 SS G_CDS: -6.18 Total: -74.59 kcal Atomic # 14 Polarization: 43.34 SS G_CDS: 2.03 Total: 45.37 kcal Atomic # 16 Polarization: 79.92 SS G_CDS: -1.59 Total: 78.33 kcal Total: -76.15 -3.41 -79.56 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. ZINC001318564427.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 8.932 kcal (2) G-P(sol) polarization free energy of solvation -76.154 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -67.222 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.410 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -79.563 kcal (6) G-S(sol) free energy of system = (1) + (5) -70.631 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.58 seconds