Wall clock time and date at job start Tue Mar 31 2020 05:36:43 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 1.31506 * 1 3 3 Si 1.86805 * 119.99959 * 2 1 4 4 H 1.48498 * 109.46727 * 269.99625 * 3 2 1 5 5 H 1.48495 * 109.46979 * 29.99954 * 3 2 1 6 6 H 1.48497 * 109.46827 * 149.99818 * 3 2 1 7 7 C 1.37879 * 120.00159 * 179.97438 * 2 1 3 8 8 H 1.08004 * 120.00252 * 180.02562 * 7 2 1 9 9 C 1.50703 * 119.99694 * 359.97438 * 7 2 1 10 10 C 1.52999 * 109.47024 * 179.97438 * 9 7 2 11 11 C 1.52995 * 109.47257 * 180.02562 * 10 9 7 12 12 C 1.52999 * 109.47020 * 180.02562 * 11 10 9 13 13 C 1.50711 * 109.47053 * 180.02562 * 12 11 10 14 14 O 1.21282 * 119.99770 * 0.02562 * 13 12 11 15 15 N 1.34772 * 119.99915 * 179.97438 * 13 12 11 16 16 C 1.47166 * 120.94617 * 6.01578 * 15 13 12 17 17 C 1.53295 * 108.38092 * 230.47412 * 16 15 13 18 18 O 1.42961 * 109.25940 * 307.77609 * 17 16 15 19 19 C 1.42962 * 114.17087 * 62.55477 * 18 17 16 20 20 C 1.47153 * 120.97911 * 186.03603 * 15 13 12 21 21 H 1.09001 * 109.68408 * 249.19999 * 20 15 13 22 22 C 1.50697 * 109.68596 * 9.75853 * 20 15 13 23 23 O 1.20826 * 120.00015 * 57.40529 * 22 20 15 24 24 O 1.34222 * 120.00025 * 237.41680 * 22 20 15 25 25 H 0.97002 * 120.00346 * 0.02562 * 1 2 3 26 26 H 1.09005 * 109.46812 * 60.00843 * 9 7 2 27 27 H 1.08993 * 109.47432 * 300.00624 * 9 7 2 28 28 H 1.09005 * 109.47076 * 60.00135 * 10 9 7 29 29 H 1.09001 * 109.47321 * 300.00779 * 10 9 7 30 30 H 1.09003 * 109.47400 * 60.00419 * 11 10 9 31 31 H 1.09001 * 109.47353 * 300.00467 * 11 10 9 32 32 H 1.08998 * 109.47634 * 60.00399 * 12 11 10 33 33 H 1.08996 * 109.47334 * 299.99542 * 12 11 10 34 34 H 1.08999 * 109.64503 * 110.77271 * 16 15 13 35 35 H 1.09003 * 109.73000 * 350.22035 * 16 15 13 36 36 H 1.08999 * 109.51553 * 187.82368 * 17 16 15 37 37 H 1.08998 * 109.51122 * 67.72200 * 17 16 15 38 38 H 1.08999 * 109.51182 * 57.34184 * 19 18 17 39 39 H 1.09000 * 109.51573 * 177.44012 * 19 18 17 40 40 H 0.96700 * 117.00092 * 179.97438 * 24 22 20 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 2.4966 2.0463 -1.4001 5 1 1.4465 2.6527 0.7000 6 1 3.5466 1.4402 0.7001 7 6 2.0045 -1.1940 0.0005 8 1 3.0845 -1.1941 0.0010 9 6 1.2509 -2.4992 0.0017 10 6 2.2452 -3.6621 0.0015 11 6 1.4802 -4.9871 0.0020 12 6 2.4745 -6.1499 0.0024 13 6 1.7209 -7.4552 0.0023 14 8 0.5081 -7.4551 0.0015 15 7 2.3948 -8.6223 0.0021 16 6 3.8603 -8.6500 0.1342 17 6 4.4304 -9.5246 -0.9883 18 8 3.7673 -10.7911 -0.9823 19 6 2.3632 -10.7180 -1.2411 20 6 1.6871 -9.9056 -0.1307 21 1 1.7410 -10.4536 0.8099 22 6 0.2454 -9.6553 -0.4912 23 8 -0.0282 -9.0262 -1.4858 24 8 -0.7347 -10.1309 0.2929 25 1 -0.4851 0.8400 -0.0004 26 1 0.6240 -2.5575 -0.8881 27 1 0.6246 -2.5563 0.8918 28 1 2.8725 -3.6039 0.8910 29 1 2.8712 -3.6047 -0.8890 30 1 0.8532 -5.0450 -0.8878 31 1 0.8538 -5.0447 0.8922 32 1 3.1012 -6.0920 0.8923 33 1 3.1010 -6.0926 -0.8876 34 1 4.1331 -9.0709 1.1020 35 1 4.2567 -7.6383 0.0485 36 1 5.4985 -9.6720 -0.8283 37 1 4.2704 -9.0344 -1.9486 38 1 2.1949 -10.2318 -2.2020 39 1 1.9443 -11.7240 -1.2638 40 1 -1.6438 -9.9446 0.0210 RHF calculation, no. of doubly occupied orbitals= 54 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). 