Wall clock time and date at job start Fri Apr 10 2020 20:49:20 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 1.31521 * 1 3 3 Si 1.86798 * 119.99961 * 2 1 4 4 H 1.48505 * 109.46902 * 269.99756 * 3 2 1 5 5 H 1.48496 * 109.46980 * 29.99783 * 3 2 1 6 6 H 1.48492 * 109.46938 * 149.99940 * 3 2 1 7 7 C 1.37880 * 119.99595 * 179.97438 * 2 1 3 8 8 H 1.08003 * 119.99018 * 180.02562 * 7 2 1 9 9 C 1.50696 * 120.00499 * 0.02562 * 7 2 1 10 10 C 1.53003 * 109.47225 * 179.97438 * 9 7 2 11 11 C 1.53004 * 109.46951 * 179.97438 * 10 9 7 12 12 O 1.45193 * 109.46681 * 179.97438 * 11 10 9 13 13 C 1.34238 * 116.99860 * 180.02562 * 12 11 10 14 14 O 1.20824 * 119.99758 * 0.02562 * 13 12 11 15 15 C 1.50702 * 119.99820 * 180.02562 * 13 12 11 16 16 C 1.52999 * 109.46564 * 180.02562 * 15 13 12 17 17 C 1.53002 * 109.46765 * 180.02562 * 16 15 13 18 18 H 1.08998 * 110.27269 * 304.36118 * 17 16 15 19 19 C 1.54947 * 110.39442 * 182.21799 * 17 16 15 20 20 C 1.55305 * 100.94425 * 204.59649 * 19 17 16 21 21 H 1.08998 * 110.84418 * 275.94481 * 20 19 17 22 22 C 1.50700 * 110.84853 * 152.31831 * 20 19 17 23 23 O 1.20825 * 119.99813 * 5.71722 * 22 20 19 24 24 O 1.34229 * 119.99879 * 185.71236 * 22 20 19 25 25 C 1.54387 * 102.24962 * 34.12994 * 20 19 17 26 26 O 1.43236 * 107.59079 * 338.64624 * 25 20 19 27 27 H 0.96993 * 120.00063 * 0.02562 * 1 2 3 28 28 H 1.09003 * 109.47124 * 59.99539 * 9 7 2 29 29 H 1.09009 * 109.46711 * 299.99578 * 9 7 2 30 30 H 1.08998 * 109.46989 * 59.99628 * 10 9 7 31 31 H 1.08997 * 109.46967 * 299.99846 * 10 9 7 32 32 H 1.09003 * 109.46908 * 59.99854 * 11 10 9 33 33 H 1.08999 * 109.47063 * 299.99692 * 11 10 9 34 34 H 1.08998 * 109.46758 * 60.00438 * 15 13 12 35 35 H 1.09000 * 109.47059 * 300.00330 * 15 13 12 36 36 H 1.08998 * 109.47269 * 60.00697 * 16 15 13 37 37 H 1.09003 * 109.47203 * 299.99675 * 16 15 13 38 38 H 1.09002 * 111.12827 * 86.67315 * 19 17 16 39 39 H 1.09008 * 111.12113 * 322.51283 * 19 17 16 40 40 H 0.96697 * 116.99575 * 180.02562 * 24 22 20 41 41 H 1.09001 * 109.82619 * 98.16119 * 25 20 19 42 42 H 1.09004 * 109.82781 * 219.03947 * 25 20 19 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 1.3152 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 2.4967 2.0463 -1.4001 5 1 1.4466 2.6526 0.7000 6 1 3.5467 1.4401 0.7000 7 6 2.0045 -1.1941 0.0005 8 1 3.0846 -1.1940 0.0010 9 6 1.2511 -2.4992 0.0005 10 6 2.2453 -3.6621 0.0005 11 6 1.4803 -4.9872 0.0012 12 8 2.4238 -6.0907 0.0006 13 6 1.9108 -7.3312 0.0005 14 8 0.7129 -7.4895 0.0004 15 6 2.8288 -8.5263 0.0004 16 6 1.9955 -9.8094 -0.0003 17 6 2.9275 -11.0228 0.0003 18 1 3.6159 -10.9706 -0.8432 19 6 2.1056 -12.3350 -0.0566 20 6 3.1037 -13.3362 0.5862 21 1 3.8093 -13.7106 -0.1554 22 6 2.3702 -14.4717 1.2523 23 8 1.1702 -14.5616 1.1444 24 8 3.0502 -15.3833 1.9654 25 6 3.8215 -12.4569 1.6327 26 8 3.6571 -11.0904 1.2358 27 1 -0.4850 0.8400 -0.0004 28 1 0.6247 -2.5571 -0.8897 29 1 0.6241 -2.5567 0.8904 30 1 2.8720 -3.6043 0.8905 31 1 2.8719 -3.6044 -0.8894 32 1 0.8533 -5.0451 -0.8886 33 1 0.8540 -5.0447 0.8914 34 1 3.4575 -8.5014 0.8905 35 1 3.4577 -8.5013 -0.8895 36 1 1.3671 -9.8340 -0.8906 37 1 1.3663 -9.8346 0.8895 38 1 1.8791 -12.6124 -1.0861 39 1 1.1943 -12.2537 0.5359 40 1 2.5363 -16.0934 2.3738 41 1 3.3757 -12.6129 2.6150 42 1 4.8815 -12.7095 1.6634 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). 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 ZINC001608181421.mol2 42 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Fri Apr 10 2020 20:49:20 Heat of formation + Delta-G solvation = -275.280737 kcal Electronic energy + Delta-G solvation = -23236.697890 eV Core-core repulsion = 19372.974096 eV Total energy + Delta-G solvation = -3863.723794 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 300.150 amu Computer time = 0.61 seconds Orbital eigenvalues (eV) -41.77500 -41.45764 -40.05658 -37.92619 -37.19810 -35.92961 -34.79008 -33.66295 -33.49787 -30.35317 -28.89980 -26.09579 -25.29664 -24.77446 -22.29813 -22.16273 -21.83946 -21.15150 -19.09176 -18.79413 -18.43684 -18.38083 -17.84025 -17.59910 -17.05317 -16.51322 -16.48675 -16.31596 -15.85466 -15.39415 -14.72996 -14.68751 -14.37694 -14.18658 -14.08031 -13.75721 -13.65348 -13.22249 -12.95743 -12.81952 -12.69013 -12.52525 -12.51403 -12.36942 -12.18515 -12.07130 -12.04569 -11.94600 -11.77665 -11.64884 -11.40131 -11.38269 -11.19450 -10.57415 -10.50277 -8.21790 -6.33589 1.07780 1.19988 1.41683 1.43473 1.54630 1.69910 1.97713 2.41754 2.77261 3.11955 3.14502 3.62090 3.67374 3.83323 3.95289 3.99200 4.06947 4.08870 4.22654 4.28175 4.34264 4.41749 4.53061 4.65928 4.71708 4.78572 4.79528 4.83785 4.91723 4.98469 5.07267 5.09384 5.24472 5.44608 5.53904 5.56527 5.63196 5.79808 5.98336 6.18930 6.72998 6.82560 6.90082 7.35979 8.90423 Molecular weight = 300.15amu Principal moments of inertia in cm(-1) A = 0.053429 B = 0.001766 C = 0.001737 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 523.934463 B =15850.350519 C =16113.425181 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.934 5.934 2 C -0.002 4.002 3 Si 0.971 3.029 4 H -0.271 1.271 5 H -0.283 1.283 6 H -0.261 1.261 7 C -0.544 4.544 8 H 0.066 0.934 9 C 0.025 3.975 10 C -0.094 4.094 11 C 0.077 3.923 