Wall clock time and date at job start Tue Mar 31 2020 17:55:54 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 1.31516 * 1 3 3 Si 1.86802 * 119.99781 * 2 1 4 4 H 1.48502 * 109.47157 * 269.99755 * 3 2 1 5 5 H 1.48502 * 109.47363 * 30.00276 * 3 2 1 6 6 H 1.48506 * 109.47061 * 149.99888 * 3 2 1 7 7 C 1.37876 * 120.00005 * 180.02562 * 2 1 3 8 8 H 1.07994 * 119.99932 * 0.02562 * 7 2 1 9 9 C 1.50703 * 119.99910 * 180.02562 * 7 2 1 10 10 C 1.53002 * 109.46775 * 179.97438 * 9 7 2 11 11 C 1.53001 * 109.46736 * 179.97438 * 10 9 7 12 12 H 1.08998 * 109.47156 * 305.00088 * 11 10 9 13 13 N 1.46900 * 109.47013 * 65.00369 * 11 10 9 14 14 C 1.50698 * 109.47035 * 184.99789 * 11 10 9 15 15 O 1.21277 * 120.00307 * 260.00339 * 14 11 10 16 16 N 1.34783 * 119.99682 * 80.00243 * 14 11 10 17 17 C 1.46502 * 119.99705 * 179.97438 * 16 14 11 18 18 C 1.50699 * 109.46662 * 180.02562 * 17 16 14 19 19 N 1.30521 * 126.34827 * 84.72271 * 18 17 16 20 20 N 1.28597 * 109.67353 * 179.97438 * 19 18 17 21 21 C 1.30519 * 109.67205 * 359.97438 * 20 19 18 22 22 C 1.50703 * 126.34362 * 179.97438 * 21 20 19 23 23 C 1.52993 * 117.50131 * 351.40722 * 22 21 20 24 24 C 1.52994 * 60.00247 * 107.48639 * 23 22 21 25 25 N 1.35487 * 107.31058 * 0.22773 * 21 20 19 26 26 C 1.46499 * 126.98160 * 179.77483 * 25 21 20 27 27 C 1.52999 * 117.50104 * 311.72797 * 26 25 21 28 28 C 1.53004 * 117.49870 * 243.10294 * 26 25 21 29 29 H 0.97007 * 119.99922 * 359.97438 * 1 2 3 30 30 H 1.08996 * 109.46885 * 59.99910 * 9 7 2 31 31 H 1.08995 * 109.46883 * 300.00075 * 9 7 2 32 32 H 1.09005 * 109.46889 * 60.00346 * 10 9 7 33 33 H 1.08997 * 109.47036 * 299.99649 * 10 9 7 34 34 H 1.00900 * 111.00394 * 59.99907 * 13 11 10 35 35 H 1.00896 * 111.00189 * 183.95372 * 13 11 10 36 36 H 0.97000 * 120.00173 * 359.97438 * 16 14 11 37 37 H 1.08995 * 109.47137 * 60.00494 * 17 16 14 38 38 H 1.08994 * 109.47155 * 299.99830 * 17 16 14 39 39 H 1.08998 * 115.56308 * 205.70737 * 22 21 20 40 40 H 1.09005 * 117.50046 * 214.97558 * 23 22 21 41 41 H 1.09004 * 117.49671 * 359.97438 * 23 22 21 42 42 H 1.08998 * 117.49893 * 252.51006 * 24 23 22 43 43 H 1.09002 * 117.51736 * 107.48096 * 24 23 22 44 44 H 1.09002 * 115.54917 * 97.44256 * 26 25 21 45 45 H 1.09005 * 117.49541 * 0.02562 * 27 26 25 46 46 H 1.08997 * 117.49569 * 145.01952 * 27 26 25 47 47 H 1.08995 * 117.49910 * 214.97721 * 28 26 25 48 48 H 1.08995 * 117.49897 * 0.02562 * 28 26 25 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 2.2491 1.6178 0.0000 4 1 2.4966 2.0465 -1.4001 5 1 1.4466 2.6527 0.7001 6 1 3.5467 1.4403 0.7001 7 6 2.0045 -1.1940 -0.0005 8 1 1.4646 -2.1293 -0.0014 9 6 3.5116 -1.1940 0.0000 10 6 4.0215 -2.6366 -0.0001 11 6 5.5515 -2.6365 -0.0001 12 1 5.9148 -2.0470 -0.8419 13 7 6.0412 -2.0514 1.2552 14 6 6.0539 -4.0519 -0.1240 15 8 6.4279 -4.6511 0.8618 16 7 6.0874 -4.6518 -1.3305 17 6 6.5762 -6.0276 -1.4510 18 6 6.5115 -6.4590 -2.8935 19 7 