Wall clock time and date at job start Tue Mar 31 2020 22:36:25 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 1.31626 * 1 3 3 Si 1.86801 * 120.00102 * 2 1 4 4 H 1.48501 * 109.47231 * 240.00420 * 3 2 1 5 5 H 1.48505 * 109.47271 * 0.02562 * 3 2 1 6 6 H 1.48503 * 109.47260 * 119.99845 * 3 2 1 7 7 C 1.38795 * 120.00234 * 180.02562 * 2 1 3 8 8 H 1.08004 * 120.00171 * 179.97438 * 7 2 1 9 9 S 1.76198 * 119.99810 * 359.97438 * 7 2 1 10 10 C 1.81002 * 100.00092 * 179.97438 * 9 7 2 11 11 C 1.50703 * 109.47178 * 180.02562 * 10 9 7 12 12 O 1.21278 * 119.99985 * 359.97438 * 11 10 9 13 13 N 1.34777 * 120.00161 * 180.02562 * 11 10 9 14 14 C 1.46496 * 120.00271 * 180.02562 * 13 11 10 15 15 H 1.09003 * 112.84993 * 336.19005 * 14 13 11 16 16 C 1.53781 * 113.61614 * 107.49783 * 14 13 11 17 17 C 1.53778 * 87.07849 * 89.11738 * 16 14 13 18 18 H 1.09010 * 113.61773 * 270.88132 * 17 16 14 19 19 N 1.46507 * 113.61619 * 139.98193 * 17 16 14 20 20 C 1.34774 * 119.99817 * 107.49792 * 19 17 16 21 21 O 1.21284 * 120.00509 * 0.02562 * 20 19 17 22 22 C 1.50707 * 119.99743 * 180.02562 * 20 19 17 23 23 N 1.46500 * 109.46989 * 179.97438 * 22 20 19 24 24 C 1.34439 * 126.81719 * 125.00111 * 23 22 20 25 25 N 1.30832 * 108.07439 * 179.97438 * 24 23 22 26 26 C 1.33238 * 109.82685 * 0.02562 * 25 24 23 27 27 N 1.30712 * 108.95494 * 359.75173 * 26 25 24 28 28 C 1.53777 * 87.08604 * 25.43188 * 17 16 14 29 29 H 0.97005 * 119.99806 * 359.97438 * 1 2 3 30 30 H 1.09002 * 109.47154 * 300.00093 * 10 9 7 31 31 H 1.09001 * 109.47171 * 60.00111 * 10 9 7 32 32 H 0.97005 * 119.99463 * 359.97438 * 13 11 10 33 33 H 1.09000 * 113.61467 * 203.66301 * 16 14 13 34 34 H 1.08991 * 113.61330 * 334.57193 * 16 14 13 35 35 H 0.96995 * 119.99432 * 287.50181 * 19 17 16 36 36 H 1.08990 * 109.47285 * 300.00546 * 22 20 19 37 37 H 1.09003 * 109.46770 * 60.00142 * 22 20 19 38 38 H 1.07995 * 125.96031 * 0.02562 * 24 23 22 39 39 H 1.08002 * 125.52279 * 179.97438 * 26 25 24 40 40 H 1.08998 * 113.61996 * 220.01715 * 28 17 16 41 41 H 1.08998 * 113.68961 * 89.12615 * 28 17 16 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 1.3163 0.0000 0.0000 3 14 2.2503 1.6177 0.0000 4 1 3.1040 1.6964 -1.2126 5 1 1.2853 2.7465 0.0006 6 1 3.1040 1.6964 1.2125 7 6 2.0103 -1.2020 -0.0005 8 1 3.0903 -1.2020 -0.0010 9 16 1.1293 -2.7279 -0.0005 10 6 2.5158 -3.8914 -0.0021 11 6 1.9874 -5.3027 -0.0030 12 8 0.7911 -5.5023 -0.0021 13 7 2.8441 -6.3431 -0.0037 14 6 2.3304 -7.7150 -0.0051 15 1 1.3212 -7.7896 0.4001 16 6 2.5115 -8.4393 -1.3495 17 6 3.8840 -8.8971 -0.8284 18 1 4.6911 -8.1994 -1.0525 19 7 