Wall clock time and date at job start Tue Mar 31 2020 06:44:59 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 1.53007 * 1 3 3 H 1.08999 * 109.46988 * 2 1 4 4 C 1.50702 * 109.47239 * 120.00073 * 2 1 3 5 5 H 1.07997 * 120.00009 * 119.99551 * 4 2 1 6 6 C 1.37881 * 119.99734 * 300.00232 * 4 2 1 7 7 N 1.31518 * 120.00228 * 359.97438 * 6 4 2 8 8 Si 1.86801 * 119.99836 * 179.97438 * 6 4 2 9 9 H 1.48495 * 109.47046 * 359.97438 * 8 6 4 10 10 H 1.48493 * 109.47228 * 120.00285 * 8 6 4 11 11 H 1.48504 * 109.46782 * 240.00196 * 8 6 4 12 12 S 1.81401 * 109.47144 * 240.00184 * 2 1 3 13 13 C 1.76202 * 102.99714 * 169.86735 * 12 2 1 14 14 C 1.38789 * 120.10604 * 5.08037 * 13 12 2 15 15 C 1.38201 * 119.98662 * 180.28248 * 14 13 12 16 16 C 1.38301 * 120.19995 * 359.73744 * 15 14 13 17 17 C 1.38252 * 120.21054 * 359.97438 * 16 15 14 18 18 C 1.38654 * 120.00756 * 359.97438 * 17 16 15 19 19 N 1.40142 * 120.09578 * 180.02562 * 18 17 16 20 20 C 1.34772 * 120.00482 * 335.20218 * 19 18 17 21 21 O 1.21301 * 119.99710 * 354.41964 * 20 19 18 22 22 C 1.50692 * 120.00260 * 174.42073 * 20 19 18 23 23 H 1.09004 * 109.47210 * 60.00084 * 22 20 19 24 24 C 1.52998 * 109.47425 * 299.99689 * 22 20 19 25 25 N 1.46503 * 109.47226 * 179.97438 * 22 20 19 26 26 C 1.36883 * 126.39875 * 239.99802 * 25 22 20 27 27 C 1.34670 * 106.81586 * 179.97438 * 26 25 22 28 28 N 1.34126 * 108.02253 * 0.02562 * 27 26 25 29 29 C 1.30502 * 109.25735 * 359.72634 * 28 27 26 30 30 H 1.09000 * 109.46421 * 65.04767 * 1 2 3 31 31 H 1.09000 * 109.46996 * 185.04341 * 1 2 3 32 32 H 1.08999 * 109.47080 * 305.04543 * 1 2 3 33 33 H 0.96997 * 120.00274 * 180.02562 * 7 6 4 34 34 H 1.07995 * 120.00549 * 0.02562 * 14 13 12 35 35 H 1.07996 * 119.90033 * 179.73057 * 15 14 13 36 36 H 1.08002 * 119.89377 * 180.02562 * 16 15 14 37 37 H 1.07994 * 119.99530 * 180.02562 * 17 16 15 38 38 H 0.97007 * 119.99414 * 155.19775 * 19 18 17 39 39 H 1.09005 * 109.46994 * 60.00105 * 24 22 20 40 40 H 1.08994 * 109.47623 * 179.97438 * 24 22 20 41 41 H 1.08996 * 109.47034 * 300.00225 * 24 22 20 42 42 H 1.07996 * 126.59391 * 0.04163 * 26 25 22 43 43 H 1.08002 * 125.99162 * 179.97438 * 27 26 25 44 44 H 1.07997 * 125.65654 * 180.29596 * 29 28 27 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 1.5301 0.0000 0.0000 3 1 1.8934 1.0277 0.0000 4 6 2.0324 -0.7104 1.2305 5 1 2.6533 -1.5885 1.1314 6 6 1.6993 -0.2394 2.4827 7 7 0.9435 0.8302 2.6034 8 14 2.3214 -1.1204 4.0080 9 1 3.1455 -2.2876 3.6038 10 1 3.1465 -0.1874 4.8166 11 1 1.1660 -1.5867 4.8160 12 16 2.1347 -0.8551 -1.4812 13 6 3.8603 -0.4986 -1.4678 14 6 4.4209 0.1891 -0.4006 15 6 5.7735 0.4725 -0.3954 16 6 6.5730 0.0680 -1.4489 17 6 6.0243 -0.6228 -2.5134 18 6 4.6685 -0.9126 -2.5270 19 7 