Wall clock time and date at job start Sun Mar 29 2020 23:10:34 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 1.86800 * 120.00125 * 2 1 4 4 H 1.48498 * 109.47109 * 180.02562 * 3 2 1 5 5 H 1.48498 * 109.47278 * 300.00510 * 3 2 1 6 6 H 1.48507 * 109.46754 * 60.00341 * 3 2 1 7 7 C 1.37882 * 119.99710 * 180.02562 * 2 1 3 8 8 H 1.08002 * 119.99327 * 179.97438 * 7 2 1 9 9 C 1.50696 * 120.00200 * 359.97438 * 7 2 1 10 10 C 1.53000 * 109.47114 * 180.02562 * 9 7 2 11 11 C 1.50696 * 109.47110 * 180.02562 * 10 9 7 12 12 O 1.21281 * 120.00042 * 359.97438 * 11 10 9 13 13 N 1.34776 * 120.00079 * 180.02562 * 11 10 9 14 14 C 1.46496 * 120.00347 * 180.02562 * 13 11 10 15 15 C 1.53000 * 109.47378 * 179.97438 * 14 13 11 16 16 C 1.50706 * 109.47116 * 179.97438 * 15 14 13 17 17 C 1.33391 * 125.19937 * 90.00083 * 16 15 14 18 18 C 1.38423 * 114.92045 * 179.97438 * 17 16 15 19 19 C 1.33390 * 114.91979 * 359.97438 * 18 17 16 20 20 S 1.75878 * 125.20693 * 269.69344 * 16 15 14 21 21 H 0.96995 * 120.00177 * 359.97438 * 1 2 3 22 22 H 1.09005 * 109.46559 * 60.00446 * 9 7 2 23 23 H 1.08991 * 109.47398 * 300.00496 * 9 7 2 24 24 H 1.09000 * 109.47214 * 59.99838 * 10 9 7 25 25 H 1.09000 * 109.46955 * 300.00054 * 10 9 7 26 26 H 0.97001 * 120.00169 * 359.97438 * 13 11 10 27 27 H 1.09000 * 109.47518 * 59.99389 * 14 13 11 28 28 H 1.09008 * 109.47096 * 300.00066 * 14 13 11 29 29 H 1.09000 * 109.46884 * 60.00202 * 15 14 13 30 30 H 1.09000 * 109.46955 * 299.99518 * 15 14 13 31 31 H 1.07995 * 122.54106 * 359.95411 * 17 16 15 32 32 H 1.08001 * 122.53959 * 180.02562 * 18 17 16 33 33 H 1.07998 * 125.20163 * 180.02562 * 19 18 17 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 3.7092 1.3463 -0.0006 5 1 1.8904 2.3965 -1.2124 6 1 1.8904 2.3964 1.2126 7 6 2.0045 -1.1941 -0.0005 8 1 3.0845 -1.1941 -0.0010 9 6 1.2510 -2.4992 -0.0005 10 6 2.2452 -3.6621 -0.0005 11 6 1.4917 -4.9672 -0.0012 12 8 0.2789 -4.9672 -0.0011 13 7 2.1656 -6.1344 -0.0008 14 6 1.4331 -7.4031 -0.0019 15 6 2.4273 -8.5660 -0.0018 16 6 1.6738 -9.8712 -0.0024 17 6 1.2898 -10.5368 -1.0927 18 6 0.6091 -11.7167 -0.8462 19 6 0.4409 -12.0094 0.4442 20 16 1.1729 -10.7535 1.4342 21 1 -0.4850 0.8400 0.0004 22 1 0.6241 -2.5567 -0.8904 23 1 0.6247 -2.5571 0.8895 24 1 2.8719 -3.6044 0.8894 25 1 2.8719 -3.6044 -0.8905 26 1 3.1356 -6.1344 -0.0004 27 1 0.8074 -7.4606 -0.8926 28 1 0.8054 -7.4611 0.8874 29 1 3.0533 -8.5087 0.8887 30 1 3.0546 -8.5079 -0.8914 31 1 1.4941 -10.1820 -2.0920 32 1 0.2428 -12.3525 -1.6387 33 1 -0.0640 -12.8857 0.8231 RHF calculation, no. of doubly occupied orbitals= 44 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). S: (AM1): M.J.S. DEWAR, Y.