Wall clock time and date at job start Mon Mar 30 2020 01:47:44 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 1.31507 * 1 3 3 Si 1.86804 * 120.00099 * 2 1 4 4 H 1.48494 * 109.47300 * 180.02562 * 3 2 1 5 5 H 1.48505 * 109.46986 * 300.00458 * 3 2 1 6 6 H 1.48503 * 109.47140 * 59.99858 * 3 2 1 7 7 C 1.37875 * 120.00240 * 179.97438 * 2 1 3 8 8 H 1.08004 * 119.99968 * 179.97438 * 7 2 1 9 9 C 1.50701 * 119.99761 * 0.27692 * 7 2 1 10 10 H 1.08997 * 109.50339 * 299.72382 * 9 7 2 11 11 C 1.53116 * 109.50290 * 59.80296 * 9 7 2 12 12 C 1.53123 * 109.15916 * 177.59619 * 11 9 7 13 13 C 1.53042 * 109.27772 * 302.34453 * 12 11 9 14 14 N 1.46843 * 109.52127 * 59.17823 * 13 12 11 15 15 C 1.38334 * 110.99719 * 174.16306 * 14 13 12 16 16 N 1.31575 * 126.07776 * 103.84912 * 15 14 13 17 17 C 1.33365 * 109.69778 * 179.97438 * 16 15 14 18 18 N 1.30588 * 109.11529 * 0.02562 * 17 16 15 19 19 N 1.34987 * 126.06975 * 283.54220 * 15 14 13 20 20 C 1.46504 * 126.83354 * 359.97438 * 19 15 14 21 21 C 1.53000 * 109.46990 * 265.41717 * 20 19 15 22 22 C 1.53000 * 117.49781 * 243.37170 * 21 20 19 23 23 C 1.53002 * 117.49693 * 174.70933 * 21 20 19 24 24 C 1.46845 * 111.23361 * 298.27480 * 14 13 12 25 25 H 0.97006 * 120.00339 * 359.97438 * 1 2 3 26 26 H 1.09003 * 109.52589 * 297.49543 * 11 9 7 27 27 H 1.08997 * 109.52550 * 57.62691 * 11 9 7 28 28 H 1.09001 * 109.50469 * 62.28509 * 12 11 9 29 29 H 1.08998 * 109.50323 * 182.36175 * 12 11 9 30 30 H 1.08998 * 109.46345 * 179.19398 * 13 12 11 31 31 H 1.08997 * 109.45740 * 299.16338 * 13 12 11 32 32 H 1.08000 * 125.44643 * 179.97438 * 17 16 15 33 33 H 1.08999 * 109.46634 * 25.41467 * 20 19 15 34 34 H 1.08990 * 109.47182 * 145.41450 * 20 19 15 35 35 H 1.09004 * 115.55191 * 29.04121 * 21 20 19 36 36 H 1.09003 * 117.49852 * 359.97438 * 22 21 20 37 37 H 1.08993 * 117.49715 * 145.02148 * 22 21 20 38 38 H 1.08999 * 117.49889 * 214.97724 * 23 21 20 39 39 H 1.08997 * 117.49914 * 359.97438 * 23 21 20 40 40 H 1.08999 * 109.43183 * 301.68774 * 24 14 13 41 41 H 1.09002 * 109.49850 * 181.71724 * 24 14 13 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 1.3151 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 3.7091 1.3464 -0.0006 5 1 1.8903 2.3965 -1.2125 6 1 1.8904 2.3965 1.2125 7 6 2.0045 -1.1940 0.0005 8 1 3.0845 -1.1940 0.0001 9 6 1.2510 -2.4991 -0.0052 10 1 0.6242 -2.5613 0.8843 11 6 0.3720 -2.5764 -1.2565 12 6 -0.3437 -3.9298 -1.2851 13 6 0.6964 -5.0520 -1.2560 14 7 1.5112 -4.9346 -0.0401 15 6 2.3751 -6.0079 0.0834 16 7 3.6677 -5.9943 -0.1619 17 6 4.1808 -7.2044 0.0640 