Wall clock time and date at job start Wed Apr 1 2020 03:09:23 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 1.30642 * 1 3 3 Si 1.86794 * 119.99907 * 2 1 4 4 H 1.48495 * 109.47374 * 270.00237 * 3 2 1 5 5 H 1.48498 * 109.47437 * 30.00431 * 3 2 1 6 6 H 1.48499 * 109.47153 * 150.00358 * 3 2 1 7 7 C 1.40308 * 119.99708 * 180.02562 * 2 1 3 8 8 H 1.08001 * 119.99766 * 189.78387 * 7 2 1 9 9 C 1.40538 * 120.00281 * 9.77809 * 7 2 1 10 10 C 1.44182 * 123.71417 * 23.64730 * 9 7 2 11 11 C 1.32767 * 114.42929 * 180.28887 * 10 9 7 12 12 S 1.75463 * 111.36402 * 359.73168 * 11 10 9 13 13 C 1.39549 * 123.71513 * 203.43147 * 9 7 2 14 14 C 1.46233 * 125.22458 * 0.02562 * 13 9 7 15 15 O 1.21759 * 120.00465 * 359.71326 * 14 13 9 16 16 N 1.34780 * 119.99707 * 179.71799 * 14 13 9 17 17 C 1.46498 * 120.00158 * 179.97438 * 16 14 13 18 18 C 1.50697 * 109.47183 * 179.97438 * 17 16 14 19 19 C 1.38262 * 120.00324 * 259.97816 * 18 17 16 20 20 C 1.38207 * 120.00144 * 179.97438 * 19 18 17 21 21 C 1.38258 * 119.99928 * 359.79448 * 20 19 18 22 22 C 1.38210 * 119.99787 * 0.48943 * 21 20 19 23 23 C 1.38212 * 120.00045 * 80.00778 * 18 17 16 24 24 C 1.50704 * 119.99820 * 359.97137 * 23 18 17 25 25 C 1.50695 * 109.46895 * 85.02512 * 24 23 18 26 26 O 1.20824 * 120.00121 * 0.02562 * 25 24 23 27 27 O 1.34231 * 120.00219 * 179.97438 * 25 24 23 28 28 H 0.97000 * 119.99890 * 359.97438 * 1 2 3 29 29 H 1.08004 * 122.79059 * 0.02562 * 10 9 7 30 30 H 1.07999 * 124.31628 * 179.77277 * 11 10 9 31 31 H 0.97001 * 120.00230 * 0.02562 * 16 14 13 32 32 H 1.09002 * 109.46932 * 59.99995 * 17 16 14 33 33 H 1.08994 * 109.47455 * 300.00549 * 17 16 14 34 34 H 1.08005 * 119.99751 * 0.02562 * 19 18 17 35 35 H 1.08004 * 119.99750 * 180.02562 * 20 19 18 36 36 H 1.07998 * 119.99881 * 180.24905 * 21 20 19 37 37 H 1.08005 * 119.99744 * 179.76446 * 22 21 20 38 38 H 1.09002 * 109.47149 * 205.02562 * 24 23 18 39 39 H 1.09001 * 109.47253 * 325.02691 * 24 23 18 40 40 H 0.96696 * 117.00006 * 180.02562 * 27 25 24 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 1.3064 0.0000 0.0000 3 14 2.2404 1.6177 0.0000 4 1 2.4878 2.0465 -1.4000 5 1 1.4379 2.6526 0.7001 6 1 3.5380 1.4401 0.7000 7 6 2.0079 -1.2151 -0.0005 8 1 3.0761 -1.2220 0.1584 9 6 1.3205 -2.4233 -0.2078 10 6 0.0553 -2.5169 -0.8929 11 6 -0.4324 -3.7487 -0.9795 12 16 0.6387 -4.9149 -0.2235 13 6 1.7894 -3.6650 0.2231 14 6 3.0429 -3.8902 0.9418 15 8 3.7717 -2.9507 1.2039 16 7 3.3914 -5.1378 1.3141 17 6 4.6474 -5.3635 2.0337 18 6 4.7987 -6.8331 2.3312 19 6 4.4893 -7.3195 3.5879 20 