Wall clock time and date at job start Tue Mar 31 2020 06:07:33 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 1.31627 * 1 3 3 Si 1.86803 * 119.99882 * 2 1 4 4 H 1.48503 * 109.46964 * 269.99897 * 3 2 1 5 5 H 1.48496 * 109.47163 * 29.99782 * 3 2 1 6 6 H 1.48506 * 109.47253 * 150.00170 * 3 2 1 7 7 C 1.38805 * 120.00522 * 180.02562 * 2 1 3 8 8 H 1.08003 * 119.99511 * 359.97438 * 7 2 1 9 9 S 1.76191 * 120.00294 * 180.02562 * 7 2 1 10 10 C 1.80998 * 100.00112 * 179.97438 * 9 7 2 11 11 C 1.50697 * 109.47393 * 180.02562 * 10 9 7 12 12 O 1.21278 * 119.99879 * 359.97438 * 11 10 9 13 13 N 1.34777 * 119.99981 * 180.02562 * 11 10 9 14 14 C 1.46505 * 119.99797 * 179.97438 * 13 11 10 15 15 H 1.08992 * 109.47276 * 325.00066 * 14 13 11 16 16 C 1.53002 * 109.46958 * 84.99979 * 14 13 11 17 17 C 1.52997 * 109.46978 * 180.02562 * 16 14 13 18 18 C 1.53006 * 109.47164 * 299.99874 * 17 16 14 19 19 H 1.08998 * 109.46505 * 299.99708 * 18 17 16 20 20 N 1.46500 * 109.47249 * 180.02562 * 18 17 16 21 21 C 1.34770 * 120.00256 * 84.99846 * 20 18 17 22 22 O 1.21356 * 120.00254 * 359.97438 * 21 20 18 23 23 C 1.49449 * 120.00167 * 180.02562 * 21 20 18 24 24 N 1.34779 * 120.00353 * 179.97438 * 23 21 20 25 25 O 1.21355 * 120.00035 * 359.97438 * 23 21 20 26 26 C 1.52997 * 109.47127 * 59.99836 * 18 17 16 27 27 C 1.52996 * 109.46998 * 204.99519 * 14 13 11 28 28 H 0.97001 * 119.99838 * 0.02562 * 1 2 3 29 29 H 1.08998 * 109.47197 * 59.99783 * 10 9 7 30 30 H 1.09005 * 109.47180 * 300.00118 * 10 9 7 31 31 H 0.97001 * 120.00457 * 359.97438 * 13 11 10 32 32 H 1.09002 * 109.47097 * 299.99818 * 16 14 13 33 33 H 1.09001 * 109.47142 * 59.99782 * 16 14 13 34 34 H 1.09001 * 109.47375 * 59.99908 * 17 16 14 35 35 H 1.09000 * 109.47140 * 179.97438 * 17 16 14 36 36 H 0.97005 * 119.99374 * 264.99912 * 20 18 17 37 37 H 0.97005 * 119.99613 * 0.02562 * 24 23 21 38 38 H 0.96997 * 120.00252 * 179.97438 * 24 23 21 39 39 H 1.09002 * 109.47153 * 180.02562 * 26 18 17 40 40 H 1.09001 * 109.46832 * 60.00321 * 26 18 17 41 41 H 1.09004 * 109.47368 * 60.00227 * 27 14 13 42 42 H 1.09001 * 109.47372 * 300.00383 * 27 14 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 1.3163 0.0000 0.0000 3 14 2.2503 1.6178 0.0000 4 1 2.4978 2.0464 -1.4001 5 1 1.4477 2.6527 0.7000 6 1 3.5479 1.4403 0.7000 7 6 2.0104 -1.2020 -0.0005 8 1 1.4704 -2.1374 -0.0005 9 16 3.7723 -1.2020 0.0001 10 6 4.0867 -2.9844 -0.0001 11 6 5.5732 -3.2324 0.0010 12 8 6.3441 -2.2962 0.0015 13 7 6.0458 -4.4946 0.0005 14 6 7.4909 -4.7356 0.0011 15 1 7.9880 -3.9647 -0.5876 16 6 8.0139 -4.6963 1.4384 17 6 9.5231 -4.9473 1.4389 18 6 9.8120 -6.3203 0.8284 