Wall clock time and date at job start Tue Mar 31 2020 22:36:37 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 1.31637 * 1 3 3 Si 1.86803 * 119.99716 * 2 1 4 4 H 1.48495 * 109.47187 * 270.00465 * 3 2 1 5 5 H 1.48503 * 109.47052 * 30.00351 * 3 2 1 6 6 H 1.48498 * 109.46752 * 149.99870 * 3 2 1 7 7 C 1.38796 * 120.00294 * 180.02562 * 2 1 3 8 8 H 1.08005 * 119.99731 * 359.97438 * 7 2 1 9 9 S 1.76198 * 119.99939 * 179.97438 * 7 2 1 10 10 C 1.81002 * 99.99628 * 180.02562 * 9 7 2 11 11 C 1.50704 * 109.46984 * 180.02562 * 10 9 7 12 12 O 1.21280 * 119.99905 * 0.02562 * 11 10 9 13 13 N 1.34776 * 120.00197 * 179.97438 * 11 10 9 14 14 C 1.46496 * 120.00015 * 180.02562 * 13 11 10 15 15 H 1.09004 * 112.90889 * 336.25053 * 14 13 11 16 16 C 1.53784 * 113.61524 * 107.50411 * 14 13 11 17 17 C 1.53779 * 87.08045 * 89.11591 * 16 14 13 18 18 H 1.09001 * 113.69124 * 270.87427 * 17 16 14 19 19 N 1.46503 * 113.61483 * 139.98067 * 17 16 14 20 20 C 1.34781 * 119.99611 * 107.50299 * 19 17 16 21 21 O 1.21273 * 120.00337 * 359.97438 * 20 19 17 22 22 C 1.50701 * 119.99619 * 180.02562 * 20 19 17 23 23 N 1.46501 * 109.47244 * 179.97438 * 22 20 19 24 24 N 1.28601 * 124.61769 * 269.70252 * 23 22 20 25 25 C 1.31377 * 108.71632 * 179.82708 * 24 23 22 26 26 C 1.39680 * 105.90113 * 0.41074 * 25 24 23 27 27 N 1.28597 * 124.61926 * 89.99479 * 23 22 20 28 28 C 1.53779 * 87.08402 * 25.43458 * 17 16 14 29 29 H 0.96996 * 120.00074 * 359.97438 * 1 2 3 30 30 H 1.09003 * 109.47447 * 60.00272 * 10 9 7 31 31 H 1.09000 * 109.47074 * 299.99882 * 10 9 7 32 32 H 0.96998 * 119.99607 * 0.02562 * 13 11 10 33 33 H 1.09002 * 113.61478 * 203.66556 * 16 14 13 34 34 H 1.09004 * 113.61162 * 334.56734 * 16 14 13 35 35 H 0.96998 * 120.00047 * 287.50318 * 19 17 16 36 36 H 1.08997 * 109.47035 * 300.00054 * 22 20 19 37 37 H 1.09003 * 109.47012 * 60.00128 * 22 20 19 38 38 H 1.08007 * 127.04922 * 180.16125 * 25 24 23 39 39 H 1.07998 * 127.04985 * 179.76435 * 26 25 24 40 40 H 1.08997 * 113.61646 * 220.02209 * 28 17 16 41 41 H 1.09000 * 113.61527 * 89.11480 * 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 1.3164 0.0000 0.0000 3 14 2.2503 1.6178 0.0000 4 1 2.4977 2.0466 -1.4000 5 1 1.4477 2.6527 0.7001 6 1 3.5478 1.4402 0.7001 7 6 2.0104 -1.2020 -0.0005 8 1 1.4704 -2.1373 -0.0005 9 16 3.7724 -1.2019 -0.0012 10 6 4.0867 -2.9844 -0.0025 11 6 5.5732 -3.2323 -0.0026 12 8 6.3441 -2.2961 -0.0014 13 7 6.0459 -4.4945 -0.0030 14 6 7.4909 -4.7355 -0.0026 15 1 8.0608 -3.8986 -0.4063 16 6 8.0283 -5.2555 1.3412 17 6 7.7383 -6.6726 0.8192 18 1 6.7311 -7.0242 