7.4144 -6.2354 -3.8091 20 7 7.0332 -6.7448 -4.9267 21 6 5.8700 -7.3169 -4.7746 22 6 5.0783 -8.0283 -5.8416 23 6 5.5813 -7.9234 -7.2826 24 6 5.7286 -9.2385 -6.5149 25 7 5.5035 -7.1479 -3.4813 26 6 4.2692 -7.6168 -2.8465 27 6 2.9508 -7.3307 -3.5682 28 6 3.3108 -6.5581 -2.2975 29 1 -0.4850 0.8401 0.0004 30 1 3.8745 -0.6808 0.8905 31 1 3.8752 -0.6796 -0.8894 32 1 3.6585 -3.1501 -0.8904 33 1 3.6579 -3.1505 0.8897 34 1 5.7177 -2.5803 2.0512 35 1 7.0477 -1.9808 1.2528 36 1 5.7878 -4.1727 -2.1189 37 1 5.9555 -6.6881 -0.8457 38 1 7.6079 -6.0784 -1.1030 39 1 4.0000 -8.0583 -5.6858 40 1 4.8338 -7.8842 -8.0751 41 1 6.4846 -7.3394 -7.4591 42 1 6.7290 -9.5201 -6.1863 43 1 5.0781 -10.0647 -6.8019 44 1 4.3499 -8.5554 -2.2981 45 1 3.0018 -6.7939 -4.5155 46 1 2.1638 -8.0812 -3.4949 47 1 2.7605 -6.8003 -1.3884 48 1 3.5983 -5.5126 -2.4090 RHF calculation, no. of doubly occupied orbitals= 63 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 ZINC001326037933.mol2 48 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 17:55:54 Heat of formation + Delta-G solvation = 66.768487 kcal Electronic energy + Delta-G solvation = -28694.624348 eV Core-core repulsion = 24786.503237 eV Total energy + Delta-G solvation = -3908.121111 eV No. of doubly occupied orbitals = 63 Molecular weight (most abundant/longest-lived isotopes) = 333.191 amu Computer time = 0.83 seconds Orbital eigenvalues (eV) -44.41845 -41.07980 -38.76244 -38.18062 -36.98256 -36.19209 -34.78304 -33.97115 -32.28726 -32.10793 -29.03098 -27.66061 -25.74282 -24.97971 -24.47076 -23.30087 -23.29121 -22.21616 -21.71559 -21.25234 -21.15084 -19.09019 -18.60734 -18.14311 -17.91061 -17.29518 -16.84781 -16.75475 -16.25786 -16.10395 -15.94863 -15.69593 -15.28084 -15.12576 -14.76550 -14.64497 -14.29862 -14.19004 -13.97041 -13.48478 -13.35148 -12.82375 -12.74126 -12.64542 -12.55455 -12.40281 -12.39685 -12.09995 -12.03987 -11.95272 -11.75105 -11.60382 -11.51964 -11.32878 -11.29088 -11.16714 -11.04966 -10.70658 -10.35147 -10.17565 -9.66271 -8.24835 -6.27095 0.42487 1.16617 1.39435 1.42649 1.43917 1.47477 1.56432 2.20651 2.31431 2.41344 2.85058 2.93800 3.06052 3.12286 3.47077 3.51854 3.56379 3.66324 3.75989 3.82717 3.86002 3.95642 4.07136 4.07511 4.25564 4.30980 4.50038 4.57674 4.64570 4.69775 4.71003 4.76604 4.82932 4.84185 4.86227 4.93905 4.99887 5.11105 5.13086 5.14970 5.25205 5.50500 5.66040 5.72859 5.74351 6.04361 6.29478 6.32863 6.51059 6.81369 6.99368 7.37566 7.50740 8.91669 Molecular weight = 333.19amu Principal moments of inertia in cm(-1) A = 0.012696 B = 0.002844 C = 0.002562 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2204.911069 B = 9841.419761 C =10925.271096 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.954 5.954 2 C 0.005 3.995 3 Si 0.946 3.054 4 H -0.268 1.268 5 H -0.289 1.289 6 H -0.245 1.245 7 C -0.526 4.526 8 H 0.033 0.967 9 C 0.000 4.000 10 C -0.075 4.075 11 C 0.084 