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 ZINC001608180005.mol2 40 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 05:36:43 Heat of formation + Delta-G solvation = -203.214363 kcal Electronic energy + Delta-G solvation = -22973.640077 eV Core-core repulsion = 19366.297596 eV Total energy + Delta-G solvation = -3607.342481 eV No. of doubly occupied orbitals = 54 Molecular weight (most abundant/longest-lived isotopes) = 285.145 amu Computer time = 0.93 seconds Orbital eigenvalues (eV) -42.33097 -40.36534 -39.56319 -37.11492 -36.67270 -36.01119 -34.67965 -33.12604 -31.46448 -29.33513 -27.44290 -26.33114 -24.52632 -23.56321 -22.55704 -21.67745 -20.16336 -19.35868 -18.49744 -18.37640 -18.01481 -17.49578 -16.97161 -16.74207 -16.50656 -16.27829 -16.12909 -15.82387 -15.31537 -15.00388 -14.55272 -14.47904 -14.04450 -13.72754 -13.65411 -13.29575 -13.18163 -12.84081 -12.55731 -12.51035 -12.34640 -12.21736 -12.18756 -12.07667 -11.62494 -11.42439 -11.36955 -11.31635 -11.13258 -10.74903 -10.56312 -9.82201 -8.19524 -6.32130 0.98890 1.40134 1.41776 1.42656 1.53717 1.78802 1.86837 2.41420 2.80413 3.13320 3.34939 3.58294 3.76530 3.92489 3.93561 4.06328 4.06950 4.19497 4.25930 4.43683 4.51999 4.56709 4.62634 4.74689 4.78688 4.85060 4.90141 5.13002 5.14139 5.30585 5.33216 5.54480 5.62712 5.75322 5.86203 5.92266 6.05272 6.23524 6.85571 6.86744 7.01677 7.37800 8.92889 Molecular weight = 285.15amu Principal moments of inertia in cm(-1) A = 0.027289 B = 0.003144 C = 0.002889 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1025.825757 B = 8903.292246 C = 9690.053990 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.939 5.939 2 C -0.008 4.008 3 Si 0.971 3.029 4 H -0.272 1.272 5 H -0.284 1.284 6 H -0.257 1.257 7 C -0.541 4.541 8 H 0.069 0.931 9 C 0.018 3.982 10 C -0.094 4.094 11 C -0.095 4.095 12 C -0.121 4.121 13 C 0.507 3.493 14 O -0.561 6.561 15 N -0.613 5.613 16 C 0.069 3.931 17 C 0.038 3.962 18 O -0.374 6.374 19 C 0.070 3.930 20 C 0.116 3.884 21 H 0.130 0.870 22 C 0.493 3.507 23 O -0.539 6.539 24 O -0.513 6.513 25 H 0.263 0.737 26 H -0.019 1.019 27 H -0.016 1.016 28 H 0.066 0.934 29 H 0.062 0.938 30 H 0.035 0.965 31 H 0.043 0.957 32 H 0.128 0.872 33 H 0.120 0.880 34 H 0.105 0.895 35 H 0.126 0.874 36 H 0.145 0.855 37 H 0.057 0.943 38 H 0.055 0.945 39 H 0.137 0.863 40 H 0.425 0.575 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 11.667 -25.808 0.620 28.330 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 -0.580 5.580 2 C -0.205 4.205 3 Si 0.795 3.205 4 H -0.198 1.198 5 H -0.210 1.210 6 H -0.181 1.181 7 C -0.579 4.579 8 H 0.087 0.913 9 C -0.019 4.019 10 C -0.131 4.131 11 C -0.133 4.133 12 C -0.160 4.160 13 C 0.298 3.702 14 O -0.440 6.440 15 N -0.351 5.351 16 C -0.051 4.051 17 C -0.039 4.039 18 O -0.292 6.292 19 C -0.008 4.008 20 C 0.012 3.988 21 H 0.148 0.852 22 C 0.336 3.664 23 O -0.429 6.429 24 O -0.326 6.326 25 H 0.071 0.929 26 H -0.001 1.001 27 H 0.002 0.998 28 H 0.085 0.915 29 H 0.080 0.920 30 H 0.054 0.946 31 H 0.061 0.939 32 H 0.146 0.854 33 H 0.138 0.862 34 H 0.123 0.877 35 H 0.144 0.856 36 H 0.163 0.837 37 H 0.076 0.924 38 H 0.073 0.927 39 H 0.155 0.845 40 H 0.286 0.714 Dipole moment (debyes) X Y Z Total from point charges 11.311 -25.790 0.511 28.165 hybrid contribution -1.388 1.505 -0.306 2.071 sum 9.922 -24.284 0.205 26.234 Atomic orbital electron populations 1.70138 1.08173 1.27771 1.51895 1.26123 0.95776 1.03862 0.94753 0.85358 0.78724 0.77909 0.78513 1.19764 1.21015 1.18061 1.21756 0.93822 