12 O -0.360 6.360 13 C 0.452 3.548 14 O -0.548 6.548 15 C -0.101 4.101 16 C -0.107 4.107 17 C 0.087 3.913 18 H 0.111 0.889 19 C -0.138 4.138 20 C -0.115 4.115 21 H 0.158 0.842 22 C 0.494 3.506 23 O -0.549 6.549 24 O -0.508 6.508 25 C 0.066 3.934 26 O -0.391 6.391 27 H 0.264 0.736 28 H -0.003 1.003 29 H -0.005 1.005 30 H 0.066 0.934 31 H 0.068 0.932 32 H 0.062 0.938 33 H 0.058 0.942 34 H 0.121 0.879 35 H 0.136 0.864 36 H 0.089 0.911 37 H 0.058 0.942 38 H 0.112 0.888 39 H 0.071 0.929 40 H 0.429 0.571 41 H 0.064 0.936 42 H 0.107 0.893 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 11.702 -32.885 0.272 34.906 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 -0.574 5.574 2 C -0.200 4.200 3 Si 0.795 3.205 4 H -0.196 1.196 5 H -0.208 1.208 6 H -0.185 1.185 7 C -0.582 4.582 8 H 0.084 0.916 9 C -0.013 4.013 10 C -0.131 4.131 11 C 0.003 3.997 12 O -0.276 6.276 13 C 0.297 3.703 14 O -0.439 6.439 15 C -0.138 4.138 16 C -0.144 4.144 17 C 0.031 3.969 18 H 0.129 0.871 19 C -0.176 4.176 20 C -0.134 4.134 21 H 0.175 0.825 22 C 0.338 3.662 23 O -0.439 6.439 24 O -0.322 6.322 25 C -0.011 4.011 26 O -0.311 6.311 27 H 0.073 0.927 28 H 0.015 0.985 29 H 0.014 0.986 30 H 0.085 0.915 31 H 0.087 0.913 32 H 0.080 0.920 33 H 0.077 0.923 34 H 0.139 0.861 35 H 0.154 0.846 36 H 0.108 0.892 37 H 0.077 0.923 38 H 0.130 0.870 39 H 0.090 0.910 40 H 0.291 0.709 41 H 0.083 0.917 42 H 0.125 0.875 Dipole moment (debyes) X Y Z Total from point charges 11.180 -32.332 0.197 34.211 hybrid contribution -1.064 0.391 0.374 1.194 sum 10.115 -31.942 0.571 33.510 Atomic orbital electron populations 1.70106 1.07909 1.27930 1.51435 1.26037 0.95810 1.03594 0.94565 0.85360 0.78608 0.77999 0.78555 1.19648 1.20840 1.18541 1.21635 0.93792 0.91853 1.50910 0.91589 1.18950 0.94309 0.92603 0.95407 1.21456 0.98697 0.90403 1.02587 1.23095 0.91027 0.83957 1.01592 1.86497 1.41971 1.15729 1.83435 1.24755 0.89131 0.85342 0.71027 1.90649 1.18939 1.87097 1.47209 1.21481 0.97270 0.86897 1.08116 1.21573 0.97325 0.91610 1.03916 1.23108 0.92582 0.93259 0.87975 0.87092 1.23307 0.97946 0.92561 1.03744 1.22692 0.99170 0.91931 0.99590 0.82477 1.23256 0.85591 0.82295 0.75091 1.90761 1.17840 1.75380 1.59932 1.84494 1.45903 1.39074 1.62687 1.23103 1.01759 0.80016 0.96211 1.88466 1.76283 1.25374 1.40993 0.92694 0.98485 0.98622 0.91546 0.91296 0.91983 0.92322 0.86087 0.84583 0.89225 0.92318 0.86981 0.91031 0.70854 0.91726 0.87535 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 13. 