Wall clock time and date at job start Sat Apr 11 2020 05:53:17 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 1.31625 * 1 3 3 Si 1.86804 * 119.99868 * 2 1 4 4 H 1.48501 * 109.46911 * 179.97438 * 3 2 1 5 5 H 1.48493 * 109.47141 * 299.99570 * 3 2 1 6 6 H 1.48501 * 109.47325 * 59.99764 * 3 2 1 7 7 C 1.38801 * 120.00251 * 179.97438 * 2 1 3 8 8 H 1.08001 * 120.00115 * 180.02562 * 7 2 1 9 9 S 1.76198 * 119.99831 * 0.02562 * 7 2 1 10 10 C 1.81001 * 100.00201 * 180.02562 * 9 7 2 11 11 C 1.50695 * 109.46984 * 180.02562 * 10 9 7 12 12 O 1.21282 * 120.00558 * 359.97438 * 11 10 9 13 13 N 1.34779 * 119.99549 * 180.02562 * 11 10 9 14 14 C 1.46500 * 119.99793 * 179.97438 * 13 11 10 15 15 H 1.08996 * 110.88893 * 325.69566 * 14 13 11 16 16 C 1.55155 * 111.00424 * 201.81669 * 14 13 11 17 17 C 1.54372 * 102.92388 * 206.45662 * 16 14 13 18 18 N 1.47022 * 107.28591 * 22.13581 * 17 16 14 19 19 C 1.34772 * 125.64629 * 181.13075 * 18 17 16 20 20 O 1.21645 * 120.00048 * 174.99977 * 19 18 17 21 21 C 1.47191 * 120.00404 * 354.99875 * 19 18 17 22 22 C 1.44421 * 123.45853 * 5.75696 * 21 19 18 23 23 C 1.32769 * 113.08803 * 179.80910 * 22 21 19 24 24 S 1.75508 * 110.56987 * 0.44090 * 23 22 21 25 25 C 1.36013 * 123.46487 * 186.05419 * 21 19 18 26 26 C 1.47427 * 108.70573 * 1.09613 * 18 17 16 27 27 H 0.97005 * 120.00400 * 0.02562 * 1 2 3 28 28 H 1.09007 * 109.46514 * 300.00350 * 10 9 7 29 29 H 1.08993 * 109.46952 * 59.99921 * 10 9 7 30 30 H 0.96996 * 120.00076 * 359.97438 * 13 11 10 31 31 H 1.08997 * 110.72259 * 324.78751 * 16 14 13 32 32 H 1.09000 * 110.72079 * 88.06398 * 16 14 13 33 33 H 1.09005 * 109.84604 * 262.73524 * 17 16 14 34 34 H 1.08997 * 110.03591 * 141.65002 * 17 16 14 35 35 H 1.08003 * 123.46035 * 0.02562 * 22 21 19 36 36 H 1.07994 * 124.71826 * 180.14493 * 23 22 21 37 37 H 1.07996 * 124.58850 * 359.96925 * 25 21 19 38 38 H 1.08997 * 110.36517 * 217.03054 * 26 18 17 39 39 H 1.08995 * 110.45559 * 94.75015 * 26 18 17 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 1.3162 0.0000 0.0000 3 14 2.2502 1.6178 0.0000 4 1 3.7102 1.3464 0.0006 5 1 1.8916 2.3964 -1.2125 6 1 1.8915 2.3966 1.2125 7 6 2.0103 -1.2020 0.0005 8 1 3.0903 -1.2020 0.0010 9 16 1.1293 -2.7280 0.0005 10 6 2.5159 -3.8914 0.0021 11 6 1.9873 -5.3027 0.0017 12 8 0.7911 -5.5023 0.0009 13 7 2.8442 -6.3431 0.0033 14 6 2.3304 -7.7150 0.0034 15 1 1.4057 -7.7837 0.5763 16 6 3.3941 -8.7071 0.5435 17 6 3.0042 -10.0362 -0.1382 18 7 2.2198 -9.6995 -1.3352 19 6 1.6748 -10.5857 -2.1920 20 8 0.9671 -10.1961 -3.1015 21 6 1.9357 -12.0249 -2.0272 22 6 2.6623 -12.5794 -0.9091 23 6 2.7742 -13.9012 -0.9649 24 16 1.9973 -14.5254 -2.4096 25 6 1.5223 -12.9685 -2.9152 26 6 2.1274 -8.2321 -1.4427 27 1 -0.4851 0.8401 -0.0004 28 1 3.1252 -3.7316 -0.8875 29 1 3.1237 -3.7309 0.8925 30 1 3.8009 -6.1834 0.0043 31 1 4.3958 -8.3996 0.2435 32 1 3.3248 -8.7943 1.6278 33 1 2.4021 -10.6384 0.5422 34 1 3.9007 -10.5858 -0.4250 35 1 3.0697 -11.9808 -0.1078 36 1 3.2777 -14.5076 -0.2266 37 1 0.9680 -12.7596 -3.8182 38 1 1.1457 -7.9401 -1.8157 39 1 2.9105 -7.8479 -2.0963 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC001687135308.