Wall clock time and date at job start Wed Apr 1 2020 04:04:01 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 1.31552 * 1 3 3 Si 1.86802 * 119.99842 * 2 1 4 4 H 1.48501 * 109.46751 * 239.99860 * 3 2 1 5 5 H 1.48499 * 109.47108 * 359.97438 * 3 2 1 6 6 H 1.48494 * 109.47116 * 119.99838 * 3 2 1 7 7 C 1.38803 * 120.00010 * 179.97438 * 2 1 3 8 8 H 1.08002 * 119.99895 * 180.02562 * 7 2 1 9 9 S 1.76197 * 120.00081 * 0.02562 * 7 2 1 10 10 C 1.76204 * 100.00120 * 185.65894 * 9 7 2 11 11 C 1.39117 * 120.18663 * 6.86699 * 10 9 7 12 12 C 1.37914 * 120.04584 * 180.25664 * 11 10 9 13 13 C 1.38656 * 120.44158 * 359.74297 * 12 11 10 14 14 C 1.37806 * 120.38044 * 359.97438 * 13 12 11 15 15 C 1.39677 * 119.93658 * 0.02664 * 14 13 12 16 16 C 1.47430 * 120.21373 * 179.97438 * 15 14 13 17 17 O 1.21607 * 120.00215 * 179.97438 * 16 15 14 18 18 N 1.34775 * 119.99946 * 0.02562 * 16 15 14 19 19 C 1.46502 * 120.00134 * 179.97438 * 18 16 15 20 20 C 1.52998 * 109.47095 * 179.97438 * 19 18 16 21 21 C 1.53001 * 109.46995 * 180.02562 * 20 19 18 22 22 C 1.50702 * 109.47155 * 180.02562 * 21 20 19 23 23 N 1.27566 * 126.41606 * 0.02562 * 22 21 20 24 24 N 1.39149 * 113.16518 * 179.97438 * 23 22 21 25 25 C 1.34957 * 111.12226 * 359.97438 * 24 23 22 26 26 O 1.21301 * 127.50164 * 179.97438 * 25 24 23 27 27 C 1.51441 * 126.41491 * 179.71083 * 22 21 20 28 28 H 0.97000 * 120.00207 * 0.02562 * 1 2 3 29 29 H 1.07993 * 119.97764 * 359.97438 * 11 10 9 30 30 H 1.08009 * 119.77914 * 179.76543 * 12 11 10 31 31 H 1.08000 * 119.80771 * 179.97438 * 13 12 11 32 32 H 1.07996 * 120.02948 * 180.02562 * 14 13 12 33 33 H 0.97000 * 120.00031 * 359.97438 * 18 16 15 34 34 H 1.08996 * 109.47323 * 59.99681 * 19 18 16 35 35 H 1.09003 * 109.47374 * 299.99833 * 19 18 16 36 36 H 1.08998 * 109.47551 * 60.00089 * 20 19 18 37 37 H 1.09001 * 109.47310 * 299.99516 * 20 19 18 38 38 H 1.09003 * 109.47313 * 299.99932 * 21 20 19 39 39 H 1.08996 * 109.47484 * 59.99842 * 21 20 19 40 40 H 0.97005 * 124.43785 * 179.97438 * 24 23 22 41 41 H 1.08996 * 110.61215 * 298.54814 * 27 22 21 42 42 H 1.08994 * 110.60710 * 61.52190 * 27 22 21 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 1.3155 0.0000 0.0000 3 14 2.2495 1.6178 0.0000 4 1 3.1032 1.6964 -1.2125 5 1 1.2845 2.7465 -0.0006 6 1 3.1032 1.6965 1.2125 7 6 2.0095 -1.2021 0.0005 8 1 3.0896 -1.2020 0.0010 9 16 1.1286 -2.7280 0.0005 10 6 2.4710 -3.8564 0.1724 11 6 3.7581 -3.3821 0.4043 12 6 4.8075 -4.2676 0.5331 13 6 4.5897 -5.6337 0.4384 14 6 3.3211 -6.1233 0.2148 15 6 2.2467 -5.2407 0.0819 16 6 0.8870 -5.7578 -0.1579 17 8 -0.0457 -4.9859 -0.2726 18 7 0.6776 -7.0860 -0.2491 19 6 -0.6736 -7.5999 -0.4868 