0.92089 1.50240 0.91324 1.19059 0.94715 0.93979 0.94155 1.21434 0.97768 0.92325 1.01578 1.21242 0.97462 0.93879 1.00718 1.21695 0.98913 0.88486 1.06896 1.21513 0.87868 0.86666 0.74180 1.90694 1.16374 1.86281 1.50625 1.48336 1.09387 1.03332 1.74062 1.22946 0.75808 1.04669 1.01727 1.23336 0.99255 0.83642 0.97686 1.88020 1.18828 1.30124 1.92187 1.22844 0.82150 1.01594 0.94245 1.21562 0.85598 0.87392 1.04288 0.85205 1.22779 0.89011 0.74246 0.80343 1.90721 1.84754 1.37317 1.30093 1.84372 1.20752 1.73219 1.54288 0.92870 1.00098 0.99754 0.91521 0.91966 0.94621 0.93855 0.85361 0.86223 0.87670 0.85647 0.83691 0.92425 0.92684 0.84549 0.71376 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 14. 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 -0.94 -59.66 13.29 21.45 0.28 -59.38 16 2 C -0.01 -0.48 5.46 84.66 0.46 -0.02 16 3 Si 0.97 44.83 29.54 68.60 2.03 46.85 16 4 H -0.27 -12.12 7.11 99.48 0.71 -11.41 16 5 H -0.28 -12.93 7.11 99.48 0.71 -12.22 16 6 H -0.26 -11.05 7.11 99.48 0.71 -10.35 16 7 C -0.54 -31.44 9.11 25.60 0.23 -31.21 16 8 H 0.07 3.70 7.74 -2.91 -0.02 3.68 16 9 C 0.02 1.00 4.97 29.85 0.15 1.15 16 10 C -0.09 -3.81 5.15 30.59 0.16 -3.65 16 11 C -0.09 -3.49 4.50 30.59 0.14 -3.36 16 12 C -0.12 -2.97 4.07 29.85 0.12 -2.85 16 13 C 0.51 14.39 7.33 87.66 0.64 15.03 16 14 O -0.56 -21.56 11.92 21.03 0.25 -21.31 16 15 N -0.61 -12.19 3.02 -797.62 -2.41 -14.60 16 16 C 0.07 0.69 6.55 86.35 0.57 1.25 16 17 C 0.04 0.34 6.98 72.08 0.50 0.84 16 18 O -0.37 -4.99 10.74 -148.98 -1.60 -6.59 16 19 C 0.07 1.03 6.26 72.08 0.45 1.48 16 20 C 0.12 2.22 3.53 44.22 0.16 2.37 16 21 H 0.13 1.94 8.14 -2.39 -0.02 1.92 16 22 C 0.49 13.02 4.98 71.24 0.35 13.38 16 23 O -0.54 -18.96 15.38 29.74 0.46 -18.50 16 24 O -0.51 -11.22 13.42 -50.79 -0.68 -11.91 16 25 H 0.26 15.62 8.31 -92.71 -0.77 14.85 16 26 H -0.02 -1.19 8.14 -2.38 -0.02 -1.21 16 27 H -0.02 -0.97 8.14 -2.39 -0.02 -0.99 16 28 H 0.07 2.47 8.14 -2.38 -0.02 2.45 16 29 H 0.06 2.35 8.14 -2.39 -0.02 2.33 16 30 H 0.03 1.49 8.10 -2.39 -0.02 1.47 16 31 H 0.04 1.74 8.10 -2.39 -0.02 1.72 16 32 H 0.13 2.28 7.78 -2.39 -0.02 2.27 16 33 H 0.12 2.35 7.90 -2.39 -0.02 2.33 16 34 H 0.11 0.69 8.14 -2.39 -0.02 0.67 16 35 H 0.13 0.81 6.04 -2.39 -0.01 0.80 16 36 H 0.15 0.41 8.14 -2.39 -0.02 0.39 16 37 H 0.06 0.60 8.14 -2.39 -0.02 0.58 16 38 H 0.05 1.01 7.95 -2.39 -0.02 0.99 16 39 H 0.14 1.35 8.14 -2.39 -0.02 1.33 16 40 H 0.43 6.76 9.10 -74.06 -0.67 6.08 16 Total: -1.00 -85.98 331.82 2.63 -83.35 By element: Atomic # 1 Polarization: 7.30 SS G_CDS: 0.37 Total: 7.67 kcal Atomic # 6 Polarization: -9.51 SS G_CDS: 3.93 Total: -5.58 kcal Atomic # 7 Polarization: -71.85 SS G_CDS: -2.12 Total: -73.98 kcal Atomic # 8 Polarization: -56.73 SS G_CDS: -1.57 Total: -58.31 kcal Atomic # 14 Polarization: 44.83 SS G_CDS: 2.03 Total: 46.85 kcal Total: -85.98 2.63 -83.35 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. ZINC001608180005.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 -119.866 kcal (2) G-P(sol) polarization free energy of solvation -85.979 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -205.846 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.631 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -83.348 kcal (6) G-S(sol) free energy of system = (1) + (5) -203.214 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.93 seconds