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 -0.93 -57.29 13.29 21.45 0.28 -57.00 16 2 C 0.00 -0.13 5.46 84.65 0.46 0.33 16 3 Si 0.97 44.24 29.54 68.60 2.03 46.27 16 4 H -0.27 -11.90 7.11 99.48 0.71 -11.19 16 5 H -0.28 -12.64 7.11 99.48 0.71 -11.93 16 6 H -0.26 -11.31 7.11 99.48 0.71 -10.61 16 7 C -0.54 -31.09 9.11 25.60 0.23 -30.85 16 8 H 0.07 3.57 7.74 -2.91 -0.02 3.55 16 9 C 0.02 1.31 4.97 29.85 0.15 1.46 16 10 C -0.09 -3.96 5.53 30.60 0.17 -3.79 16 11 C 0.08 2.93 5.47 71.98 0.39 3.33 16 12 O -0.36 -11.86 10.22 -51.49 -0.53 -12.39 16 13 C 0.45 13.19 7.96 71.24 0.57 13.76 16 14 O -0.55 -19.67 15.73 21.97 0.35 -19.33 16 15 C -0.10 -1.80 5.73 29.85 0.17 -1.62 16 16 C -0.11 -1.78 4.25 30.59 0.13 -1.65 16 17 C 0.09 0.99 3.42 31.26 0.11 1.09 16 18 H 0.11 0.68 8.14 -2.39 -0.02 0.66 16 19 C -0.14 -1.51 5.65 32.05 0.18 -1.33 16 20 C -0.11 -0.91 3.50 -10.28 -0.04 -0.95 16 21 H 0.16 0.29 8.14 -2.39 -0.02 0.27 16 22 C 0.49 5.85 7.50 71.24 0.53 6.39 16 23 O -0.55 -10.97 16.52 21.97 0.36 -10.61 16 24 O -0.51 -3.35 13.41 -51.41 -0.69 -4.03 16 25 C 0.07 0.63 7.38 72.45 0.53 1.16 16 26 O -0.39 -5.64 10.69 -148.98 -1.59 -7.23 16 27 H 0.26 15.20 8.31 -92.71 -0.77 14.43 16 28 H 0.00 -0.19 8.14 -2.39 -0.02 -0.20 16 29 H 0.00 -0.27 8.14 -2.38 -0.02 -0.28 16 30 H 0.07 2.71 8.14 -2.39 -0.02 2.69 16 31 H 0.07 2.78 8.14 -2.39 -0.02 2.76 16 32 H 0.06 2.40 8.13 -2.39 -0.02 2.38 16 33 H 0.06 2.30 8.13 -2.39 -0.02 2.28 16 34 H 0.12 2.01 7.91 -2.39 -0.02 1.99 16 35 H 0.14 1.62 8.14 -2.39 -0.02 1.60 16 36 H 0.09 1.47 8.10 -2.39 -0.02 1.45 16 37 H 0.06 1.25 8.10 -2.39 -0.02 1.23 16 38 H 0.11 0.84 8.14 -2.39 -0.02 0.83 16 39 H 0.07 1.17 7.39 -2.38 -0.02 1.16 16 40 H 0.43 -0.27 9.10 -74.06 -0.67 -0.94 16 41 H 0.06 0.72 7.81 -2.39 -0.02 0.70 16 42 H 0.11 0.57 8.14 -2.38 -0.02 0.55 16 Total: -1.00 -77.79 360.65 4.15 -73.64 By element: Atomic # 1 Polarization: 3.01 SS G_CDS: 0.35 Total: 3.36 kcal Atomic # 6 Polarization: -16.27 SS G_CDS: 3.60 Total: -12.68 kcal Atomic # 7 Polarization: -57.29 SS G_CDS: 0.28 Total: -57.00 kcal Atomic # 8 Polarization: -51.49 SS G_CDS: -2.10 Total: -53.59 kcal Atomic # 14 Polarization: 44.24 SS G_CDS: 2.03 Total: 46.27 kcal Total: -77.79 4.15 -73.64 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. ZINC001608181421.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 -201.640 kcal (2) G-P(sol) polarization free energy of solvation -77.794 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -279.434 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.153 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -73.641 kcal (6) G-S(sol) free energy of system = (1) + (5) -275.281 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.61 seconds