1.0430 19 7 8.7726 -7.6496 1.1682 20 6 8.5260 -8.5864 2.1053 21 8 7.4481 -8.6202 2.6600 22 6 9.5902 -9.5911 2.4647 23 7 9.0803 -10.4931 3.5004 24 7 9.1951 -10.2921 4.7654 25 6 8.6266 -11.2896 5.4040 26 6 8.1459 -12.1522 4.4162 27 7 8.4618 -11.5965 3.2684 28 6 7.8887 -6.0962 -0.5986 29 1 -0.4850 0.8400 0.0004 30 1 3.6435 -3.4309 -0.8927 31 1 3.6441 -3.4320 0.8873 32 1 5.4293 -5.2432 -0.0036 33 1 9.0887 -5.0551 1.4944 34 1 7.4149 -4.9711 2.1962 35 1 9.6349 -7.6224 0.7248 36 1 9.8587 -10.1681 1.5799 37 1 10.4708 -9.0693 2.8393 38 1 8.5505 -11.4185 6.4737 39 1 7.6217 -13.0846 4.5653 40 1 7.1627 -6.4905 -1.3095 41 1 8.9110 -6.1256 -0.9757 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 ZINC001524878260.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 22:36:37 Heat of formation + Delta-G solvation = 34.107973 kcal Electronic energy + Delta-G solvation = -25297.432967 eV Core-core repulsion = 21341.214742 eV Total energy + Delta-G solvation = -3956.218225 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.62 seconds Orbital eigenvalues (eV) -44.48141 -41.61452 -40.59581 -39.11581 -35.38730 -34.76875 -34.68757 -33.63143 -33.38890 -30.76827 -29.39770 -27.88153 -26.77119 -25.53270 -23.82268 -23.12807 -22.32510 -21.64347 -20.73210 -19.91200 -18.82862 -18.63496 -18.09540 -17.32987 -17.12883 -17.00049 -16.82744 -16.68989 -16.44523 -15.90354 -15.69682 -15.39121 -15.22314 -14.94899 -14.81914 -14.52069 -14.16376 -13.67787 -13.43243 -13.37451 -13.29779 -13.22625 -13.01660 -12.62571 -12.58508 -11.98149 -11.88106 -11.80531 -11.68397 -11.41890 -11.32623 -11.18559 -11.05294 -10.56915 -10.28099 -10.23683 -10.06885 -9.01686 -8.53090 -6.24404 0.73279 0.96554 1.27112 1.30309 1.33710 1.45090 1.50168 1.54135 1.60340 2.11878 2.17050 2.24284 2.68811 2.84941 3.30200 3.33784 3.50919 3.53565 3.78002 3.86134 3.99529 4.00412 4.03334 4.17831 4.20104 4.43571 4.54259 4.59173 4.69868 4.75720 4.85628 4.95061 5.00056 5.05018 5.31247 5.33230 5.56406 5.67662 5.68877 6.09624 6.36631 6.40632 6.91666 7.06299 7.13909 7.35235 8.59377 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.021817 B = 0.001759 C = 0.001680 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1283.088340 B =15911.999501 C =16661.320419 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.917 5.917 2 C 0.044 3.956 3 Si 0.916 3.084 4 H -0.260 1.260 5 H -0.259 1.259 6 H -0.237 1.237 7 C -0.531 4.531 8 H 0.061 0.939 9 S -0.171 6.171 10 C -0.115 4.115 11 C 0.540 3.460 12 O -0.558 6.558 13 N -0.700 5.700 14 C 0.112 3.888 15 H 0.100 0.900 16 C -0.162 