4.2130 -10.2811 -1.1787 20 6 5.1471 -10.5350 -2.1164 21 8 5.7157 -9.6179 -2.6701 22 6 5.4851 -11.9587 -2.4771 23 7 6.5207 -11.9672 -3.5133 24 6 7.7063 -12.5991 -3.4622 25 7 8.3412 -12.3617 -4.5812 26 6 7.5966 -11.5854 -5.3675 27 7 6.4702 -11.3211 -4.7593 28 6 3.3102 -8.7403 0.5897 29 1 -0.4850 0.8401 0.0004 30 1 3.1238 -3.7309 -0.8925 31 1 3.1252 -3.7317 0.8875 32 1 3.8009 -6.1834 -0.0040 33 1 1.8077 -9.2574 -1.5031 34 1 2.5716 -7.7653 -2.2039 35 1 3.7584 -11.0145 -0.7357 36 1 5.8509 -12.4805 -1.5929 37 1 4.5927 -12.4602 -2.8517 38 1 8.0705 -13.1986 -2.6412 39 1 7.8767 -11.2347 -6.3498 40 1 4.0150 -8.3093 1.3007 41 1 2.8247 -9.6400 0.9676 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 ZINC001493975648.mol2 41 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 22:36:25 Heat of formation + Delta-G solvation = 18.123448 kcal Electronic energy + Delta-G solvation = -25208.761441 eV Core-core repulsion = 21251.850075 eV Total energy + Delta-G solvation = -3956.911366 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.60 seconds Orbital eigenvalues (eV) -42.98968 -41.54217 -40.48562 -39.05178 -35.30219 -34.97959 -34.60339 -33.60328 -32.15485 -30.68155 -29.14127 -27.69051 -26.75765 -25.41144 -23.25872 -22.88508 -22.27110 -21.58664 -20.69647 -19.85121 -18.49461 -18.37364 -18.00650 -17.24620 -16.96859 -16.89444 -16.78056 -16.44238 -16.04661 -15.96429 -15.78419 -15.21101 -14.97845 -14.70463 -14.64957 -14.38662 -14.11371 -13.74907 -13.44291 -13.35374 -13.19626 -13.13859 -12.88508 -12.76362 -12.62105 -11.94907 -11.77185 -11.64359 -11.35418 -11.14789 -11.01053 -10.99864 -10.77353 -10.50588 -10.31304 -10.20776 -10.00806 -8.68726 -8.36362 -6.14641 0.69431 1.24487 1.33979 1.42374 1.44574 1.48617 1.54579 1.55643 2.02135 2.15871 2.21795 2.26473 2.97596 3.29216 3.36287 3.51824 3.54733 3.58232 3.74240 3.85354 3.93063 4.02298 4.10282 4.18121 4.26999 4.42704 4.47508 4.57927 4.70663 4.78207 4.86953 4.99321 5.01098 5.26140 5.38200 5.39762 5.46116 5.60700 5.90220 6.17737 6.43371 6.51231 7.04789 7.12918 7.19654 7.21282 8.72555 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.018690 B = 0.001746 C = 0.001637 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1497.763170 B =16028.557705 C =17102.950432 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.910 5.910 2 C 0.014 3.986 3 Si 0.998 3.002 4 H -0.264 1.264 5 H -0.277 1.277 6 H -0.261 1.261 7 C -0.550 4.550 8 H 0.082 0.918 9 S -0.147 6.147 10 C -0.133 4.133 11 C 0.538 3.462 12 O -0.562 6.562 13 N -0.700 5.700 14 C 0.110 3.890 15 H 0.095 0.905 16 C -0.164 4.164 17 C 