Wall clock time and date at job start Tue Mar 31 2020 05:36:51 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 1.31514 * 1 3 3 Si 1.86803 * 120.00112 * 2 1 4 4 H 1.48500 * 109.46986 * 270.00107 * 3 2 1 5 5 H 1.48496 * 109.47029 * 30.00124 * 3 2 1 6 6 H 1.48499 * 109.47352 * 149.99954 * 3 2 1 7 7 C 1.37885 * 120.00035 * 179.97438 * 2 1 3 8 8 H 1.07991 * 119.99806 * 0.02562 * 7 2 1 9 9 C 1.50697 * 119.99686 * 179.72339 * 7 2 1 10 10 C 1.53001 * 109.46995 * 179.97438 * 9 7 2 11 11 C 1.52994 * 109.47367 * 180.02562 * 10 9 7 12 12 C 1.53001 * 109.47367 * 179.97438 * 11 10 9 13 13 C 1.50702 * 109.47327 * 179.97438 * 12 11 10 14 14 O 1.21281 * 120.00050 * 0.02562 * 13 12 11 15 15 N 1.34774 * 120.00110 * 180.02562 * 13 12 11 16 16 C 1.47152 * 120.98018 * 359.71835 * 15 13 12 17 17 C 1.53718 * 108.16094 * 129.43324 * 16 15 13 18 18 O 1.42955 * 109.14681 * 52.53760 * 17 16 15 19 19 C 1.42966 * 114.17025 * 297.28749 * 18 17 16 20 20 H 1.08999 * 109.50747 * 302.66227 * 19 18 17 21 21 C 1.50694 * 109.51549 * 182.50164 * 19 18 17 22 22 O 1.20823 * 120.00359 * 355.25968 * 21 19 18 23 23 O 1.34235 * 119.99794 * 175.25430 * 21 19 18 24 24 C 1.47152 * 120.98435 * 180.02562 * 15 13 12 25 25 H 0.97000 * 119.99706 * 359.97438 * 1 2 3 26 26 H 1.08998 * 109.47683 * 300.00180 * 9 7 2 27 27 H 1.09001 * 109.47048 * 60.00389 * 9 7 2 28 28 H 1.08998 * 109.47065 * 300.00574 * 10 9 7 29 29 H 1.09006 * 109.46890 * 59.99833 * 10 9 7 30 30 H 1.08998 * 109.47353 * 300.00222 * 11 10 9 31 31 H 1.09001 * 109.47005 * 60.00203 * 11 10 9 32 32 H 1.08998 * 109.47065 * 300.00398 * 12 11 10 33 33 H 1.09001 * 109.46892 * 60.00134 * 12 11 10 34 34 H 1.09004 * 109.68519 * 249.21230 * 16 15 13 35 35 H 1.09004 * 109.68473 * 9.76674 * 16 15 13 36 36 H 1.08997 * 109.65410 * 292.56802 * 17 16 15 37 37 H 1.09002 * 109.44085 * 172.37520 * 17 16 15 38 38 H 0.96698 * 116.99692 * 180.02562 * 23 21 19 39 39 H 1.08997 * 109.67892 * 350.23247 * 24 15 13 40 40 H 1.08994 * 109.68043 * 110.78553 * 24 15 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 2.2492 1.6177 0.0000 4 1 2.4967 2.0464 -1.4001 5 1 1.4467 2.6526 0.7000 6 1 3.5467 1.4402 0.7000 7 6 2.0046 -1.1941 0.0005 8 1 1.4646 -2.1293 0.0005 9 6 3.5115 -1.1940 -0.0058 10 6 4.0216 -2.6365 -0.0031 11 6 5.5515 -2.6365 -0.0089 12 6 6.0616 -4.0790 -0.0056 13 6 7.5686 -4.0790 -0.0119 14 8 8.1750 -3.0287 -0.0179 15 7 8.2425 -5.2462 -0.0109 16 6 7.5287 -6.5329 0.0026 17 6 8.0981 -7.4085 -1.1253 18 8 9.5206 -7.4708 -0.9980 19 6 10.1767 -6.2084 -1.1385 20 1 9.9237 -5.7722 -2.1048 21 6 11.6682 -6.4034 -1.0478 22 8 12.1206 -7.4948 -0.7949 23 8 12.4943 -5.3645 -1.2482 24 6 9.7138 -5.2714 -0.0164 25 1 -0.4850 0.8401 0.0004 26 1 3.8712 -0.6827 -0.8987 27 1 3.8785 -0.6777 0.8813 28 1 3.6619 -3.1474 0.8900 29 1 3.6545 -3.1533 -0.8899 30 1 5.9115 -2.1255 -0.9018 31 1 5.9182 -2.1199 0.8781 32 1 5.7016 -4.5897 0.8875 33 1 5.6949 -4.5960 -0.8924 34 1 7.6772 -7.0252 0.9638 35 1 6.4647 -6.3643 -0.1635 36 1 7.8376 -6.9767 -2.0916 37 1 7.6814 -8.4129 -1.0504 38 1 13.4431 -5.5386 -1.1800 39 1 10.0975 -4.2670 -0.1950 40 1 10.0782 -5.6389 0.9429 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 ZINC001601064985.