3.916 12 H 0.114 0.886 13 N -0.818 5.818 14 C 0.498 3.502 15 O -0.571 6.571 16 N -0.712 5.712 17 C 0.219 3.781 18 C 0.159 3.841 19 N -0.308 5.308 20 N -0.330 5.330 21 C 0.223 3.777 22 C -0.104 4.104 23 C -0.150 4.150 24 C -0.143 4.143 25 N -0.431 5.431 26 C 0.032 3.968 27 C -0.145 4.145 28 C -0.173 4.173 29 H 0.264 0.736 30 H 0.029 0.971 31 H 0.017 0.983 32 H 0.065 0.935 33 H 0.047 0.953 34 H 0.348 0.652 35 H 0.349 0.651 36 H 0.409 0.591 37 H 0.097 0.903 38 H 0.096 0.904 39 H 0.150 0.850 40 H 0.129 0.871 41 H 0.088 0.912 42 H 0.083 0.917 43 H 0.133 0.867 44 H 0.163 0.837 45 H 0.103 0.897 46 H 0.146 0.854 47 H 0.126 0.874 48 H 0.085 0.915 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 9.954 -20.733 -11.583 25.750 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 -0.595 5.595 2 C -0.192 4.192 3 Si 0.770 3.230 4 H -0.193 1.193 5 H -0.216 1.216 6 H -0.168 1.168 7 C -0.565 4.565 8 H 0.052 0.948 9 C -0.037 4.037 10 C -0.114 4.114 11 C -0.032 4.032 12 H 0.132 0.868 13 N -0.347 5.347 14 C 0.284 3.716 15 O -0.450 6.450 16 N -0.366 5.366 17 C 0.093 3.907 18 C -0.109 4.109 19 N -0.149 5.149 20 N -0.170 5.170 21 C -0.044 4.044 22 C -0.124 4.124 23 C -0.188 4.188 24 C -0.182 4.182 25 N -0.120 5.120 26 C -0.071 4.071 27 C -0.182 4.182 28 C -0.210 4.210 29 H 0.073 0.927 30 H 0.047 0.953 31 H 0.035 0.965 32 H 0.084 0.916 33 H 0.066 0.934 34 H 0.162 0.838 35 H 0.163 0.837 36 H 0.244 0.756 37 H 0.115 0.885 38 H 0.114 0.886 39 H 0.168 0.832 40 H 0.147 0.853 41 H 0.107 0.893 42 H 0.102 0.898 43 H 0.151 0.849 44 H 0.180 0.820 45 H 0.121 0.879 46 H 0.164 0.836 47 H 0.144 0.856 48 H 0.104 0.896 Dipole moment (debyes) X Y Z Total from point charges 10.950 -19.906 -11.689 25.549 hybrid contribution -0.665 -0.209 0.555 0.890 sum 10.285 -20.115 -11.134 25.186 Atomic orbital electron populations 1.70068 1.08244 1.27937 1.53240 1.25940 0.95498 1.03325 0.94395 0.85717 0.79720 0.78535 0.79055 1.19314 1.21568 1.16844 1.21538 0.92328 0.92927 1.49659 0.94816 1.19385 0.93051 0.94142 0.97145 1.21232 0.90329 0.98585 1.01205 1.21681 0.96998 0.88526 0.95972 0.86776 1.59013 1.16642 1.55901 1.03148 1.22351 0.76639 0.90396 0.82260 1.90668 1.49699 1.66821 1.37819 1.46014 1.65886 1.14347 1.10309 1.19366 1.02283 0.83906 0.85126 1.24588 0.87491 1.00455 0.98368 1.74226 1.24522 1.19776 0.96337 1.74186 1.10926 1.14351 1.17567 1.24378 0.94279 1.00596 0.85124 1.20532 0.98392 1.03221 0.90291 1.23094 1.03728 1.00085 0.91844 1.23121 1.02038 0.91799 1.01194 1.45578 1.16778 1.40910 1.08690 1.22481 0.78691 1.01288 1.04639 1.23565 0.94636 1.03327 0.96686 1.23445 1.00550 0.96713 1.00331 0.92715 0.95264 0.96456 0.91620 0.93428 0.83791 0.83740 0.75554 0.88543 0.88603 0.83226 0.85293 0.89348 0.89804 0.84872 0.81977 0.87860 0.83567 0.85623 0.89602 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 -0.95 -59.34 13.96 21.45 0.30 -59.04 16 2 C 0.00 0.27 5.47 84.65 0.46 0.74 