-C. YUAN, INORGANIC CHEM., 29, 589 (1990) 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 ZINC000291013206.mol2 33 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sun Mar 29 2020 23:10:34 Heat of formation + Delta-G solvation = -48.463795 kcal Electronic energy + Delta-G solvation = -15236.099156 eV Core-core repulsion = 12579.751324 eV Total energy + Delta-G solvation = -2656.347832 eV No. of doubly occupied orbitals = 44 Molecular weight (most abundant/longest-lived isotopes) = 253.088 amu Computer time = 0.30 seconds Orbital eigenvalues (eV) -40.69479 -38.89494 -36.45515 -35.53330 -33.42651 -32.62641 -29.06741 -27.51360 -25.26082 -23.64730 -22.91238 -21.25131 -20.13418 -18.84610 -18.03094 -17.31535 -16.99518 -16.77750 -16.42494 -16.24795 -15.47303 -14.86784 -14.22546 -14.18275 -14.01033 -13.72185 -13.38521 -13.23774 -13.17563 -12.85114 -12.83508 -12.42772 -12.17191 -11.91067 -11.63114 -11.62358 -11.27668 -10.76734 -10.57409 -10.09778 -9.59243 -9.40165 -8.17376 -6.31420 0.05595 0.71397 1.09826 1.42974 1.44481 1.57804 1.71960 1.82359 2.27378 2.45901 3.15724 3.83355 3.95786 4.03831 4.14366 4.26310 4.45086 4.53708 4.57894 4.66988 4.72156 4.88077 4.97847 5.12071 5.23496 5.37688 5.45134 5.52771 5.59431 5.64443 5.86719 6.18466 6.62721 6.87704 7.35970 7.39189 8.95643 Molecular weight = 253.09amu Principal moments of inertia in cm(-1) A = 0.068576 B = 0.002981 C = 0.002960 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 408.205715 B = 9391.062960 C = 9458.189712 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 -0.009 4.009 3 Si 0.975 3.025 4 H -0.252 1.252 5 H -0.281 1.281 6 H -0.281 1.281 7 C -0.541 4.541 8 H 0.077 0.923 9 C 0.040 3.960 10 C -0.119 4.119 11 C 0.509 3.491 12 O -0.592 6.592 13 N -0.717 5.717 14 C 0.126 3.874 15 C -0.047 4.047 16 C -0.186 4.186 17 C -0.142 4.142 18 C -0.144 4.144 19 C -0.216 4.216 20 S 0.077 5.923 21 H 0.262 0.738 22 H -0.018 1.018 23 H -0.019 1.019 24 H 0.106 0.894 25 H 0.107 0.893 26 H 0.419 0.581 27 H 0.054 0.946 28 H 0.047 0.953 29 H 0.095 0.905 30 H 0.111 0.889 31 H 0.153 0.847 32 H 0.160 0.840 33 H 0.183 0.817 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 8.685 -24.799 -0.299 26.278 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 -0.579 5.579 2 C -0.206 4.206 3 Si 0.799 3.201 4 H -0.175 1.175 5 H -0.207 1.207 6 H -0.207 1.207 7 C -0.579 4.579 8 H 0.096 0.904 9 C 0.002 3.998 10 C -0.158 4.158 11 C 0.298 3.702 12 O -0.472 6.472 13 N -0.371 5.371 14 C 0.002 3.998 15 C -0.086 4.086 16 C -0.304 4.304 17 C -0.173 4.173 18 C -0.174 4.174 19 C -0.351 4.351 20 S 0.340 5.660 21 H 0.071 0.929 22 H 0.000 1.000 23 H -0.001 1.001 24 H 0.124 0.876 25 H 0.125 0.875 26 H 0.257 0.743 27 H 0.072 0.928 28 H 0.066 0.934 29 H 0.113 0.887 30 H 0.130 0.870 31 H 0.170 0.830 32 H 0.177 0.823 33 H 0.201 0.799 Dipole moment (debyes) X Y Z Total from point charges 7.833 -24.503 1.265 25.756 hybrid contribution -0.194 0.622 -1.418 1.561 sum 7.640 -23.881 -0.153 25.074 Atomic orbital electron populations 1.70190 1.08360 1.27734 1.51620 1.26168 0.95736 1.04044 0.94697 0.85255 0.79338 0.78017 0.77509 1.17486 1.20667 1.20688 1.21759 0.94057 0.91554 1.50538 0.90445 1.18707 0.93792 0.92625 