Wall clock time and date at job start Tue Mar 31 2020 22:30:05 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 1.31419 * 1 3 3 Si 1.86798 * 119.99796 * 2 1 4 4 H 1.48505 * 109.46760 * 240.00086 * 3 2 1 5 5 H 1.48497 * 109.47056 * 0.02562 * 3 2 1 6 6 H 1.48498 * 109.46976 * 120.00171 * 3 2 1 7 7 C 1.38946 * 120.00097 * 180.02562 * 2 1 3 8 8 H 1.07996 * 120.00240 * 180.02562 * 7 2 1 9 9 N 1.37095 * 119.99968 * 359.97438 * 7 2 1 10 10 C 1.34782 * 120.00161 * 179.97438 * 9 7 2 11 11 O 1.21291 * 119.99999 * 0.02562 * 10 9 7 12 12 C 1.50696 * 120.00263 * 180.02562 * 10 9 7 13 13 N 1.46895 * 109.47420 * 180.02562 * 12 10 9 14 14 C 1.46851 * 111.00462 * 169.99999 * 13 12 10 15 15 C 1.53037 * 109.52313 * 185.84106 * 14 13 12 16 16 C 1.53115 * 109.27795 * 300.81880 * 15 14 13 17 17 N 1.46504 * 109.52085 * 177.55947 * 16 15 14 18 18 C 1.34777 * 119.99854 * 154.99843 * 17 16 15 19 19 O 1.21573 * 119.99941 * 0.02562 * 18 17 16 20 20 C 1.47756 * 120.00007 * 180.27931 * 18 17 16 21 21 C 1.39348 * 124.11442 * 179.45385 * 20 18 17 22 22 N 1.30093 * 112.14298 * 179.77897 * 21 20 18 23 23 S 1.55924 * 108.75520 * 0.46219 * 22 21 20 24 24 N 1.31481 * 124.11320 * 359.74924 * 20 18 17 25 25 C 1.53112 * 109.16148 * 57.66012 * 16 15 14 26 26 C 1.46850 * 111.00346 * 294.21553 * 13 12 10 27 27 H 0.96993 * 120.00063 * 359.97438 * 1 2 3 28 28 H 0.97001 * 120.00636 * 0.02562 * 9 7 2 29 29 H 1.08998 * 109.47306 * 60.00191 * 12 10 9 30 30 H 1.08999 * 109.47103 * 300.00673 * 12 10 9 31 31 H 1.09002 * 109.45975 * 65.82225 * 14 13 12 32 32 H 1.09003 * 109.45122 * 305.85389 * 14 13 12 33 33 H 1.08998 * 109.49803 * 180.88149 * 15 14 13 34 34 H 1.08993 * 109.50241 * 60.76503 * 15 14 13 35 35 H 1.08998 * 109.52332 * 297.68641 * 16 15 14 36 36 H 0.97000 * 120.00410 * 335.00568 * 17 16 15 37 37 H 1.08002 * 123.92866 * 0.02562 * 21 20 18 38 38 H 1.09000 * 109.50486 * 62.28350 * 25 16 15 39 39 H 1.09002 * 109.50724 * 182.40669 * 25 16 15 40 40 H 1.09007 * 109.45371 * 294.17405 * 26 13 12 41 41 H 1.09003 * 109.46142 * 54.14463 * 26 13 12 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 1.3142 0.0000 0.0000 3 14 2.2481 1.6178 0.0000 4 1 3.1019 1.6964 -1.2126 5 1 1.2831 2.7464 0.0006 6 1 3.1019 1.6964 1.2125 7 6 2.0089 -1.2033 -0.0005 8 1 3.0889 -1.2033 -0.0001 9 7 1.3235 -2.3906 -0.0005 10 6 1.9974 -3.5578 -0.0016 11 8 3.2103 -3.5579 -0.0021 12 6 1.2439 -4.8629 -0.0022 13 7 2.1985 -5.9795 -0.0027 14 6 1.5143 -7.2570 0.2348 15 6 2.5509 -8.3744 0.3725 16 6 3.3847 -8.4512 -0.9094 17 7 4.4168 -9.4803 -0.7612 18 6 4.9280 -10.0841 -1.8524 19 8 