4.1104 -1.6132 -3.6049 20 6 4.7068 -1.5777 -4.8130 21 8 5.6678 -0.8601 -4.9940 22 6 4.1797 -2.4295 -5.9388 23 1 3.1453 -2.1563 -6.1476 24 6 4.2464 -3.9043 -5.5369 25 7 4.9932 -2.2124 -7.1376 26 6 4.5515 -1.7416 -8.3447 27 6 5.6219 -1.6965 -9.1607 28 7 6.6880 -2.1285 -8.4709 29 6 6.3200 -2.4341 -7.2566 30 1 -0.3632 0.4336 -0.9318 31 1 -0.3633 -1.0237 0.0903 32 1 -0.3633 0.5901 0.8413 33 1 0.7095 1.1618 3.4844 34 1 3.7994 0.5063 0.4237 35 1 6.2075 1.0115 0.4337 36 1 7.6296 0.2917 -1.4396 37 1 6.6520 -0.9373 -3.3340 38 1 3.2949 -2.1237 -3.4813 39 1 3.6408 -4.0656 -4.6450 40 1 3.8648 -4.5204 -6.3510 41 1 5.2807 -4.1775 -5.3281 42 1 3.5394 -1.4595 -8.5944 43 1 5.6218 -1.3706 -10.1903 44 1 6.9687 -2.8048 -6.4768 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC000066855921.mol2 44 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 06:44:59 Heat of formation + Delta-G solvation = 44.820670 kcal Electronic energy + Delta-G solvation = -27241.800042 eV Core-core repulsion = 23479.128087 eV Total energy + Delta-G solvation = -3762.671955 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 345.125 amu Computer time = 0.91 seconds Orbital eigenvalues (eV) -43.15310 -41.58901 -39.45408 -36.30894 -36.04259 -35.76197 -32.45701 -31.86045 -31.72757 -30.45516 -29.86830 -27.38036 -26.07976 -24.34672 -23.91666 -23.14411 -22.35531 -22.06537 -21.06781 -19.42524 -18.52277 -18.32143 -18.14706 -17.57759 -16.99649 -16.72620 -16.20566 -15.99378 -15.45321 -15.38304 -15.22635 -15.09109 -14.89044 -14.72223 -14.56724 -14.30324 -14.05844 -13.59656 -13.50794 -13.44045 -13.32094 -12.99565 -12.87536 -12.79350 -12.53944 -12.38214 -12.29108 -11.85825 -11.57812 -11.33432 -11.16933 -10.94732 -10.92514 -10.57635 -10.50787 -10.45455 -9.41225 -9.29051 -8.32048 -7.99791 -6.34712 0.18599 0.41213 0.87363 1.03755 1.34139 1.38311 1.43047 1.51955 1.56943 1.80665 2.06043 2.26329 2.38940 2.82663 3.08707 3.21899 3.64842 3.71671 3.85739 3.94727 3.99953 4.18567 4.38921 4.51487 4.52703 4.56606 4.61328 4.62745 4.64977 4.77457 4.83275 4.88535 4.97188 5.04881 5.21224 5.30373 5.31887 5.35689 5.47482 5.60725 5.63628 5.77601 5.84196 6.02382 6.04275 6.11839 6.27798 6.68206 6.82364 7.14743 7.32116 8.83522 Molecular weight = 345.13amu Principal moments of inertia in cm(-1) A = 0.019840 B = 0.002714 C = 0.002549 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1410.961295 B =10315.463122 C =10982.722504 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.116 4.116 2 C 0.091 3.909 3 H 0.024 0.976 4 C -0.521 4.521 5 H 0.058 0.942 6 C 0.030 3.970 7 N -0.909 5.909 8 Si 0.950 3.050 9 H -0.270 1.270 10 H -0.280 1.280 11 H -0.279 1.279 12 S -0.166 6.166 13 C -0.105 4.105 14 C -0.120 4.120 15 C -0.127 4.127 