19 1 9.3152 -7.0914 1.4172 20 7 11.2571 -6.5610 0.8295 21 6 11.8553 -7.0663 1.9263 22 8 11.1970 -7.3215 2.9134 23 6 13.3296 -7.3112 1.9276 24 7 13.9280 -7.8161 3.0247 25 8 13.9880 -7.0556 0.9408 26 6 9.2889 -6.3596 -0.6088 27 6 7.7791 -6.1087 -0.6091 28 1 -0.4850 0.8401 -0.0004 29 1 3.6441 -3.4313 -0.8903 30 1 3.6434 -3.4317 0.8896 31 1 5.4292 -5.2434 -0.0002 32 1 7.8085 -3.7181 1.8731 33 1 7.5167 -5.4672 2.0272 34 1 10.0200 -4.1762 0.8503 35 1 9.8958 -4.9189 2.4628 36 1 11.7833 -6.3566 0.0406 37 1 13.4016 -8.0208 3.8134 38 1 14.8848 -7.9754 3.0253 39 1 9.4943 -7.3378 -1.0436 40 1 9.7858 -5.5884 -1.1975 41 1 7.4065 -6.1368 -1.6331 42 1 7.2819 -6.8796 -0.0203 RHF calculation, no. of doubly occupied orbitals= 59 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 ZINC001688833482.mol2 42 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 06:07:33 Heat of formation + Delta-G solvation = -159.333730 kcal Electronic energy + Delta-G solvation = -24945.153477 eV Core-core repulsion = 21049.168900 eV Total energy + Delta-G solvation = -3895.984576 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 329.124 amu Computer time = 12.72 seconds Orbital eigenvalues (eV) -41.79124 -40.96831 -39.78273 -38.78957 -36.24523 -34.78351 -34.66684 -33.99667 -31.84319 -31.33176 -29.12023 -27.83813 -26.03216 -23.90049 -23.19764 -21.62454 -21.51366 -21.09927 -19.90920 -19.55095 -18.32212 -17.82772 -17.59656 -17.15842 -17.09000 -16.85860 -16.70368 -16.44447 -15.82126 -15.48195 -15.25738 -15.02530 -14.98549 -14.78590 -14.55323 -14.13397 -13.84245 -13.47997 -13.34458 -13.20681 -13.03703 -12.98979 -12.78770 -12.52581 -12.40847 -12.14361 -11.86661 -11.52796 -11.49252 -11.16913 -10.97473 -10.91504 -10.78650 -10.52601 -10.28220 -10.04785 -8.98826 -8.51356 -6.21817 0.31643 1.00103 1.31250 1.43068 1.47422 1.57037 1.59787 2.11989 2.23372 2.27699 2.72476 2.86637 2.86920 3.56538 3.63793 3.64651 3.87538 3.97753 4.12362 4.15523 4.26243 4.36986 4.38355 4.45939 4.48967 4.67042 4.73914 4.94511 5.07367 5.12737 5.13436 5.19782 5.29072 5.36777 5.53373 5.55234 5.70935 5.91479 6.11682 6.28322 6.52576 6.78400 6.94000 7.00218 7.24653 8.60941 Molecular weight = 329.12amu Principal moments of inertia in cm(-1) A = 0.034807 B = 0.001899 C = 0.001868 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 804.234866 B =14738.618841 C =14987.745465 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.917 5.917 2 C 0.045 3.955 3 Si 0.914 3.086 4 H -0.262 1.262 5 H -0.260 1.260 6 H -0.238 1.238 7 C -0.529 4.529 8 H 0.062 0.938 9 S -0.178 6.178 10 C -0.112 4.112 11 C 0.536 3.464 12 O -0.562 6.562 