4.5330 -9.7743 -2.9596 20 6 5.9645 -11.1264 -1.7025 21 6 6.5429 -11.8123 -2.7687 22 7 7.4319 -12.6753 -2.3721 23 16 7.5149 -12.6302 -0.8157 24 7 6.4493 -11.5235 -0.5467 25 6 4.0477 -7.0940 -1.1597 26 6 2.9679 -6.0136 -1.2530 27 1 -0.4850 0.8400 0.0004 28 1 0.3535 -2.3907 -0.0005 29 1 0.6170 -4.9201 -0.8919 30 1 0.6175 -4.9212 0.8880 31 1 0.8531 -7.4761 -0.6036 32 1 0.9284 -7.1900 1.1516 33 1 2.0421 -9.3249 0.5331 34 1 3.2038 -8.1628 1.2192 35 1 2.7379 -8.7023 -1.7501 36 1 4.7322 -9.7273 0.1222 37 1 6.2862 -11.6440 -3.8042 38 1 4.7243 -6.8622 -0.3371 39 1 4.6084 -7.1296 -2.0938 40 1 2.2998 -6.2386 -2.0844 41 1 3.4377 -5.0437 -1.4169 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001226220113.mol2 41 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 22:30:05 Heat of formation + Delta-G solvation = -31.278698 kcal Electronic energy + Delta-G solvation = -26230.831533 eV Core-core repulsion = 22271.777929 eV Total energy + Delta-G solvation = -3959.053604 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.62 seconds Orbital eigenvalues (eV) -42.21814 -40.90254 -40.15637 -38.93546 -36.30898 -35.76120 -34.72388 -33.29969 -32.61809 -31.81114 -29.09298 -28.21082 -26.38935 -24.73921 -24.22064 -23.20438 -21.54062 -21.04526 -20.87192 -20.39444 -19.85094 -18.82613 -17.70384 -17.36972 -17.16927 -16.74834 -16.55061 -16.31022 -16.24083 -15.74433 -15.57128 -15.31918 -15.26993 -14.82291 -14.37397 -14.32543 -13.76412 -13.48400 -13.28992 -13.17379 -12.94335 -12.79237 -12.56667 -12.42592 -12.29910 -12.28703 -12.17236 -12.11529 -12.10706 -11.86664 -11.59324 -11.42114 -11.20118 -10.37936 -10.23847 -10.06078 -9.95980 -9.16862 -8.44506 -5.92742 -0.67240 0.33124 0.43257 0.61878 1.40313 1.41830 1.52645 1.93033 1.98420 2.08751 2.29632 2.78910 3.22383 3.36945 3.40763 3.62184 3.77813 3.86509 4.00864 4.08020 4.20952 4.32275 4.38663 4.46731 4.49429 4.52706 4.58146 4.64019 4.77082 4.89891 4.99299 5.08553 5.13456 5.27138 5.29577 5.42556 5.42903 5.91216 6.10003 6.27896 6.36851 6.63594 6.97486 7.15538 7.59772 8.16004 8.72631 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.027098 B = 0.001872 C = 0.001819 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1033.022364 B =14953.289453 C =15391.437640 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.921 5.921 2 C -0.014 4.014 3 Si 0.992 3.008 4 H -0.273 1.273 5 H -0.271 1.271 6 H -0.272 1.272 7 C -0.331 4.331 8 H 0.078 0.922 9 N -0.575 5.575 10 C 0.440 3.560 11 O -0.614 6.614 12 C 0.058 3.942 13 N -0.533 5.533 14 C 0.056 3.944 15 C -0.111 4.111 16 C 0.151 3.849 17 N -0.693 5.693 18 C 0.603 3.397 19 O -0.554 6.554 20 C -0.005 4.005 21 C 0.087 3.913 22 N -0.601 5.601 23 S 0.799 5.201 24 N -0.561 5.561 25 C -0.112 4.112 26 C 0.061 3.939 27 H 0.277 0.723 28 H 0.396 0.604 29 H 0.066 0.934 30 H 0.115 0.885 31 H 0.045 0.955 32 H 0.099 0.901 33 H 0.102 0.898 34 H 0.079 0.921 35 H 0.083 0.917 36 H 0.418 0.582 37 H 0.222 0.778 38 H 0.063 0.937 39 H 0.058 0.942 40 H 0.031 0.969 41 H 0.062 0.938 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 7.293 -27.714 0.569 28.664 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 -0.562 5.562 2 C -0.214 4.214 3 Si 0.815 3.185 4 H -0.199 1.199 5 H -0.195 1.195 6 H -0.197 1.197 7 C -0.460 4.460 8 H 0.096 0.904 9 N -0.213 5.213 10 C 0.228 3.772 11 O -0.500 6.500 12 C -0.073 4.073 13 N -0.258 5.258 14 C -0.072 4.072 15 C -0.149 4.149 16 C 0.047 3.953 17 N -0.343 5.343 18 C 0.385 3.615 19 O -0.432 6.432 20 C -0.178 4.178 21 C -0.104 4.104 22 N -0.443 5.443 23 S 0.840 5.160 24 N -0.414 5.414 25 C -0.151 4.151 26 C -0.068 4.068 27 H 0.086 0.914 28 H 0.230 0.770 29 H 0.084 0.916 30 H 0.133 0.867 31 H 0.063 0.937 32 H 0.117 0.883 33 H 0.120 0.880 34 H 0.098 0.902 35 H 0.102 0.898 36 H 0.255 0.745 37 H 0.239 0.761 38 H 0.082 0.918 39 H 0.077 0.923 40 H 0.050 0.950 41 H 0.080 0.920 Dipole moment (debyes) X Y Z Total from point charges 9.190 -28.376 1.479 29.864 hybrid contribution -1.470 1.978 -1.611 2.944 sum 7.720 -26.399 -0.132 27.505 Atomic orbital electron populations 1.69666 1.06747 1.29253 1.50505 1.26018 0.96561 1.02345 0.96476 0.85009 0.77759 0.76815 0.78872 1.19864 1.19516 1.19739 1.19594 0.92629 0.84045 1.49766 0.90418 1.41938 1.09298 1.04689 1.65390 1.20839 0.88344 0.85998 0.82034 1.90464 1.15732 1.87763 1.56030 1.21719 0.93593 0.88426 1.03578 1.61503 1.25613 1.02855 1.35840 1.22196 0.95427 0.87205 1.02338 1.21806 0.97691 0.99233 0.96192 1.21076 0.88568 0.85688 1.00003 1.45806 1.40282 1.38739 1.09476 1.16980 0.80078 0.79840 0.84646 1.90835 1.61123 1.65106 1.26103 1.22238 1.03892 1.03733 0.87970 1.23868 0.91754 0.91154 1.03658 1.72179 1.24521 1.26967 1.20643 1.78827 1.22954 1.19927 0.94287 1.72261 1.17647 1.19225 1.32237 1.21798 0.97843 0.93816 1.01612 1.22017 0.95562 0.99686 0.89524 0.91373 0.77030 0.91645 0.86690 0.93671 0.88307 0.87968 0.90193 0.89850 0.74514 0.76137 0.91788 0.92347 0.95045 0.91967 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 -0.92 -49.90 13.05 21.66 0.28 -49.62 16 2 C -0.01 -0.78 5.50 84.92 0.47 -0.31 16 3 Si 0.99 43.34 29.55 68.60 2.03 45.36 16 4 H -0.27 -11.84 7.11 99.48 0.71 -11.14 16 5 H -0.27 -11.13 