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sat Apr 11 2020 05:53:17 Heat of formation + Delta-G solvation = -47.623834 kcal Electronic energy + Delta-G solvation = -23487.804894 eV Core-core repulsion = 19840.783969 eV Total energy + Delta-G solvation = -3647.020925 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 340.070 amu Computer time = 0.52 seconds Orbital eigenvalues (eV) -41.60827 -40.57926 -38.63804 -37.81891 -35.39148 -34.58473 -32.29900 -30.93312 -30.60335 -29.57541 -27.67310 -26.07371 -24.58008 -22.49752 -21.84567 -21.40058 -20.41637 -19.84795 -18.91834 -18.12540 -17.63658 -17.10113 -17.06205 -16.88232 -16.49530 -16.39052 -15.81213 -15.49898 -14.95390 -14.77356 -14.54161 -14.43455 -14.11251 -14.09885 -13.76489 -13.69498 -13.56179 -13.44162 -13.16071 -12.91929 -12.65731 -12.63152 -12.49711 -11.91138 -11.73674 -11.65151 -11.22552 -11.16111 -10.99579 -10.29451 -10.26246 -10.08084 -9.75685 -9.39625 -8.67038 -8.34847 -6.12964 -0.23823 0.58248 0.94854 0.98789 1.25549 1.41576 1.45505 1.54761 1.57568 1.82273 2.20574 2.26854 2.35529 2.99580 3.28826 3.33971 3.48553 3.72400 3.89652 3.95618 3.97246 4.13841 4.21002 4.32374 4.38802 4.49390 4.51904 4.52935 4.66417 4.74661 4.83391 4.98188 5.05092 5.08349 5.17885 5.28182 5.42280 5.44702 6.20053 6.33501 6.47861 6.96535 7.06645 7.22144 8.74604 Molecular weight = 340.07amu Principal moments of inertia in cm(-1) A = 0.039301 B = 0.001782 C = 0.001740 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 712.274781 B =15704.834207 C =16087.477078 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.913 5.913 2 C 0.011 3.989 3 Si 1.000 3.000 4 H -0.255 1.255 5 H -0.276 1.276 6 H -0.274 1.274 7 C -0.544 4.544 8 H 0.085 0.915 9 S -0.158 6.158 10 C -0.128 4.128 11 C 0.535 3.465 12 O -0.564 6.564 13 N -0.699 5.699 14 C 0.136 3.864 15 H 0.083 0.917 16 C -0.122 4.122 17 C 0.088 3.912 18 N -0.609 5.609 19 C 0.582 3.418 20 O -0.595 6.595 21 C -0.181 4.181 22 C -0.138 4.138 23 C -0.224 4.224 24 S 0.230 5.770 25 C -0.205 4.205 26 C 0.094 3.906 27 H 0.271 0.729 28 H 0.111 0.889 29 H 0.116 0.884 30 H 0.423 0.577 31 H 0.113 0.887 32 H 0.119 0.881 33 H 0.098 0.902 34 H 0.112 0.888 35 H 0.193 0.807 36 H 0.205 0.795 37 H 0.161 0.839 38 H 0.040 0.960 39 H 0.079 0.921 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 15.862 -32.234 2.320 36.000 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 -0.549 5.549 2 C -0.194 4.194 3 Si 0.822 3.178 4 H -0.178 1.178 5 H -0.202 1.202 6 H -0.199 1.199 7 C -0.691 4.691 8 H 0.103 0.897 9 S 0.069 5.931 10 C -0.279 4.279 11 C 0.321 3.679 12 O -0.442 6.442 13 N -0.353 5.353 14 C 0.029 3.971 15 H 0.101 0.899 16 C -0.160 4.160 17 C -0.034 4.034 18 N -0.341 5.341 19 C 0.372 3.628 20 O -0.478 6.478 21 C -0.199 4.199 22 C -0.166 4.166 23 C -0.359 4.359 24 S 0.496 5.504 25 C -0.344 4.344 26 C -0.031 4.031 27 H 0.079 0.921 28 H 0.129 0.871 29 H 0.135 0.865 30 H 0.262 0.738 31 H 0.131 0.869 32 H 0.138 0.862 33 H 0.116 0.884 34 H 0.129 0.871 35 H 0.209 0.791 36 H 0.222 0.778 37 H 0.179 0.821 38 H 0.059 0.941 39 H 0.097 0.903 Dipole moment (debyes) X Y Z Total from point charges 13.182 -33.795 1.232 36.296 hybrid contribution 1.355 3.203 -0.051 3.478 sum 14.538 -30.592 1.181 33.891 Atomic orbital electron populations 1.70197 1.08047 1.28522 1.48152 1.26157 0.95963 1.03433 0.93800 0.84888 0.78692 0.76263 0.77988 1.17802 1.20161 1.19925 1.23244 0.95404 0.91863 1.58632 0.89664 1.85670 1.10825 0.99507 1.97064 1.23365 1.03469 0.93954 1.07149 