6 4.6276 -8.6673 3.8605 21 6 5.0714 -9.5299 2.8754 22 6 5.3863 -9.0428 1.6209 23 6 5.2475 -7.6946 1.3480 24 6 5.5848 -7.1644 -0.0218 25 6 7.0020 -6.6519 -0.0270 26 8 7.6697 -6.7115 0.9782 27 8 7.5229 -6.1301 -1.1487 28 1 -0.4850 0.8401 0.0004 29 1 -0.4555 -1.6559 -1.2981 30 1 -1.3686 -4.0008 -1.4553 31 1 2.8111 -5.8863 1.1050 32 1 4.6363 -4.8032 2.9686 33 1 5.4833 -5.0288 1.4195 34 1 4.1387 -6.6463 4.3562 35 1 4.3854 -9.0473 4.8421 36 1 5.1756 -10.5838 3.0873 37 1 5.7366 -9.7160 0.8525 38 1 5.4849 -7.9641 -0.7557 39 1 4.9037 -6.3519 -0.2748 40 1 8.4359 -5.8149 -1.1034 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 ZINC001601079331.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 03:09:23 Heat of formation + Delta-G solvation = -107.635035 kcal Electronic energy + Delta-G solvation = -26909.639398 eV Core-core repulsion = 22972.230622 eV Total energy + Delta-G solvation = -3937.408776 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 345.087 amu Computer time = 0.72 seconds Orbital eigenvalues (eV) -41.66391 -40.49884 -39.76033 -37.87040 -37.14539 -35.75692 -34.91165 -33.93049 -32.36953 -30.81458 -29.34051 -28.40696 -26.59070 -23.97634 -23.78339 -22.76039 -21.82257 -21.42595 -20.62421 -19.44747 -19.17425 -17.75778 -17.58594 -17.44424 -17.36666 -17.02237 -16.38496 -16.25381 -16.12957 -15.57057 -15.45360 -15.28704 -14.36140 -14.22391 -14.16288 -13.99042 -13.85474 -13.76574 -13.56541 -13.35157 -13.29670 -13.12841 -12.93388 -12.72902 -12.56625 -12.09537 -12.03404 -12.02462 -11.93273 -11.72683 -11.41745 -11.06243 -10.50629 -10.03114 -9.79732 -9.69331 -9.34885 -8.93142 -8.86166 -6.45653 0.22993 0.30809 0.40237 1.14246 1.33032 1.34307 1.38075 1.47069 1.78601 1.97638 2.13483 2.17079 2.50292 2.53058 3.00483 3.31223 3.47419 3.67883 3.86468 4.04311 4.28353 4.30085 4.36558 4.38550 4.46826 4.47838 4.63774 4.72766 4.90328 5.00234 5.00981 5.09967 5.28257 5.39435 5.48051 5.54586 5.56194 5.56736 5.60228 5.64394 5.83913 6.04017 6.39632 6.57261 6.71181 6.93310 6.94524 7.69988 8.06973 Molecular weight = 345.09amu Principal moments of inertia in cm(-1) A = 0.012627 B = 0.003258 C = 0.002972 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2216.933779 B = 8591.024438 C = 9419.713330 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.792 5.792 2 C 0.037 3.963 3 Si 0.987 3.013 4 H -0.249 1.249 5 H -0.254 1.254 6 H -0.274 1.274 7 C -0.418 4.418 8 H 0.083 0.917 9 C 0.114 3.886 10 C -0.129 4.129 11 C -0.190 4.190 12 S 0.012 5.988 13 C -0.465 4.465 14 C 0.592 3.408 15 O -0.604 