20 6 -0.6346 -9.1282 -0.5477 21 6 -2.0456 -9.6649 -0.7966 22 6 -2.0073 -11.1702 -0.8560 23 7 -0.9747 -11.9073 -0.7224 24 7 -1.2552 -13.2663 -0.8260 25 6 -2.5703 -13.4762 -1.0450 26 8 -3.1355 -14.5407 -1.1816 27 6 -3.1884 -12.0915 -1.0786 28 1 -0.4850 0.8400 -0.0004 29 1 3.9364 -2.3196 0.4789 30 1 5.8057 -3.8945 0.7092 31 1 5.4190 -6.3179 0.5404 32 1 3.1578 -7.1884 0.1425 33 1 1.4215 -7.7018 -0.1572 34 1 -1.0501 -7.2085 -1.4318 35 1 -1.3301 -7.2849 0.3243 36 1 -0.2579 -9.5200 0.3971 37 1 0.0218 -9.4429 -1.3590 38 1 -2.7024 -9.3502 0.0144 39 1 -2.4219 -9.2731 -1.7416 40 1 -0.5924 -13.9706 -0.7506 41 1 -3.9205 -11.9769 -0.2793 42 1 -3.6459 -11.9009 -2.0494 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 ZINC000854487627.mol2 42 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 04:04:01 Heat of formation + Delta-G solvation = -24.110226 kcal Electronic energy + Delta-G solvation = -25774.124784 eV Core-core repulsion = 21845.319188 eV Total energy + Delta-G solvation = -3928.805596 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 347.109 amu Computer time = 0.69 seconds Orbital eigenvalues (eV) -42.13881 -40.90481 -38.98530 -38.72093 -36.76019 -34.73797 -34.56172 -32.49271 -31.74485 -31.34107 -30.18567 -27.81173 -27.53310 -24.58844 -23.45448 -22.85931 -22.37525 -21.61054 -20.51593 -19.84093 -18.86645 -18.62303 -17.36009 -17.35289 -17.01679 -16.93330 -16.57902 -16.00432 -15.89794 -15.69396 -15.49451 -15.42562 -15.25307 -14.69412 -14.57400 -14.30410 -14.06488 -13.59463 -13.28513 -13.26613 -13.06881 -12.97679 -12.93575 -12.86747 -12.53581 -12.32248 -12.03905 -12.01617 -11.73710 -11.46400 -11.36898 -11.23318 -10.87437 -10.37907 -10.03894 -9.96553 -9.87072 -9.69632 -8.42969 -8.41919 -6.20734 0.08554 0.57449 0.60057 1.28650 1.39311 1.45299 1.54139 1.67971 1.73540 2.09172 2.20792 2.34114 2.84873 2.90507 3.08746 3.12650 3.28161 3.81490 4.00493 4.04249 4.18250 4.20205 4.29782 4.35396 4.37548 4.65634 4.66244 4.72363 4.77264 4.86096 4.86189 4.91035 5.11983 5.16188 5.31514 5.38762 5.41355 5.49067 5.60255 5.62897 5.68026 5.71071 6.12941 6.19580 6.55706 6.72819 6.89450 6.98766 7.45607 8.62680 Molecular weight = 347.11amu Principal moments of inertia in cm(-1) A = 0.020145 B = 0.001863 C = 0.001709 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1389.608002 B =15028.738540 C =16377.288940 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.903 5.903 2 C 0.025 3.975 3 Si 0.991 3.009 4 H -0.263 1.263 5 H -0.274 1.274 6 H -0.261 1.261 7 C -0.604 4.604 8 H 0.093 0.907 9 S 0.069 5.931 10 C -0.075 4.075 11 C -0.177 4.177 12 C -0.072 4.072 13 C -0.159 4.159 14 C -0.054 4.054 15 C -0.182 4.182 16 C 0.545 3.455 17 O -0.556 6.556 18 N -0.715 5.715 19 C 0.118 3.882 20 C -0.114 4.114 21 C -0.042 4.042 22 C 0.120 3.880 23 N -0.260 5.260 24 N -0.573 5.573 25 C 0.487 3.513 26 O -0.553 6.553 27 C -0.170 4.170 28 H 0.276 0.724 29 H 0.118 0.882 30 H 0.147 0.853 31 H 0.164 0.836 32 H 0.162 0.838 33 H 0.412 0.588 34 H 0.061 0.939 35 H 0.061 0.939 36 H 0.079 0.921 37 H 0.079 0.921 38 H 0.122 0.878 39 H 0.122 0.878 40 H 0.437 0.563 41 H 0.161 0.839 42 H 0.160 0.840 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 1.470 -22.685 -0.754 22.745 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 -0.538 5.538 2 C -0.181 4.181 3 Si 0.812 3.188 4 H -0.187 1.187 5 H -0.199 1.199 6 H -0.186 1.186 7 C -0.750 4.750 8 H 0.110 0.890 9 S 0.327 5.673 10 C -0.193 4.193 11 C -0.202 4.202 12 C -0.093 4.093 13 C -0.182 4.182 14 C -0.073 4.073 15 C -0.196 4.196 16 C 0.333 3.667 17 O -0.437 6.437 18 N -0.370 5.370 19 C -0.005 4.005 20 C -0.152 4.152 21 C -0.081 4.081 22 C -0.072 4.072 23 N -0.069 5.069 24 N -0.319 5.319 25 C 0.275 3.725 26 O -0.430 6.430 27 C -0.211 4.211 28 H 0.085 0.915 29 H 0.135 0.865 30 H 0.165 0.835 31 H 0.182 0.818 32 H 0.180 0.820 33 H 0.250 0.750 34 H 0.079 0.921 35 H 0.079 0.921 36 H 0.098 0.902 37 H 0.098 0.902 38 H 0.140 0.860 39 H 0.140 0.860 40 H 0.283 0.717 41 H 0.178 0.822 42 H 0.177 0.823 Dipole moment (debyes) X Y Z Total from point charges -0.162 -22.651 -0.889 22.669 hybrid contribution 1.402 0.687 0.073 1.563 sum 1.239 -21.963 -0.816 22.013 Atomic orbital electron populations 1.70114 1.07919 1.29187 1.46613 1.26114 0.95865 1.03316 0.92794 0.85115 0.78136 0.75931 0.79597 1.18740 1.19870 1.18558 1.24220 0.97036 0.94582 1.59186 0.88950 1.84860 1.06310 0.95162 1.80933 1.23025 0.99704 0.97531 0.99043 1.21447 0.92368 1.00871 1.05488 1.21529 0.98446 0.93935 0.95359 1.21323 0.97618 0.95079 1.04202 1.21459 0.91417 0.99422 0.95051 1.19555 0.94540 0.91936 1.13525 1.18441 0.88317 0.83127 0.76787 1.90783 1.44806 1.57058 1.51025 1.45650 1.11757 1.05420 1.74135 1.21418 0.83066 0.94581 1.01463 1.21569 0.97964 0.91495 1.04177 1.20303 0.98142 0.82916 1.06762 1.25630 0.90337 0.97664 0.93566 1.74788 1.26744 0.88477 1.16917 1.47754 1.09509 1.05336 1.69312 1.21964 0.83779 0.91981 0.74792 1.90806 1.68504 1.31898 1.51759 1.22241 0.99630 0.89544 1.09701 0.91528 0.86474 0.83502 0.81826 0.82016 0.75025 0.92104 0.92081 0.90191 0.90209 0.86030 0.86035 0.71719 0.82210 0.82277 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 -0.90 -54.76 13.22 21.64 0.29 -54.48 16 2 C 0.02 1.42 5.49 84.87 0.47 1.88 16 3 Si 0.99 43.59 29.55 68.60 2.03 45.61 16 4 H -0.26 -11.09 7.11 99.48 