1.20169 0.86239 0.86859 0.74620 1.90723 1.17683 1.86052 1.49732 1.45531 1.10453 1.03821 1.75506 1.21984 0.99682 0.81343 0.94098 0.89915 1.23056 0.98840 0.91184 1.02882 1.22893 0.96687 0.98452 0.85319 1.48182 1.53164 1.05757 1.27009 1.17900 0.78419 0.85955 0.80543 1.90792 1.40398 1.81147 1.35473 1.20210 1.08140 0.91947 0.99615 1.22255 1.00013 0.95525 0.98774 1.26039 1.07830 0.98621 1.03391 1.82993 1.48338 1.03136 1.15900 1.25783 1.04663 0.99620 1.04346 1.22565 1.01463 0.80149 0.98899 0.92051 0.87091 0.86537 0.73843 0.86908 0.86249 0.88433 0.87065 0.79084 0.77837 0.82094 0.94079 0.90254 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 -56.50 13.22 21.65 0.29 -56.21 16 2 C 0.01 0.63 5.49 84.86 0.47 1.09 16 3 Si 1.00 43.60 29.55 68.60 2.03 45.62 16 4 H -0.25 -10.26 7.11 99.48 0.71 -9.56 16 5 H -0.28 -11.77 7.11 99.48 0.71 -11.06 16 6 H -0.27 -11.58 7.11 99.48 0.71 -10.87 16 7 C -0.54 -30.90 9.50 67.95 0.65 -30.25 16 8 H 0.09 4.46 7.80 -2.91 -0.02 4.44 16 9 S -0.16 -8.76 20.57 -56.49 -1.16 -9.92 16 10 C -0.13 -4.88 6.16 71.23 0.44 -4.45 16 11 C 0.54 18.95 7.85 87.66 0.69 19.64 16 12 O -0.56 -26.15 15.55 -3.03 -0.05 -26.20 16 13 N -0.70 -15.45 5.21 -435.96 -2.27 -17.72 16 14 C 0.14 2.74 3.37 46.38 0.16 2.90 16 15 H 0.08 2.14 7.63 -2.39 -0.02 2.13 16 16 C -0.12 -0.96 6.59 31.80 0.21 -0.75 16 17 C 0.09 0.81 4.91 86.75 0.43 1.23 16 18 N -0.61 -12.95 3.33 -815.81 -2.71 -15.66 16 19 C 0.58 15.83 7.82 86.60 0.68 16.51 16 20 O -0.60 -22.42 16.97 -4.17 -0.07 -22.49 16 21 C -0.18 -3.52 5.97 -19.87 -0.12 -3.64 16 22 C -0.14 -1.44 8.86 22.67 0.20 -1.24 16 23 C -0.22 -1.55 11.12 66.64 0.74 -0.81 16 24 S 0.23 2.21 23.02 -56.49 -1.30 0.91 16 25 C -0.21 -3.68 10.53 67.30 0.71 -2.97 16 26 C 0.09 2.37 6.63 86.86 0.58 2.95 16 27 H 0.27 15.52 8.31 -92.70 -0.77 14.75 16 28 H 0.11 3.79 8.14 -2.39 -0.02 3.77 16 29 H 0.12 3.86 8.14 -2.40 -0.02 3.84 16 30 H 0.42 5.77 8.54 -92.71 -0.79 4.98 16 31 H 0.11 0.39 8.00 -2.39 -0.02 0.37 16 32 H 0.12 0.48 8.14 -2.39 -0.02 0.46 16 33 H 0.10 0.61 6.81 -2.38 -0.02 0.59 16 34 H 0.11 0.44 6.75 -2.39 -0.02 0.43 16 35 H 0.19 0.86 3.79 -2.91 -0.01 0.85 16 36 H 0.20 -0.01 8.06 -2.91 -0.02 -0.04 16 37 H 0.16 3.20 8.03 -2.91 -0.02 3.18 16 38 H 0.04 1.43 7.99 -2.39 -0.02 1.41 16 39 H 0.08 1.88 8.14 -2.39 -0.02 1.86 16 Total: -1.00 -90.82 357.81 0.87 -89.95 By element: Atomic # 1 Polarization: 11.20 SS G_CDS: 0.31 Total: 11.51 kcal Atomic # 6 Polarization: -5.60 SS G_CDS: 5.81 Total: 0.21 kcal Atomic # 7 Polarization: -84.90 SS G_CDS: -4.70 Total: -89.60 kcal Atomic # 8 Polarization: -48.57 SS G_CDS: -0.12 Total: -48.69 kcal Atomic # 14 Polarization: 43.60 SS G_CDS: 2.03 Total: 45.62 kcal Atomic # 16 Polarization: -6.55 SS G_CDS: -2.46 Total: -9.01 kcal Total: -90.82 0.87 -89.95 kcal The number of atoms in the molecule is 39 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. ZINC001687135308.mol2 39 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 42.326 kcal (2) G-P(sol) polarization free energy of solvation -90.821 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -48.495 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.871 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -89.950 kcal (6) G-S(sol) free energy of system = (1) + (5) -47.624 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.52 seconds