4.162 17 C 0.124 3.876 18 H 0.093 0.907 19 N -0.691 5.691 20 C 0.499 3.501 21 O -0.579 6.579 22 C 0.117 3.883 23 N -0.157 5.157 24 N -0.313 5.313 25 C -0.028 4.028 26 C -0.027 4.027 27 N -0.311 5.311 28 C -0.123 4.123 29 H 0.277 0.723 30 H 0.115 0.885 31 H 0.109 0.891 32 H 0.414 0.586 33 H 0.116 0.884 34 H 0.049 0.951 35 H 0.427 0.573 36 H 0.173 0.827 37 H 0.170 0.830 38 H 0.228 0.772 39 H 0.229 0.771 40 H 0.092 0.908 41 H 0.136 0.864 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 26.433 -25.927 2.698 37.125 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 -0.555 5.555 2 C -0.161 4.161 3 Si 0.738 3.262 4 H -0.185 1.185 5 H -0.183 1.183 6 H -0.161 1.161 7 C -0.679 4.679 8 H 0.079 0.921 9 S 0.055 5.945 10 C -0.266 4.266 11 C 0.326 3.674 12 O -0.436 6.436 13 N -0.353 5.353 14 C 0.006 3.994 15 H 0.118 0.882 16 C -0.202 4.202 17 C 0.018 3.982 18 H 0.111 0.889 19 N -0.344 5.344 20 C 0.284 3.716 21 O -0.458 6.458 22 C -0.006 4.006 23 N -0.057 5.057 24 N -0.154 5.154 25 C -0.211 4.211 26 C -0.210 4.210 27 N -0.151 5.151 28 C -0.161 4.161 29 H 0.087 0.913 30 H 0.133 0.867 31 H 0.127 0.873 32 H 0.251 0.749 33 H 0.134 0.866 34 H 0.067 0.933 35 H 0.266 0.734 36 H 0.190 0.810 37 H 0.187 0.813 38 H 0.244 0.756 39 H 0.245 0.755 40 H 0.111 0.889 41 H 0.154 0.846 Dipole moment (debyes) X Y Z Total from point charges 27.284 -23.465 2.080 36.047 hybrid contribution -1.921 -1.077 0.746 2.325 sum 25.363 -24.542 2.826 35.406 Atomic orbital electron populations 1.70022 1.07341 1.29065 1.49049 1.25602 0.95316 1.02370 0.92839 0.85839 0.80621 0.79424 0.80307 1.18481 1.18338 1.16070 1.22472 0.90348 0.96687 1.58400 0.92112 1.84646 1.06327 1.05918 1.97586 1.23293 0.96073 0.99827 1.07364 1.19897 0.89272 0.83379 0.74865 1.90684 1.59165 1.43678 1.50032 1.45493 1.08020 1.06759 1.74993 1.21801 0.80627 0.99325 0.97625 0.88197 1.23984 1.03178 0.95658 0.97353 1.22527 0.92694 0.86552 0.96391 0.88913 1.45635 1.18603 1.30330 1.39833 1.21079 0.88561 0.82308 0.79624 1.90803 1.27519 1.73869 1.53613 1.22094 0.96288 0.90583 0.91585 1.47640 1.39598 1.14719 1.03765 1.74010 1.22372 1.26213 0.92804 1.25423 1.00746 0.91407 1.03521 1.25424 1.04434 1.03954 0.87186 1.73991 1.12798 0.99157 1.29202 1.23681 1.05593 0.91753 0.95117 0.91342 0.86675 0.87289 0.74907 0.86614 0.93253 0.73399 0.80994 0.81307 0.75602 0.75477 0.88937 0.84572 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 -0.92 -56.33 13.97 21.65 0.30 -56.03 16 2 C 0.04 2.61 5.50 84.86 0.47 3.08 16 3 Si 0.92 45.23 27.74 68.60 1.90 47.14 16 4 H -0.26 -12.45 7.11 99.48 