18 7 3.2277 -8.0069 0.4550 19 7 2.0427 -7.2539 0.4823 20 6 0.7102 -7.7272 0.8655 21 6 0.5515 -7.6297 2.3841 22 6 0.3478 -8.9336 3.1582 23 6 -0.8207 -7.9620 2.9737 24 6 2.2449 -3.6628 -0.0123 25 1 -0.4851 0.8401 0.0004 26 1 -0.3661 -1.7746 -1.2333 27 1 0.9940 -2.4733 -2.1456 28 1 -0.9956 -4.0152 -0.4157 29 1 -0.9387 -4.0076 -2.1950 30 1 0.1897 -6.0171 -1.2619 31 1 1.3391 -4.9742 -2.1329 32 1 5.2187 -7.4774 -0.0578 33 1 -0.0473 -7.1114 0.3807 34 1 0.5894 -8.7645 0.5534 35 1 1.1298 -6.8424 2.8677 36 1 0.3264 -9.8608 2.5855 37 1 0.7918 -9.0039 4.1511 38 1 -1.1449 -7.3936 3.8455 39 1 -1.6104 -8.2496 2.2798 40 1 2.8810 -3.5919 -0.8946 41 1 2.8623 -3.6185 0.8849 RHF calculation, no. of doubly occupied orbitals= 52 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) Si: (AM1): M.J.S.DEWAR, C. JIE, ORGANOMETALLICS, 6, 1486-1490 (1987). 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 ZINC001120945127.mol2 41 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 01:47:44 Heat of formation + Delta-G solvation = 105.447124 kcal Electronic energy + Delta-G solvation = -21900.577302 eV Core-core repulsion = 18817.542904 eV Total energy + Delta-G solvation = -3083.034398 eV No. of doubly occupied orbitals = 52 Molecular weight (most abundant/longest-lived isotopes) = 276.165 amu Computer time = 5.66 seconds Orbital eigenvalues (eV) -43.14713 -39.85369 -38.55552 -35.77210 -34.45424 -33.72307 -31.80074 -30.90009 -28.35543 -27.02574 -25.34369 -23.67484 -23.28330 -22.74711 -22.20219 -21.38498 -20.35756 -18.85707 -18.06048 -17.14684 -16.89784 -16.49513 -16.43132 -15.68650 -15.28599 -15.11384 -15.03434 -14.62250 -14.45161 -14.27449 -14.10659 -13.54018 -12.94612 -12.87609 -12.86269 -12.68249 -12.54596 -12.37860 -11.92471 -11.82367 -11.54694 -11.47708 -11.13116 -11.09283 -10.97594 -10.92585 -10.71871 -10.59931 -10.38701 -9.56416 -8.08710 -6.21398 0.54492 1.13990 1.41562 1.44372 1.55391 1.90570 2.42801 2.66098 2.81606 3.19360 3.56227 3.61938 3.64047 3.89599 4.00602 4.05832 4.07501 4.14896 4.29279 4.42540 4.54798 4.56983 4.57772 4.77183 4.79725 4.85749 4.97574 4.99337 5.03276 5.11797 5.22089 5.23608 5.28131 5.34418 5.50149 5.57777 5.64978 5.69300 6.00765 6.13635 6.28034 6.39258 6.87617 7.13753 7.46210 8.96375 Molecular weight = 276.16amu Principal moments of inertia in cm(-1) A = 0.021094 B = 0.004779 C = 0.004428 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1327.096248 B = 5857.602589 C = 6321.627702 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.911 5.911 2 C 0.021 3.979 3 Si 0.951 