13 N -0.708 5.708 14 C 0.143 3.857 15 H 0.070 0.930 16 C -0.122 4.122 17 C -0.120 4.120 18 C 0.146 3.854 19 H 0.092 0.908 20 N -0.685 5.685 21 C 0.505 3.495 22 O -0.541 6.541 23 C 0.514 3.486 24 N -0.802 5.802 25 O -0.551 6.551 26 C -0.116 4.116 27 C -0.113 4.113 28 H 0.277 0.723 29 H 0.114 0.886 30 H 0.112 0.888 31 H 0.417 0.583 32 H 0.043 0.957 33 H 0.077 0.923 34 H 0.067 0.933 35 H 0.058 0.942 36 H 0.420 0.580 37 H 0.422 0.578 38 H 0.422 0.578 39 H 0.097 0.903 40 H 0.080 0.920 41 H 0.089 0.911 42 H 0.090 0.910 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 26.453 -21.305 2.434 34.052 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 -0.554 5.554 2 C -0.160 4.160 3 Si 0.736 3.264 4 H -0.187 1.187 5 H -0.184 1.184 6 H -0.162 1.162 7 C -0.677 4.677 8 H 0.081 0.919 9 S 0.049 5.951 10 C -0.263 4.263 11 C 0.321 3.679 12 O -0.440 6.440 13 N -0.361 5.361 14 C 0.039 3.961 15 H 0.088 0.912 16 C -0.161 4.161 17 C -0.159 4.159 18 C 0.042 3.958 19 H 0.110 0.890 20 N -0.338 5.338 21 C 0.285 3.715 22 O -0.419 6.419 23 C 0.293 3.707 24 N -0.369 5.369 25 O -0.429 6.429 26 C -0.154 4.154 27 C -0.151 4.151 28 H 0.086 0.914 29 H 0.132 0.868 30 H 0.130 0.870 31 H 0.254 0.746 32 H 0.062 0.938 33 H 0.096 0.904 34 H 0.086 0.914 35 H 0.077 0.923 36 H 0.257 0.743 37 H 0.254 0.746 38 H 0.257 0.743 39 H 0.116 0.884 40 H 0.099 0.901 41 H 0.108 0.892 42 H 0.109 0.891 Dipole moment (debyes) X Y Z Total from point charges 27.350 -19.657 2.432 33.769 hybrid contribution -1.144 -0.406 0.228 1.235 sum 26.206 -20.063 2.660 33.111 Atomic orbital electron populations 1.70015 1.07278 1.28988 1.49167 1.25561 0.95271 1.02232 0.92929 0.85870 0.80649 0.79649 0.80213 1.18661 1.18399 1.16156 1.22470 0.90308 0.96679 1.58196 0.91931 1.84717 1.06362 1.06440 1.97585 1.23289 0.96160 0.99433 1.07431 1.19937 0.89240 0.83602 0.75098 1.90688 1.59259 1.43887 1.50216 1.45815 1.08558 1.06673 1.75071 1.21113 0.79645 0.99022 0.96356 0.91166 1.21802 0.95543 1.01728 0.97018 1.21798 0.95598 0.97237 1.01313 1.21201 0.78785 0.97124 0.98685 0.88962 1.45860 1.09808 1.61928 1.16155 1.20226 0.88582 0.78664 0.83995 1.90786 1.65940 1.51568 1.33575 1.20076 0.88399 0.78166 0.84082 1.43458 1.13948 1.63610 1.15881 1.90825 1.66113 1.51736 1.34247 1.21741 0.95185 1.04517 0.94001 1.21716 0.96225 0.94414 1.02751 0.91392 0.86766 0.86962 0.74569 0.93795 0.90398 0.91423 0.92304 0.74258 0.74554 0.74318 0.88410 0.90140 0.89207 0.89148 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 -55.74 13.97 21.65 0.30 -55.44 16 2 C 0.05 2.67 5.50 84.86 0.47 3.13 16 3 Si 0.91 45.06 27.74 68.60 1.90 46.96 16 4 H -0.26 -12.58 7.11 99.48 0.71 -11.87 16 5 H -0.26 -12.01 7.11 99.48 0.71 -11.31 16 6 H -0.24 -11.72 6.74 99.48 0.67 -11.05 16 7 C -0.53 -30.71 10.04 67.96 0.68 -30.02 16 8 H 0.06 3.82 8.03 -2.91 -0.02 3.80 16 9 S -0.18 -8.92 18.55 -56.49 -1.05 -9.97 16 10 C -0.11 -4.11 6.16 71.23 0.44 -3.67 16 11 C 0.54 17.63 7.81 87.66 0.68 18.32 16 12 O -0.56 -23.38 15.52 -3.02 -0.05 -23.43 16 13 N -0.71 -15.10 5.08 -442.54 -2.25 -17.34 16 14 C 0.14 2.60 2.45 44.99 0.11 2.71 16 15 H 0.07 1.61 7.58 -2.39 -0.02 1.60 16 16 C -0.12 -2.33 5.49 30.59 0.17 -2.17 16 17 C -0.12 -1.98 5.49 30.60 0.17 -1.81 16 18 C 0.15 1.76 2.45 44.99 0.11 1.87 16 19 H 0.09 1.24 7.58 -2.39 -0.02 1.22 16 20 N -0.69 -8.35 5.07 -443.87 -2.25 -10.60 16 21 C 0.50 7.69 7.85 87.27 0.69 8.38 16 22 O -0.54 -10.59 16.14 -3.27 -0.05 -10.64 16 23 C 0.51 7.06 8.16 87.27 0.71 7.78 16 24 N -0.80 -5.43 8.87 -174.49 -1.55 -6.98 16 25 O -0.55 -10.42 17.31 -3.26 -0.06 -10.48 16 26 C -0.12 -0.94 5.39 30.61 0.17 -0.78 16 27 C -0.11 -1.10 5.39 30.61 0.17 -0.93 16 28 H 0.28 15.56 8.31 -92.71 -0.77 14.79 16 29 H 0.11 3.80 8.14 -2.40 -0.02 3.78 16 30 H 0.11 3.79 8.14 -2.39 -0.02 3.77 16 31 H 0.42 6.07 8.60 -92.71 -0.80 5.27 16 32 H 0.04 1.14 8.14 -2.39 -0.02 1.12 16 33 H 0.08 1.33 8.14 -2.39 -0.02 1.31 16 34 H 0.07 1.15 8.14 -2.39 -0.02 1.13 16 35 H 0.06 1.13 8.14 -2.39 -0.02 1.11 16 36 H 0.42 4.11 8.08 -92.70 -0.75 3.36 16 37 H 0.42 1.86 8.30 -92.70 -0.77 1.09 16 38 H 0.42 1.20 8.93 -92.71 -0.83 0.37 16 39 H 0.10 0.49 8.14 -2.39 -0.02 0.47 16 40 H 0.08 0.64 8.14 -2.39 -0.02 0.62 16 41 H 0.09 0.77 8.14 -2.39 -0.02 0.75 16 42 H 0.09 0.64 8.14 -2.39 -0.02 0.62 16 Total: -1.00 -80.59 368.23 -2.57 -83.16 By element: Atomic # 1 Polarization: 14.05 SS G_CDS: -2.08 Total: 11.96 kcal Atomic # 6 Polarization: -1.76 SS G_CDS: 4.56 Total: 2.80 kcal Atomic # 7 Polarization: -84.62 SS G_CDS: -5.74 Total: -90.36 kcal Atomic # 8 Polarization: -44.39 SS G_CDS: -0.16 Total: -44.55 kcal Atomic # 14 Polarization: 45.06 SS G_CDS: 1.90 Total: 46.96 kcal Atomic # 16 Polarization: -8.92 SS G_CDS: -1.05 Total: -9.97 kcal Total: -80.59 -2.57 -83.16 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. ZINC001688833482.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 -76.172 kcal (2) G-P(sol) polarization free energy of solvation -80.591 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -156.763 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.570 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -83.162 kcal (6) G-S(sol) free energy of system = (1) + (5) -159.334 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 12.72 seconds