6.604 16 N -0.727 5.727 17 C 0.174 3.826 18 C -0.101 4.101 19 C -0.115 4.115 20 C -0.116 4.116 21 C -0.111 4.111 22 C -0.108 4.108 23 C -0.073 4.073 24 C -0.082 4.082 25 C 0.484 3.516 26 O -0.540 6.540 27 O -0.514 6.514 28 H 0.301 0.699 29 H 0.141 0.859 30 H 0.177 0.823 31 H 0.400 0.600 32 H 0.054 0.946 33 H 0.046 0.954 34 H 0.125 0.875 35 H 0.150 0.850 36 H 0.157 0.843 37 H 0.150 0.850 38 H 0.150 0.850 39 H 0.104 0.896 40 H 0.427 0.573 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 5.607 -15.516 -0.234 16.499 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 -0.416 5.416 2 C -0.183 4.183 3 Si 0.807 3.193 4 H -0.173 1.173 5 H -0.178 1.178 6 H -0.198 1.198 7 C -0.448 4.448 8 H 0.101 0.899 9 C 0.102 3.898 10 C -0.162 4.162 11 C -0.324 4.324 12 S 0.268 5.732 13 C -0.584 4.584 14 C 0.389 3.611 15 O -0.490 6.490 16 N -0.380 5.380 17 C 0.050 3.950 18 C -0.101 4.101 19 C -0.133 4.133 20 C -0.134 4.134 21 C -0.129 4.129 22 C -0.126 4.126 23 C -0.074 4.074 24 C -0.119 4.119 25 C 0.328 3.672 26 O -0.431 6.431 27 O -0.328 6.328 28 H 0.112 0.888 29 H 0.158 0.842 30 H 0.194 0.806 31 H 0.236 0.764 32 H 0.072 0.928 33 H 0.064 0.936 34 H 0.143 0.857 35 H 0.168 0.832 36 H 0.174 0.826 37 H 0.168 0.832 38 H 0.168 0.832 39 H 0.122 0.878 40 H 0.288 0.712 Dipole moment (debyes) X Y Z Total from point charges 5.632 -16.421 0.403 17.364 hybrid contribution 0.685 2.548 -0.071 2.639 sum 6.317 -13.873 0.332 15.247 Atomic orbital electron populations 1.69649 1.08722 1.31912 1.31358 1.27019 0.95788 1.04761 0.90776 0.85114 0.78704 0.75221 0.80250 1.17316 1.17809 1.19843 1.20030 0.96888 0.90801 1.37115 0.89901 1.18376 0.90895 0.92338 0.88158 1.21604 0.96376 0.97219 1.00957 1.25455 1.04166 0.96184 1.06628 1.82305 1.15692 1.11556 1.63639 1.22982 1.06242 0.97310 1.31879 1.17075 0.84486 0.81932 0.77638 1.90632 1.55049 1.43230 1.60117 1.45682 1.23138 1.08233 1.60927 1.19861 0.86282 0.92773 0.96042 1.19667 1.01830 0.93330 0.95294 1.21243 0.99410 0.97066 0.95616 1.21486 0.98705 0.92412 1.00818 1.21546 0.97589 1.01263 0.92504 1.21320 0.99067 0.93683 0.98551 1.19264 1.00139 0.94486 0.93480 1.20434 0.89669 1.04302 0.97540 1.23527 0.90147 0.73410 0.80117 1.90719 1.62840 1.54282 1.35223 1.84513 1.37025 1.72801 1.38448 0.88771 0.84167 0.80565 0.76448 0.92796 0.93599 0.85661 0.83234 0.82577 0.83205 0.83228 0.87776 0.71171 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 -0.79 -38.43 10.82 21.89 0.24 -38.19 16 2 C 0.04 1.82 5.39 85.37 0.46 2.28 16 3 Si 0.99 38.67 29.57 68.60 2.03 40.70 16 4 H -0.25 -9.09 7.11 99.48 0.71 -8.39 16 5 H -0.25 -9.05 7.11 99.48 0.71 -8.34 16 6 H -0.27 -11.50 7.11 99.48 0.71 -10.80 16 7 C -0.42 -23.57 8.52 23.33 0.20 -23.37 16 8 H 0.08 5.04 6.03 -2.91 -0.02 5.02 16 9 C 0.11 6.21 5.67 -20.89 -0.12 6.09 16 10 C -0.13 -6.24 9.04 22.60 0.20 -6.03 16 11 C -0.19 -7.80 11.07 66.64 0.74 -7.06 16 12 S 0.01 0.51 22.25 -56.49 -1.26 -0.75 16 13 C -0.47 -23.77 6.51 24.67 0.16 -23.61 16 14 C 0.59 29.92 7.76 86.32 0.67 30.59 16 15 O -0.60 -35.11 14.45 -4.54 -0.07 -35.18 16 16 N -0.73 -28.77 4.87 -471.23 -2.29 -31.07 16 17 C 0.17 6.27 4.95 85.63 0.42 6.70 16 18 C -0.10 -2.89 5.25 -19.87 -0.10 -3.00 16 19 C -0.11 -2.86 9.67 22.27 0.22 -2.65 16 20 C -0.12 -2.22 10.05 22.27 0.22 -1.99 16 21 C -0.11 -1.87 10.05 22.27 0.22 -1.64 16 22 C -0.11 -2.06 9.68 22.27 0.22 -1.84 16 23 C -0.07 -1.80 4.37 -19.87 -0.09 -1.89 16 24 C -0.08 -1.92 5.29 29.10 0.15 -1.77 16 25 C 0.48 12.69 7.54 71.23 0.54 13.23 16 26 O -0.54 -17.28 16.79 21.97 0.37 -16.91 16 27 O -0.51 -11.14 13.42 -51.43 -0.69 -11.83 16 28 H 0.30 12.83 8.29 -92.71 -0.77 12.06 16 29 H 0.14 6.78 6.41 -2.91 -0.02 6.76 16 30 H 0.18 5.73 8.06 -2.91 -0.02 5.71 16 31 H 0.40 14.22 7.54 -92.71 -0.70 13.52 16 32 H 0.05 2.07 8.00 -2.39 -0.02 2.05 16 33 H 0.05 1.79 6.70 -2.39 -0.02 1.78 16 34 H 0.13 3.01 8.04 -2.91 -0.02 2.99 16 35 H 0.15 1.99 8.06 -2.91 -0.02 1.97 16 36 H 0.16 1.57 8.06 -2.91 -0.02 1.55 16 37 H 0.15 1.96 8.06 -2.91 -0.02 1.93 16 38 H 0.15 2.33 8.05 -2.39 -0.02 2.31 16 39 H 0.10 2.88 6.60 -2.39 -0.02 2.87 16 40 H 0.43 5.63 9.10 -74.06 -0.67 4.95 16 Total: -1.00 -73.45 361.30 2.20 -71.25 By element: Atomic # 1 Polarization: 38.18 SS G_CDS: -0.24 Total: 37.93 kcal Atomic # 6 Polarization: -20.07 SS G_CDS: 4.12 Total: -15.96 kcal Atomic # 7 Polarization: -67.20 SS G_CDS: -2.06 Total: -69.26 kcal Atomic # 8 Polarization: -63.53 SS G_CDS: -0.39 Total: -63.92 kcal Atomic # 14 Polarization: 38.67 SS G_CDS: 2.03 Total: 40.70 kcal Atomic # 16 Polarization: 0.51 SS G_CDS: -1.26 Total: -0.75 kcal Total: -73.45 2.20 -71.25 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. ZINC001601079331.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 -36.385 kcal (2) G-P(sol) polarization free energy of solvation -73.449 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -109.834 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.199 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -71.250 kcal (6) G-S(sol) free energy of system = (1) + (5) -107.635 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.72 seconds