0.94646 1.21639 0.99259 0.89859 1.05061 1.21398 0.87803 0.86898 0.74122 1.90662 1.16929 1.88457 1.51157 1.45848 1.11126 1.04477 1.75684 1.21271 0.94943 0.82369 1.01263 1.20243 0.95989 0.86614 1.05773 1.24413 1.08132 1.01879 0.95974 1.20474 1.00901 0.95912 0.99964 1.20476 1.01588 0.98236 0.97116 1.25949 1.08152 1.04293 0.96752 1.84446 1.54432 1.16681 1.10397 0.92884 1.00006 1.00072 0.87556 0.87471 0.74286 0.92779 0.93444 0.88652 0.87046 0.82951 0.82283 0.79928 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 -0.94 -60.11 13.29 21.45 0.28 -59.82 16 2 C -0.01 -0.54 5.46 84.66 0.46 -0.08 16 3 Si 0.98 44.44 29.54 68.60 2.03 46.46 16 4 H -0.25 -10.51 7.11 99.48 0.71 -9.80 16 5 H -0.28 -12.56 7.11 99.48 0.71 -11.86 16 6 H -0.28 -12.58 7.11 99.48 0.71 -11.88 16 7 C -0.54 -30.90 9.11 25.60 0.23 -30.67 16 8 H 0.08 4.00 7.74 -2.91 -0.02 3.98 16 9 C 0.04 2.25 4.26 29.85 0.13 2.37 16 10 C -0.12 -4.71 5.64 29.85 0.17 -4.55 16 11 C 0.51 19.79 7.83 87.66 0.69 20.47 16 12 O -0.59 -29.82 15.98 -3.03 -0.05 -29.87 16 13 N -0.72 -18.70 5.56 -463.07 -2.57 -21.28 16 14 C 0.13 3.06 5.66 86.38 0.49 3.55 16 15 C -0.05 -0.74 5.82 29.85 0.17 -0.56 16 16 C -0.19 -3.32 5.76 24.59 0.14 -3.18 16 17 C -0.14 -2.36 10.05 21.22 0.21 -2.14 16 18 C -0.14 -2.16 10.18 21.22 0.22 -1.95 16 19 C -0.22 -3.25 11.23 66.72 0.75 -2.50 16 20 S 0.08 1.36 23.33 -56.49 -1.32 0.04 16 21 H 0.26 15.68 8.31 -92.71 -0.77 14.91 16 22 H -0.02 -1.18 8.10 -2.38 -0.02 -1.20 16 23 H -0.02 -1.22 8.10 -2.39 -0.02 -1.24 16 24 H 0.11 3.67 8.14 -2.39 -0.02 3.65 16 25 H 0.11 3.68 8.14 -2.39 -0.02 3.66 16 26 H 0.42 7.32 8.47 -92.71 -0.79 6.54 16 27 H 0.05 1.48 8.14 -2.39 -0.02 1.47 16 28 H 0.05 1.35 8.14 -2.38 -0.02 1.33 16 29 H 0.10 1.26 8.14 -2.39 -0.02 1.24 16 30 H 0.11 1.30 8.14 -2.39 -0.02 1.28 16 31 H 0.15 2.07 8.06 -2.91 -0.02 2.04 16 32 H 0.16 1.66 8.06 -2.91 -0.02 1.63 16 33 H 0.18 1.84 8.06 -2.91 -0.02 1.82 16 Total: -1.00 -78.46 303.76 2.35 -76.11 By element: Atomic # 1 Polarization: 7.26 SS G_CDS: 0.32 Total: 7.58 kcal Atomic # 6 Polarization: -22.89 SS G_CDS: 3.66 Total: -19.23 kcal Atomic # 7 Polarization: -78.81 SS G_CDS: -2.29 Total: -81.10 kcal Atomic # 8 Polarization: -29.82 SS G_CDS: -0.05 Total: -29.87 kcal Atomic # 14 Polarization: 44.44 SS G_CDS: 2.03 Total: 46.46 kcal Atomic # 16 Polarization: 1.36 SS G_CDS: -1.32 Total: 0.04 kcal Total: -78.46 2.35 -76.11 kcal The number of atoms in the molecule is 33 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. ZINC000291013206.mol2 33 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 27.643 kcal (2) G-P(sol) polarization free energy of solvation -78.456 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -50.812 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.349 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.107 kcal (6) G-S(sol) free energy of system = (1) + (5) -48.464 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.31 seconds