0.129 3.871 18 H 0.092 0.908 19 N -0.696 5.696 20 C 0.493 3.507 21 O -0.573 6.573 22 C 0.110 3.890 23 N -0.378 5.378 24 C 0.264 3.736 25 N -0.580 5.580 26 C 0.183 3.817 27 N -0.339 5.339 28 C -0.121 4.121 29 H 0.272 0.728 30 H 0.105 0.895 31 H 0.112 0.888 32 H 0.414 0.586 33 H 0.112 0.888 34 H 0.045 0.955 35 H 0.425 0.575 36 H 0.190 0.810 37 H 0.144 0.856 38 H 0.271 0.729 39 H 0.230 0.770 40 H 0.093 0.907 41 H 0.136 0.864 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 14.775 -32.955 1.093 36.132 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 -0.546 5.546 2 C -0.191 4.191 3 Si 0.819 3.181 4 H -0.189 1.189 5 H -0.202 1.202 6 H -0.186 1.186 7 C -0.697 4.697 8 H 0.100 0.900 9 S 0.080 5.920 10 C -0.284 4.284 11 C 0.324 3.676 12 O -0.439 6.439 13 N -0.353 5.353 14 C 0.003 3.997 15 H 0.113 0.887 16 C -0.204 4.204 17 C 0.023 3.977 18 H 0.110 0.890 19 N -0.350 5.350 20 C 0.279 3.721 21 O -0.450 6.450 22 C -0.015 4.015 23 N -0.169 5.169 24 C -0.031 4.031 25 N -0.307 5.307 26 C -0.120 4.120 27 N -0.167 5.167 28 C -0.159 4.159 29 H 0.081 0.919 30 H 0.123 0.877 31 H 0.130 0.870 32 H 0.251 0.749 33 H 0.131 0.869 34 H 0.064 0.936 35 H 0.264 0.736 36 H 0.207 0.793 37 H 0.162 0.838 38 H 0.286 0.714 39 H 0.246 0.754 40 H 0.111 0.889 41 H 0.154 0.846 Dipole moment (debyes) X Y Z Total from point charges 12.731 -32.243 0.376 34.668 hybrid contribution 1.582 1.462 -0.068 2.155 sum 14.312 -30.781 0.308 33.947 Atomic orbital electron populations 1.70170 1.07915 1.28702 1.47831 1.26119 0.95990 1.03284 0.93691 0.85014 0.77832 0.75748 0.79462 1.18879 1.20246 1.18561 1.23176 0.95336 0.92103 1.59111 0.90028 1.85517 1.10349 0.99101 1.97055 1.23395 1.03692 0.94600 1.06696 1.20017 0.86257 0.86588 0.74715 1.90684 1.17261 1.86000 1.49993 1.45497 1.09977 1.04657 1.75174 1.21811 0.99765 0.80356 0.97720 0.88732 1.23982 0.98534 1.00662 0.97228 1.22412 0.95499 0.83823 0.95988 0.88971 1.45680 1.40243 1.08784 1.40266 1.21237 0.79496 0.92057 0.79299 1.90829 1.53261 1.48039 1.52902 1.22055 0.93357 0.94354 0.91701 1.50180 1.16145 1.37535 1.13047 1.27070 0.82294 0.95243 0.98513 1.70521 1.33645 1.21581 1.04972 1.26423 0.88375 0.95573 1.01649 1.78120 1.24347 1.19774 0.94411 1.23654 0.97496 0.99543 0.95240 0.91941 0.87715 0.86991 0.74937 0.86926 0.93624 0.73589 0.79311 0.83821 0.71376 0.75426 0.88880 0.84644 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 -0.91 -56.24 13.22 21.65 0.29 -55.95 16 2 C 0.01 0.81 5.49 84.86 0.47 1.28 16 3 Si 1.00 44.07 29.55 68.60 2.03 46.09 16 4 H -0.26 -11.16 7.11 99.48 0.71 -10.45 16 5 H -0.28 -11.89 7.11 99.48 