16 C -0.110 4.110 17 C -0.128 4.128 18 C 0.146 3.854 19 N -0.645 5.645 20 C 0.503 3.497 21 O -0.538 6.538 22 C 0.125 3.875 23 H 0.161 0.839 24 C -0.157 4.157 25 N -0.444 5.444 26 C -0.049 4.049 27 C -0.055 4.055 28 N -0.537 5.537 29 C 0.197 3.803 30 H 0.040 0.960 31 H 0.040 0.960 32 H 0.076 0.924 33 H 0.266 0.734 34 H 0.130 0.870 35 H 0.138 0.862 36 H 0.151 0.849 37 H 0.145 0.855 38 H 0.422 0.578 39 H 0.101 0.899 40 H 0.097 0.903 41 H 0.068 0.932 42 H 0.208 0.792 43 H 0.184 0.816 44 H 0.204 0.796 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 4.060 -7.807 -15.094 17.472 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 -0.176 4.176 2 C -0.037 4.037 3 H 0.042 0.958 4 C -0.560 4.560 5 H 0.076 0.924 6 C -0.172 4.172 7 N -0.547 5.547 8 Si 0.776 3.224 9 H -0.194 1.194 10 H -0.206 1.206 11 H -0.205 1.205 12 S 0.080 5.920 13 C -0.220 4.220 14 C -0.144 4.144 15 C -0.147 4.147 16 C -0.131 4.131 17 C -0.149 4.149 18 C 0.045 3.955 19 N -0.290 5.290 20 C 0.290 3.710 21 O -0.414 6.414 22 C 0.018 3.982 23 H 0.179 0.821 24 C -0.215 4.215 25 N -0.128 5.128 26 C -0.181 4.181 27 C -0.201 4.201 28 N -0.255 5.255 29 C -0.086 4.086 30 H 0.059 0.941 31 H 0.059 0.941 32 H 0.095 0.905 33 H 0.075 0.925 34 H 0.148 0.852 35 H 0.156 0.844 36 H 0.168 0.832 37 H 0.163 0.837 38 H 0.261 0.739 39 H 0.120 0.880 40 H 0.115 0.885 41 H 0.087 0.913 42 H 0.225 0.775 43 H 0.202 0.798 44 H 0.221 0.779 Dipole moment (debyes) X Y Z Total from point charges 4.560 -7.971 -16.129 18.560 hybrid contribution -0.282 0.645 2.562 2.657 sum 4.279 -7.326 -13.566 16.001 Atomic orbital electron populations 1.21501 0.94517 1.00885 1.00677 1.20905 0.96502 0.95564 0.90689 0.95822 1.21347 1.31885 1.12587 0.90182 0.92355 1.25594 0.94870 0.95411 1.01319 1.69968 1.36762 1.23477 1.24515 0.85601 0.78270 0.78824 0.79669 1.19413 1.20631 1.20500 1.83944 0.99760 1.70572 1.37711 1.21524 0.97356 1.04571 0.98529 1.21614 0.96849 0.98372 0.97531 1.21314 0.92887 1.00914 0.99593 1.21315 1.00901 0.98062 0.92845 1.21304 0.92551 1.01107 0.99967 1.17285 0.92009 0.98467 0.87752 1.43358 1.28975 1.49165 1.07511 1.21235 0.83634 0.82553 0.83563 1.90750 1.28111 1.40342 1.82214 1.21472 0.97500 0.97791 0.81466 0.82142 1.22202 1.04739 0.89753 1.04762 1.45315 1.08896 1.48488 1.10069 1.23259 1.02569 1.07133 0.85142 1.22703 0.88681 1.07109 1.01651 1.70276 1.31669 1.18972 1.04632 1.24954 0.83454 1.03780 0.96431 0.94136 0.94088 0.90523 0.92468 0.85240 0.84410 0.83152 0.83715 0.73863 0.88041 0.88452 0.91319 0.77534 0.79846 0.77944 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 C -0.12 -5.08 8.90 71.98 0.64 -4.44 16 2 C 0.09 4.20 2.02 29.85 0.06 4.26 16 3 H 0.02 1.21 7.39 -2.39 -0.02 1.20 16 4 C -0.52 -25.78 6.41 25.60 0.16 -25.62 16 5 H 0.06 2.96 7.71 -2.91 -0.02 2.94 16 6 C 0.03 1.51 5.30 84.65 0.45 1.96 16 7 N -0.91 -47.70 11.38 21.45 0.24 -47.45 16 8 Si 0.95 40.58 29.54 68.60 2.03 42.61 16 9 H -0.27 -11.40 7.11 99.48 0.71 -10.69 16 10 H -0.28 -11.85 7.11 99.48 0.71 -11.15 16 11 H -0.28 -11.76 7.11 99.48 0.71 -11.05 16 12 S -0.17 -6.22 19.95 -56.49 -1.13 -7.35 16 13 C -0.10 -3.89 6.11 22.71 0.14 -3.75 16 14 C -0.12 -4.69 8.85 22.39 0.20 -4.49 16 15 C -0.13 -4.13 10.04 22.28 0.22 -3.91 16 16 C -0.11 -3.19 10.04 22.29 0.22 -2.97 16 17 C -0.13 -3.93 8.72 22.37 0.20 -3.74 16 18 C 0.15 4.65 6.44 38.22 0.25 4.90 16 19 N -0.64 -15.63 5.02 -303.01 -1.52 -17.15 16 20 C 0.50 11.28 6.93 87.66 0.61 11.89 16 21 O -0.54 -16.16 12.64 -3.09 -0.04 -16.20 16 22 C 0.12 1.74 3.39 44.24 0.15 1.89 16 23 H 0.16 1.30 8.08 -2.38 -0.02 1.28 16 24 C -0.16 -1.45 9.15 71.98 0.66 -0.79 16 25 N -0.44 -8.26 2.40 -510.46 -1.23 -9.48 16 26 C -0.05 -0.85 11.54 83.09 0.96 0.11 16 27 C -0.06 -1.19 11.87 83.52 0.99 -0.20 16 28 N -0.54 -14.47 11.25 -200.31 -2.25 -16.72 16 29 C 0.20 4.56 10.75 180.26 1.94 6.50 16 30 H 0.04 1.56 8.14 -2.39 -0.02 1.54 16 31 H 0.04 1.74 8.14 -2.39 -0.02 1.72 16 32 H 0.08 3.71 6.22 -2.39 -0.01 3.70 16 33 H 0.27 13.33 8.31 -92.71 -0.77 12.56 16 34 H 0.13 5.86 4.79 -2.91 -0.01 5.85 16 35 H 0.14 3.88 8.06 -2.91 -0.02 3.86 16 36 H 0.15 3.37 8.06 -2.91 -0.02 3.35 16 37 H 0.15 4.34 5.79 -2.91 -0.02 4.32 16 38 H 0.42 8.61 7.26 -92.70 -0.67 7.94 16 39 H 0.10 0.70 7.70 -2.38 -0.02 0.68 16 40 H 0.10 0.66 8.14 -2.39 -0.02 0.64 16 41 H 0.07 0.75 7.95 -2.39 -0.02 0.73 16 42 H 0.21 1.93 8.06 -2.91 -0.02 1.90 16 43 H 0.18 3.02 8.06 -2.91 -0.02 3.00 16 44 H 0.20 4.13 8.06 -2.91 -0.02 4.10 16 Total: -1.00 -66.05 375.86 4.31 -61.74 By element: Atomic # 1 Polarization: 28.05 SS G_CDS: 0.36 Total: 28.41 kcal Atomic # 6 Polarization: -26.25 SS G_CDS: 7.84 Total: -18.40 kcal Atomic # 7 Polarization: -86.06 SS G_CDS: -4.76 Total: -90.81 kcal Atomic # 8 Polarization: -16.16 SS G_CDS: -0.04 Total: -16.20 kcal Atomic # 14 Polarization: 40.58 SS G_CDS: 2.03 Total: 42.61 kcal Atomic # 16 Polarization: -6.22 SS G_CDS: -1.13 Total: -7.35 kcal Total: -66.05 4.31 -61.74 kcal The number of atoms in the molecule is 44 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. ZINC000066855921.mol2 44 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 106.565 kcal (2) G-P(sol) polarization free energy of solvation -66.050 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 40.515 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.305 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.744 kcal (6) G-S(sol) free energy of system = (1) + (5) 44.821 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.91 seconds