0.71 -10.38 16 5 H -0.27 -11.58 7.11 99.48 0.71 -10.88 16 6 H -0.26 -10.94 7.11 99.48 0.71 -10.23 16 7 C -0.60 -35.00 9.00 67.96 0.61 -34.39 16 8 H 0.09 5.06 4.98 -2.91 -0.01 5.04 16 9 S 0.07 3.91 18.56 -56.49 -1.05 2.86 16 10 C -0.07 -3.45 6.15 23.04 0.14 -3.31 16 11 C -0.18 -7.25 9.22 22.40 0.21 -7.05 16 12 C -0.07 -2.13 10.02 22.29 0.22 -1.90 16 13 C -0.16 -3.79 10.02 22.27 0.22 -3.56 16 14 C -0.05 -1.37 9.53 22.52 0.21 -1.16 16 15 C -0.18 -6.76 5.89 -19.95 -0.12 -6.88 16 16 C 0.54 19.91 7.75 86.66 0.67 20.58 16 17 O -0.56 -26.16 13.77 -4.05 -0.06 -26.22 16 18 N -0.72 -16.60 5.51 -466.37 -2.57 -19.17 16 19 C 0.12 2.12 5.67 86.38 0.49 2.61 16 20 C -0.11 -1.06 4.83 30.59 0.15 -0.91 16 21 C -0.04 -0.19 5.83 29.85 0.17 -0.02 16 22 C 0.12 0.91 7.28 46.83 0.34 1.25 16 23 N -0.26 -3.16 11.52 -40.85 -0.47 -3.63 16 24 N -0.57 -7.66 7.13 -172.49 -1.23 -8.89 16 25 C 0.49 7.64 8.93 87.94 0.78 8.43 16 26 O -0.55 -13.40 18.03 -3.09 -0.06 -13.46 16 27 C -0.17 -1.13 6.93 29.65 0.21 -0.93 16 28 H 0.28 15.44 8.31 -92.71 -0.77 14.67 16 29 H 0.12 5.23 5.03 -2.91 -0.01 5.22 16 30 H 0.15 3.33 8.06 -2.91 -0.02 3.31 16 31 H 0.16 2.40 8.06 -2.91 -0.02 2.37 16 32 H 0.16 2.49 6.40 -2.91 -0.02 2.47 16 33 H 0.41 6.54 6.50 -92.71 -0.60 5.94 16 34 H 0.06 1.22 8.14 -2.39 -0.02 1.20 16 35 H 0.06 1.22 8.14 -2.39 -0.02 1.20 16 36 H 0.08 0.75 8.14 -2.39 -0.02 0.73 16 37 H 0.08 0.75 8.14 -2.39 -0.02 0.73 16 38 H 0.12 0.21 8.14 -2.39 -0.02 0.19 16 39 H 0.12 0.21 8.14 -2.39 -0.02 0.19 16 40 H 0.44 4.72 8.96 -213.92 -1.92 2.81 16 41 H 0.16 0.43 8.14 -2.39 -0.02 0.41 16 42 H 0.16 0.43 8.14 -2.39 -0.02 0.42 16 Total: -1.00 -87.56 372.60 0.25 -87.31 By element: Atomic # 1 Polarization: 16.84 SS G_CDS: -1.42 Total: 15.42 kcal Atomic # 6 Polarization: -30.15 SS G_CDS: 4.78 Total: -25.37 kcal Atomic # 7 Polarization: -82.18 SS G_CDS: -3.98 Total: -86.16 kcal Atomic # 8 Polarization: -39.56 SS G_CDS: -0.11 Total: -39.68 kcal Atomic # 14 Polarization: 43.59 SS G_CDS: 2.03 Total: 45.61 kcal Atomic # 16 Polarization: 3.91 SS G_CDS: -1.05 Total: 2.86 kcal Total: -87.56 0.25 -87.31 kcal The number of atoms in the molecule is 42 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. ZINC000854487627.mol2 42 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 63.200 kcal (2) G-P(sol) polarization free energy of solvation -87.560 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -24.360 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.250 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -87.310 kcal (6) G-S(sol) free energy of system = (1) + (5) -24.110 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.69 seconds