0.71 -11.19 16 6 H -0.26 -10.90 7.11 99.48 0.71 -10.19 16 7 C -0.55 -31.76 9.50 67.95 0.65 -31.11 16 8 H 0.08 4.38 7.80 -2.91 -0.02 4.36 16 9 S -0.15 -8.25 20.57 -56.49 -1.16 -9.41 16 10 C -0.13 -5.32 6.16 71.24 0.44 -4.88 16 11 C 0.54 19.70 7.85 87.66 0.69 20.38 16 12 O -0.56 -25.64 15.46 -3.02 -0.05 -25.69 16 13 N -0.70 -17.08 5.26 -440.04 -2.32 -19.39 16 14 C 0.11 2.08 4.32 45.52 0.20 2.27 16 15 H 0.09 2.17 7.46 -2.39 -0.02 2.15 16 16 C -0.16 -2.85 7.68 31.12 0.24 -2.61 16 17 C 0.13 1.61 4.11 45.51 0.19 1.80 16 18 H 0.09 1.68 7.47 -2.38 -0.02 1.66 16 19 N -0.70 -4.60 5.35 -440.01 -2.36 -6.96 16 20 C 0.49 6.28 7.87 87.66 0.69 6.97 16 21 O -0.57 -15.15 15.35 -3.04 -0.05 -15.20 16 22 C 0.11 0.36 7.03 85.64 0.60 0.97 16 23 N -0.38 -4.99 3.40 -355.80 -1.21 -6.20 16 24 C 0.26 2.71 12.63 180.36 2.28 4.99 16 25 N -0.58 -10.52 11.19 -204.00 -2.28 -12.81 16 26 C 0.18 3.64 13.03 180.77 2.36 5.99 16 27 N -0.34 -7.64 11.83 -61.25 -0.72 -8.37 16 28 C -0.12 -1.03 7.58 31.12 0.24 -0.80 16 29 H 0.27 15.60 8.31 -92.70 -0.77 14.82 16 30 H 0.10 3.89 8.14 -2.39 -0.02 3.87 16 31 H 0.11 3.99 8.14 -2.39 -0.02 3.98 16 32 H 0.41 7.75 8.70 -92.70 -0.81 6.94 16 33 H 0.11 1.50 8.14 -2.39 -0.02 1.48 16 34 H 0.04 1.11 8.14 -2.39 -0.02 1.09 16 35 H 0.43 -1.08 8.73 -92.71 -0.81 -1.89 16 36 H 0.19 -1.64 8.09 -2.39 -0.02 -1.66 16 37 H 0.14 -0.16 8.14 -2.39 -0.02 -0.18 16 38 H 0.27 -0.67 8.06 -2.91 -0.02 -0.70 16 39 H 0.23 3.27 8.06 -2.91 -0.02 3.25 16 40 H 0.09 0.72 8.14 -2.39 -0.02 0.70 16 41 H 0.14 0.28 8.12 -2.39 -0.02 0.26 16 Total: -1.00 -100.99 375.42 0.66 -100.33 By element: Atomic # 1 Polarization: 8.84 SS G_CDS: -0.53 Total: 8.32 kcal Atomic # 6 Polarization: -3.78 SS G_CDS: 9.02 Total: 5.25 kcal Atomic # 7 Polarization: -101.08 SS G_CDS: -8.60 Total: -109.68 kcal Atomic # 8 Polarization: -40.80 SS G_CDS: -0.09 Total: -40.89 kcal Atomic # 14 Polarization: 44.07 SS G_CDS: 2.03 Total: 46.09 kcal Atomic # 16 Polarization: -8.25 SS G_CDS: -1.16 Total: -9.41 kcal Total: -100.99 0.66 -100.33 kcal The number of atoms in the molecule is 41 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. ZINC001493975648.mol2 41 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 118.450 kcal (2) G-P(sol) polarization free energy of solvation -100.990 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 17.460 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.664 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -100.326 kcal (6) G-S(sol) free energy of system = (1) + (5) 18.123 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.60 seconds