7.11 99.48 0.71 -10.42 16 6 H -0.27 -11.75 7.11 99.48 0.71 -11.04 16 7 C -0.33 -18.87 9.68 84.04 0.81 -18.06 16 8 H 0.08 4.73 7.16 -2.91 -0.02 4.71 16 9 N -0.58 -29.60 5.29 -306.99 -1.62 -31.23 16 10 C 0.44 20.94 7.46 87.65 0.65 21.59 16 11 O -0.61 -33.85 13.90 -3.07 -0.04 -33.90 16 12 C 0.06 1.97 5.45 85.56 0.47 2.43 16 13 N -0.53 -16.63 4.40 -900.92 -3.96 -20.59 16 14 C 0.06 1.18 5.46 86.33 0.47 1.65 16 15 C -0.11 -1.94 5.57 30.65 0.17 -1.77 16 16 C 0.15 3.26 2.52 45.07 0.11 3.38 16 17 N -0.69 -13.34 5.08 -445.12 -2.26 -15.60 16 18 C 0.60 13.33 7.79 86.76 0.68 14.01 16 19 O -0.55 -15.56 16.47 -3.95 -0.06 -15.62 16 20 C -0.01 -0.10 6.81 41.98 0.29 0.19 16 21 C 0.09 1.41 11.22 85.22 0.96 2.36 16 22 N -0.60 -9.02 11.41 -92.44 -1.05 -10.08 16 23 S 0.80 8.04 23.69 -56.49 -1.34 6.70 16 24 N -0.56 -8.48 11.00 -80.59 -0.89 -9.37 16 25 C -0.11 -3.16 5.67 30.64 0.17 -2.99 16 26 C 0.06 2.01 5.11 86.32 0.44 2.45 16 27 H 0.28 14.10 8.31 -92.71 -0.77 13.33 16 28 H 0.40 19.30 7.90 -92.71 -0.73 18.57 16 29 H 0.07 2.02 8.12 -2.39 -0.02 2.00 16 30 H 0.12 3.33 7.99 -2.39 -0.02 3.31 16 31 H 0.05 0.88 8.14 -2.39 -0.02 0.86 16 32 H 0.10 1.76 8.01 -2.39 -0.02 1.74 16 33 H 0.10 1.25 8.14 -2.39 -0.02 1.23 16 34 H 0.08 1.45 8.14 -2.39 -0.02 1.43 16 35 H 0.08 1.95 7.58 -2.39 -0.02 1.94 16 36 H 0.42 6.56 8.19 -92.71 -0.76 5.80 16 37 H 0.22 2.97 8.06 -2.91 -0.02 2.95 16 38 H 0.06 1.95 8.14 -2.39 -0.02 1.93 16 39 H 0.06 1.75 8.14 -2.39 -0.02 1.73 16 40 H 0.03 0.98 8.14 -2.38 -0.02 0.96 16 41 H 0.06 2.64 5.78 -2.39 -0.01 2.63 16 Total: -1.00 -72.90 359.34 -3.62 -76.52 By element: Atomic # 1 Polarization: 32.88 SS G_CDS: -0.39 Total: 32.48 kcal Atomic # 6 Polarization: 19.24 SS G_CDS: 5.69 Total: 24.93 kcal Atomic # 7 Polarization: -126.98 SS G_CDS: -9.50 Total: -136.48 kcal Atomic # 8 Polarization: -49.41 SS G_CDS: -0.11 Total: -49.52 kcal Atomic # 14 Polarization: 43.34 SS G_CDS: 2.03 Total: 45.36 kcal Atomic # 16 Polarization: 8.04 SS G_CDS: -1.34 Total: 6.70 kcal Total: -72.90 -3.62 -76.52 kcal The number of atoms in the molecule is 41 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. ZINC001226220113.mol2 41 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 45.243 kcal (2) G-P(sol) polarization free energy of solvation -72.897 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -27.654 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.624 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.521 kcal (6) G-S(sol) free energy of system = (1) + (5) -31.279 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.62 seconds