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 05:36:51 Heat of formation + Delta-G solvation = -205.357004 kcal Electronic energy + Delta-G solvation = -22281.535214 eV Core-core repulsion = 18674.099821 eV Total energy + Delta-G solvation = -3607.435393 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) -41.92165 -40.98195 -39.42049 -37.24813 -36.69052 -35.92050 -34.62705 -33.18949 -31.77734 -29.38491 -27.90756 -26.06405 -24.32629 -23.45830 -22.23766 -21.70581 -20.20674 -19.30200 -18.86370 -18.45992 -17.81221 -17.46953 -17.36445 -16.94599 -16.61046 -16.26917 -15.88566 -15.71474 -15.34744 -14.93085 -14.63659 -14.60789 -13.92699 -13.74678 -13.65654 -13.62533 -13.15717 -12.86744 -12.77383 -12.66814 -12.29961 -12.06853 -12.04231 -11.74638 -11.68626 -11.47056 -11.39021 -11.31722 -11.24196 -10.81071 -10.74626 -9.76961 -8.28413 -6.31183 0.91340 1.35815 1.37562 1.44710 1.50016 1.54617 1.74167 2.36997 2.94868 3.07274 3.32654 3.51670 3.70503 3.89903 3.98402 4.03756 4.14485 4.20247 4.26710 4.36179 4.52122 4.60364 4.65881 4.75758 4.76865 4.85302 4.90953 5.15611 5.18985 5.26115 5.30970 5.43582 5.62786 5.68219 5.70562 5.82839 6.19162 6.31223 6.77221 6.84669 7.04825 7.33748 8.88111 Molecular weight = 285.15amu Principal moments of inertia in cm(-1) A = 0.036815 B = 0.002680 C = 0.002536 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 760.367843 B =10444.930974 C =11037.554862 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.951 5.951 2 C 0.003 3.997 3 Si 0.947 3.053 4 H -0.267 1.267 5 H -0.283 1.283 6 H -0.252 1.252 7 C -0.529 4.529 8 H 0.038 0.962 9 C -0.018 4.018 10 C -0.093 4.093 11 C -0.098 4.098 12 C -0.130 4.130 13 C 0.518 3.482 14 O -0.577 6.577 15 N -0.618 5.618 16 C 0.063 3.937 17 C 0.045 3.955 18 O -0.376 6.376 19 C 0.092 3.908 20 H 0.116 0.884 21 C 0.498 3.502 22 O -0.528 6.528 23 O -0.502 6.502 24 C 0.093 3.907 25 H 0.266 0.734 26 H 0.013 0.987 27 H 0.013 0.987 28 H 0.057 0.943 29 H 0.059 0.941 30 H 0.053 0.947 31 H 0.050 0.950 32 H 0.118 0.882 33 H 0.122 0.878 34 H 0.092 0.908 35 H 0.128 0.872 36 H 0.073 0.927 37 H 0.142 0.858 38 H 0.437 0.563 39 H 0.104 0.896 40 H 0.083 0.917 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 23.466 -16.721 -2.502 28.922 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 -0.592 5.592 2 C -0.194 4.194 3 Si 0.770 3.230 4 H -0.192 1.192 5 H -0.209 1.209 6 H -0.176 1.176 7 C -0.567 4.567 8 H 0.056 0.944 9 C -0.055 4.055 10 C -0.131 4.131 11 C -0.137 4.137 12 C -0.169 4.169 13 C 0.309 3.691 14 O -0.456 6.456 15 N -0.353 5.353 16 C -0.058 4.058 17 C -0.031 4.031 18 O -0.295 6.295 19 C 0.032 3.968 20 H 0.133 0.867 21 C 0.339 3.661 22 O -0.416 6.416 23 O -0.317 6.317 24 C -0.030 4.030 25 H 0.074 0.926 26 H 0.031 0.969 27 H 0.031 0.969 28 H 0.076 0.924 29 H 0.078 0.922 30 H 0.072 0.928 31 H 0.069 0.931 32 H 0.136 0.864 33 H 0.140 0.860 34 H 0.110 0.890 35 H 0.146 0.854 36 H 0.091 0.909 37 H 0.160 0.840 38 H 0.300 0.700 39 H 0.122 0.878 40 H 0.101 0.899 Dipole moment (debyes) X Y Z Total from point charges 23.453 -16.452 -2.426 28.751 hybrid contribution 0.405 0.948 0.059 1.033 sum 23.858 -15.504 -2.367 28.551 Atomic orbital electron populations 1.70061 1.08132 1.28038 1.52984 1.25994 0.95594 1.03385 0.94378 0.85706 0.79403 0.78690 0.79154 1.19234 1.20919 1.17553 1.21555 0.92158 0.93187 1.49784 