0.71 -11.75 16 5 H -0.26 -12.00 7.11 99.48 0.71 -11.29 16 6 H -0.24 -11.66 6.74 99.48 0.67 -10.99 16 7 C -0.53 -31.28 10.04 67.95 0.68 -30.60 16 8 H 0.06 3.78 8.03 -2.91 -0.02 3.76 16 9 S -0.17 -8.69 18.55 -56.49 -1.05 -9.74 16 10 C -0.11 -4.34 6.16 71.24 0.44 -3.90 16 11 C 0.54 18.17 7.85 87.66 0.69 18.86 16 12 O -0.56 -23.14 15.46 -3.03 -0.05 -23.19 16 13 N -0.70 -15.78 5.26 -440.02 -2.32 -18.09 16 14 C 0.11 1.93 4.32 45.52 0.20 2.13 16 15 H 0.10 2.04 7.47 -2.39 -0.02 2.02 16 16 C -0.16 -2.56 7.68 31.12 0.24 -2.32 16 17 C 0.12 1.54 4.12 45.52 0.19 1.73 16 18 H 0.09 1.69 7.46 -2.39 -0.02 1.67 16 19 N -0.69 -5.36 5.36 -440.04 -2.36 -7.71 16 20 C 0.50 7.47 7.90 87.66 0.69 8.16 16 21 O -0.58 -16.14 16.03 -3.01 -0.05 -16.18 16 22 C 0.12 0.99 7.02 85.63 0.60 1.59 16 23 N -0.16 -2.83 3.44 -190.80 -0.66 -3.48 16 24 N -0.31 -6.26 12.05 -56.86 -0.69 -6.94 16 25 C -0.03 -0.43 12.20 85.11 1.04 0.61 16 26 C -0.03 -0.40 12.20 85.11 1.04 0.64 16 27 N -0.31 -6.03 12.05 -56.87 -0.69 -6.72 16 28 C -0.12 -1.00 7.58 31.12 0.24 -0.77 16 29 H 0.28 15.72 8.31 -92.71 -0.77 14.95 16 30 H 0.12 3.97 8.14 -2.39 -0.02 3.95 16 31 H 0.11 3.90 8.14 -2.40 -0.02 3.88 16 32 H 0.41 7.27 8.70 -92.71 -0.81 6.47 16 33 H 0.12 1.33 8.14 -2.39 -0.02 1.31 16 34 H 0.05 1.10 8.14 -2.39 -0.02 1.08 16 35 H 0.43 -0.60 8.73 -92.71 -0.81 -1.41 16 36 H 0.17 0.15 8.14 -2.39 -0.02 0.13 16 37 H 0.17 0.27 8.14 -2.39 -0.02 0.25 16 38 H 0.23 1.60 8.06 -2.91 -0.02 1.58 16 39 H 0.23 1.48 8.06 -2.91 -0.02 1.46 16 40 H 0.09 0.72 8.14 -2.39 -0.02 0.70 16 41 H 0.14 0.24 8.12 -2.39 -0.02 0.22 16 Total: -1.00 -94.05 373.33 0.30 -93.75 By element: Atomic # 1 Polarization: 8.55 SS G_CDS: -0.56 Total: 7.99 kcal Atomic # 6 Polarization: -7.29 SS G_CDS: 6.50 Total: -0.78 kcal Atomic # 7 Polarization: -92.58 SS G_CDS: -6.40 Total: -98.98 kcal Atomic # 8 Polarization: -39.28 SS G_CDS: -0.10 Total: -39.37 kcal Atomic # 14 Polarization: 45.23 SS G_CDS: 1.90 Total: 47.14 kcal Atomic # 16 Polarization: -8.69 SS G_CDS: -1.05 Total: -9.74 kcal Total: -94.05 0.30 -93.75 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. ZINC001524878260.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 127.853 kcal (2) G-P(sol) polarization free energy of solvation -94.049 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 33.804 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.304 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -93.745 kcal (6) G-S(sol) free energy of system = (1) + (5) 34.108 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.62 seconds