16 3 Si 0.95 44.35 27.47 68.60 1.88 46.23 16 4 H -0.27 -12.03 7.11 99.48 0.71 -11.32 16 5 H -0.29 -13.49 7.11 99.48 0.71 -12.78 16 6 H -0.25 -10.84 6.54 99.48 0.65 -10.19 16 7 C -0.53 -29.51 9.66 25.60 0.25 -29.26 16 8 H 0.03 2.06 7.99 -2.91 -0.02 2.04 16 9 C 0.00 0.01 3.93 29.85 0.12 0.13 16 10 C -0.08 -2.67 4.78 30.60 0.15 -2.53 16 11 C 0.08 2.40 3.15 44.17 0.14 2.54 16 12 H 0.11 2.95 8.14 -2.39 -0.02 2.93 16 13 N -0.82 -23.47 8.44 -171.80 -1.45 -24.92 16 14 C 0.50 13.44 7.07 87.66 0.62 14.06 16 15 O -0.57 -18.30 16.25 -3.02 -0.05 -18.35 16 16 N -0.71 -16.04 5.55 -466.80 -2.59 -18.63 16 17 C 0.22 4.68 6.07 85.63 0.52 5.20 16 18 C 0.16 3.68 7.38 137.98 1.02 4.70 16 19 N -0.31 -8.94 12.21 -50.15 -0.61 -9.55 16 20 N -0.33 -9.22 11.83 -50.16 -0.59 -9.82 16 21 C 0.22 4.70 7.44 137.98 1.03 5.72 16 22 C -0.10 -1.36 5.79 -11.54 -0.07 -1.43 16 23 C -0.15 -1.78 10.15 30.59 0.31 -1.47 16 24 C -0.14 -1.47 10.23 30.59 0.31 -1.16 16 25 N -0.43 -8.19 3.03 -481.73 -1.46 -9.65 16 26 C 0.03 0.40 6.00 44.99 0.27 0.67 16 27 C -0.15 -1.39 8.96 30.60 0.27 -1.11 16 28 C -0.17 -2.50 10.44 30.60 0.32 -2.18 16 29 H 0.26 15.41 8.31 -92.70 -0.77 14.64 16 30 H 0.03 1.35 6.81 -2.39 -0.02 1.33 16 31 H 0.02 0.74 7.57 -2.39 -0.02 0.73 16 32 H 0.07 2.20 8.14 -2.38 -0.02 2.18 16 33 H 0.05 1.81 8.14 -2.39 -0.02 1.79 16 34 H 0.35 10.30 8.58 -89.69 -0.77 9.53 16 35 H 0.35 8.53 9.06 -89.70 -0.81 7.72 16 36 H 0.41 8.75 8.46 -92.71 -0.78 7.96 16 37 H 0.10 1.88 7.82 -2.39 -0.02 1.86 16 38 H 0.10 2.15 8.14 -2.39 -0.02 2.13 16 39 H 0.15 1.25 5.90 -2.39 -0.01 1.23 16 40 H 0.13 0.90 8.14 -2.38 -0.02 0.88 16 41 H 0.09 1.47 7.92 -2.38 -0.02 1.45 16 42 H 0.08 1.15 8.14 -2.39 -0.02 1.13 16 43 H 0.13 0.62 8.14 -2.39 -0.02 0.61 16 44 H 0.16 1.36 8.14 -2.39 -0.02 1.34 16 45 H 0.10 1.11 7.12 -2.38 -0.02 1.09 16 46 H 0.15 0.62 8.14 -2.39 -0.02 0.60 16 47 H 0.13 1.66 8.14 -2.39 -0.02 1.64 16 48 H 0.09 1.66 8.14 -2.39 -0.02 1.64 16 Total: -1.00 -76.67 401.11 -0.27 -76.94 By element: Atomic # 1 Polarization: 33.58 SS G_CDS: -1.41 Total: 32.17 kcal Atomic # 6 Polarization: -11.10 SS G_CDS: 5.72 Total: -5.38 kcal Atomic # 7 Polarization: -125.21 SS G_CDS: -6.41 Total: -131.62 kcal Atomic # 8 Polarization: -18.30 SS G_CDS: -0.05 Total: -18.35 kcal Atomic # 14 Polarization: 44.35 SS G_CDS: 1.88 Total: 46.23 kcal Total: -76.67 -0.27 -76.94 kcal The number of atoms in the molecule is 48 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. ZINC001326037933.mol2 48 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 143.710 kcal (2) G-P(sol) polarization free energy of solvation -76.674 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 67.036 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.267 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.941 kcal (6) G-S(sol) free energy of system = (1) + (5) 66.768 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.83 seconds