0.94353 1.19585 0.93835 0.96056 0.96067 1.21331 0.93613 0.96629 1.01493 1.21299 0.94879 0.95634 1.01840 1.21742 0.89044 0.99335 1.06766 1.21295 0.91355 0.82372 0.74075 1.90699 1.71259 1.32526 1.51104 1.48256 1.05920 1.07030 1.74094 1.22929 0.99222 0.82423 1.01237 1.23488 0.78120 1.03380 0.98118 1.88026 1.21266 1.26714 1.93532 1.21681 0.86649 0.86782 1.01701 0.86699 1.22654 0.89745 0.81615 0.72094 1.90751 1.78427 1.27919 1.44549 1.84466 1.24972 1.39548 1.82717 1.21997 0.81441 1.01233 0.98348 0.92566 0.96902 0.96891 0.92384 0.92184 0.92810 0.93127 0.86353 0.85963 0.88992 0.85414 0.90871 0.84005 0.69976 0.87804 0.89919 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 -0.95 -59.97 13.96 21.45 0.30 -59.67 16 2 C 0.00 0.18 5.47 84.66 0.46 0.64 16 3 Si 0.95 45.33 27.47 68.60 1.88 47.21 16 4 H -0.27 -12.30 7.11 99.48 0.71 -11.59 16 5 H -0.28 -13.25 7.11 99.48 0.71 -12.54 16 6 H -0.25 -11.44 6.54 99.48 0.65 -10.79 16 7 C -0.53 -30.53 9.66 25.60 0.25 -30.29 16 8 H 0.04 2.39 7.99 -2.92 -0.02 2.36 16 9 C -0.02 -0.85 4.04 29.85 0.12 -0.73 16 10 C -0.09 -3.36 5.15 30.59 0.16 -3.20 16 11 C -0.10 -2.95 4.50 30.59 0.14 -2.81 16 12 C -0.13 -2.59 4.07 29.85 0.12 -2.46 16 13 C 0.52 11.90 7.71 87.66 0.68 12.58 16 14 O -0.58 -18.53 15.45 -3.03 -0.05 -18.57 16 15 N -0.62 -10.31 3.01 -816.45 -2.46 -12.77 16 16 C 0.06 0.59 6.57 86.50 0.57 1.16 16 17 C 0.05 0.40 7.00 72.22 0.51 0.90 16 18 O -0.38 -6.12 9.92 -129.97 -1.29 -7.41 16 19 C 0.09 1.40 3.30 29.96 0.10 1.50 16 20 H 0.12 1.48 8.14 -2.39 -0.02 1.46 16 21 C 0.50 8.28 7.66 71.23 0.55 8.83 16 22 O -0.53 -12.47 17.27 28.38 0.49 -11.98 16 23 O -0.50 -5.46 13.42 -51.46 -0.69 -6.15 16 24 C 0.09 1.56 5.91 86.37 0.51 2.07 16 25 H 0.27 15.62 8.31 -92.71 -0.77 14.85 16 26 H 0.01 0.59 7.58 -2.39 -0.02 0.57 16 27 H 0.01 0.61 7.19 -2.39 -0.02 0.59 16 28 H 0.06 2.03 8.14 -2.39 -0.02 2.02 16 29 H 0.06 2.08 8.14 -2.38 -0.02 2.06 16 30 H 0.05 1.73 8.10 -2.39 -0.02 1.71 16 31 H 0.05 1.65 8.10 -2.39 -0.02 1.64 16 32 H 0.12 1.84 8.01 -2.39 -0.02 1.82 16 33 H 0.12 1.78 7.67 -2.39 -0.02 1.76 16 34 H 0.09 0.75 8.14 -2.38 -0.02 0.74 16 35 H 0.13 0.66 6.05 -2.39 -0.01 0.65 16 36 H 0.07 0.54 8.14 -2.39 -0.02 0.52 16 37 H 0.14 0.57 8.14 -2.39 -0.02 0.55 16 38 H 0.44 0.84 9.10 -74.06 -0.67 0.17 16 39 H 0.10 2.03 7.08 -2.39 -0.02 2.01 16 40 H 0.08 1.33 8.14 -2.39 -0.02 1.31 16 Total: -1.00 -81.94 334.46 2.66 -79.28 By element: Atomic # 1 Polarization: 1.56 SS G_CDS: 0.32 Total: 1.87 kcal Atomic # 6 Polarization: -15.97 SS G_CDS: 4.15 Total: -11.81 kcal Atomic # 7 Polarization: -70.28 SS G_CDS: -2.16 Total: -72.44 kcal Atomic # 8 Polarization: -42.58 SS G_CDS: -1.54 Total: -44.12 kcal Atomic # 14 Polarization: 45.33 SS G_CDS: 1.88 Total: 47.21 kcal Total: -81.94 2.66 -79.28 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. ZINC001601064985.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 -126.077 kcal (2) G-P(sol) polarization free energy of solvation -81.936 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -208.013 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.656 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -79.280 kcal (6) G-S(sol) free energy of system = (1) + (5) -205.357 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.93 seconds