3.049 4 H -0.272 1.272 5 H -0.278 1.278 6 H -0.280 1.280 7 C -0.536 4.536 8 H 0.047 0.953 9 C 0.055 3.945 10 H 0.005 0.995 11 C -0.107 4.107 12 C -0.105 4.105 13 C 0.071 3.929 14 N -0.463 5.463 15 C 0.447 3.553 16 N -0.600 5.600 17 C 0.203 3.797 18 N -0.333 5.333 19 N -0.370 5.370 20 C 0.163 3.837 21 C -0.188 4.188 22 C -0.165 4.165 23 C -0.153 4.153 24 C 0.108 3.892 25 H 0.262 0.738 26 H 0.068 0.932 27 H 0.026 0.974 28 H 0.065 0.935 29 H 0.087 0.913 30 H 0.095 0.905 31 H 0.038 0.962 32 H 0.248 0.752 33 H 0.110 0.890 34 H 0.113 0.887 35 H 0.077 0.923 36 H 0.110 0.890 37 H 0.093 0.907 38 H 0.099 0.901 39 H 0.118 0.882 40 H 0.032 0.968 41 H 0.048 0.952 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -2.141 -17.048 0.643 17.194 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 -0.550 5.550 2 C -0.178 4.178 3 Si 0.777 3.223 4 H -0.196 1.196 5 H -0.204 1.204 6 H -0.206 1.206 7 C -0.575 4.575 8 H 0.065 0.935 9 C 0.036 3.964 10 H 0.023 0.977 11 C -0.146 4.146 12 C -0.143 4.143 13 C -0.055 4.055 14 N -0.187 5.187 15 C 0.082 3.918 16 N -0.334 5.334 17 C -0.101 4.101 18 N -0.161 5.161 19 N -0.162 5.162 20 C 0.042 3.958 21 C -0.208 4.208 22 C -0.202 4.202 23 C -0.190 4.190 24 C -0.019 4.019 25 H 0.071 0.929 26 H 0.086 0.914 27 H 0.045 0.955 28 H 0.084 0.916 29 H 0.106 0.894 30 H 0.114 0.886 31 H 0.056 0.944 32 H 0.264 0.736 33 H 0.128 0.872 34 H 0.131 0.869 35 H 0.095 0.905 36 H 0.129 0.871 37 H 0.112 0.888 38 H 0.117 0.883 39 H 0.136 0.864 40 H 0.051 0.949 41 H 0.066 0.934 Dipole moment (debyes) X Y Z Total from point charges -2.421 -17.440 1.121 17.643 hybrid contribution 1.018 1.466 -0.282 1.807 sum -1.403 -15.974 0.839 16.057 Atomic orbital electron populations 1.69995 1.06885 1.27121 1.50990 1.25594 0.95657 1.01927 0.94623 0.85615 0.79007 0.79986 0.77707 1.19627 1.20355 1.20593 1.21432 0.92897 0.91976 1.51147 0.93450 1.18637 0.92700 0.90461 0.94587 0.97674 1.21512 0.99287 0.96629 0.97126 1.21608 0.96734 0.93412 1.02557 1.22255 0.94845 1.00895 0.87497 1.58903 1.21072 0.99776 1.38978 1.22188 0.89416 0.86120 0.94102 1.71015 1.07304 1.25533 1.29525 1.26440 1.01499 0.86029 0.96098 1.77907 0.91169 1.19466 1.27597 1.50316 1.09194 1.06661 1.50076 1.21567 0.77740 1.02433 0.94074 1.22402 1.03365 1.01191 0.93793 1.23145 1.02110 0.93376 1.01565 1.23083 0.90679 1.02128 1.03153 1.21881 0.95065 0.85412 0.99537 0.92891 0.91370 0.95483 0.91604 0.89429 0.88647 0.94368 0.73633 0.87197 0.86912 0.90474 0.87148 0.88804 0.88252 0.86417 0.94928 0.93360 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 -51.28 11.35 21.45 0.24 -51.03 16 2 C 0.02 1.17 5.30 84.66 0.45 1.62 16 3 Si 0.95 43.53 29.54 68.60 2.03 45.56 16 4 H -0.27 -12.30 7.11 99.48 0.71 -11.59 16 5 H -0.28 -12.37 7.11 99.48 0.71 -11.66 16 6 H -0.28 -12.57 7.11 99.48 0.71 -11.87 16 7 C -0.54 -29.70 8.57 25.60 0.22 -29.48 16 8 H 0.05 2.65 7.74 -2.91 -0.02 2.62 16 9 C 0.06 2.76 2.26 -11.49 -0.03 2.73 16 10 H 0.01 0.28 8.14 -2.39 -0.02 0.26 16 11 C -0.11 -4.85 5.02 30.67 0.15 -4.70 16 12 C -0.11 -3.58 6.09 30.65 0.19 -3.40 16 13 C 0.07 2.26 5.20 86.33 0.45 2.71 16 14 N -0.46 -17.13 4.54 -707.52 -3.22 -20.34 16 15 C 0.45 15.85 6.79 260.78 1.77 17.62 16 16 N -0.60 -22.03 10.43 -202.02 -2.11 -24.14 16 17 C 0.20 6.02 13.02 180.76 2.35 8.38 16 18 N -0.33 -10.07 12.68 -61.24 -0.78 -10.85 16 19 N -0.37 -11.13 3.65 -349.86 -1.28 -12.40 16 20 C 0.16 3.65 6.68 86.38 0.58 4.22 16 21 C -0.19 -4.21 6.01 -10.79 -0.06 -4.28 16 22 C -0.17 -2.82 10.18 30.62 0.31 -2.51 16 23 C -0.15 -2.52 10.26 30.62 0.31 -2.21 16 24 C 0.11 4.80 4.11 86.33 0.35 5.16 16 25 H 0.26 13.98 8.31 -92.70 -0.77 13.21 16 26 H 0.07 3.48 6.15 -2.39 -0.01 3.46 16 27 H 0.03 1.23 8.14 -2.39 -0.02 1.21 16 28 H 0.07 2.25 8.14 -2.39 -0.02 2.23 16 29 H 0.09 2.47 8.14 -2.39 -0.02 2.45 16 30 H 0.10 2.39 6.60 -2.39 -0.02 2.37 16 31 H 0.04 1.27 8.14 -2.39 -0.02 1.25 16 32 H 0.25 5.00 8.06 -2.91 -0.02 4.97 16 33 H 0.11 2.28 6.40 -2.39 -0.02 2.26 16 34 H 0.11 2.01 7.87 -2.39 -0.02 1.99 16 35 H 0.08 2.25 8.14 -2.39 -0.02 2.23 16 36 H 0.11 1.57 8.03 -2.39 -0.02 1.55 16 37 H 0.09 1.60 8.14 -2.39 -0.02 1.58 16 38 H 0.10 1.64 8.14 -2.39 -0.02 1.62 16 39 H 0.12 1.48 8.14 -2.39 -0.02 1.46 16 40 H 0.03 1.51 8.08 -2.39 -0.02 1.49 16 41 H 0.05 2.29 8.10 -2.39 -0.02 2.27 16 Total: -1.00 -64.92 331.62 2.95 -61.97 By element: Atomic # 1 Polarization: 14.36 SS G_CDS: 1.01 Total: 15.37 kcal Atomic # 6 Polarization: -11.18 SS G_CDS: 7.05 Total: -4.13 kcal Atomic # 7 Polarization: -111.63 SS G_CDS: -7.13 Total: -118.77 kcal Atomic # 14 Polarization: 43.53 SS G_CDS: 2.03 Total: 45.56 kcal Total: -64.92 2.95 -61.97 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. ZINC001120945127.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 167.417 kcal (2) G-P(sol) polarization free energy of solvation -64.920 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 102.497 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.950 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.970 kcal (6) G-S(sol) free energy of system = (1) + (5) 105.447 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 5.66 seconds