Wall clock time and date at job start Tue Mar 31 2020 22:29:14 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 1.31413 * 1 3 3 Si 1.86803 * 119.99919 * 2 1 4 4 H 1.48498 * 109.47174 * 90.00147 * 3 2 1 5 5 H 1.48501 * 109.47062 * 210.00098 * 3 2 1 6 6 H 1.48504 * 109.46913 * 329.99897 * 3 2 1 7 7 C 1.38955 * 120.00236 * 179.97438 * 2 1 3 8 8 H 1.07999 * 119.99776 * 0.02562 * 7 2 1 9 9 N 1.37090 * 119.99992 * 179.97438 * 7 2 1 10 10 C 1.34784 * 119.99714 * 180.02562 * 9 7 2 11 11 O 1.21292 * 120.00111 * 359.97438 * 10 9 7 12 12 C 1.50696 * 119.99627 * 180.02562 * 10 9 7 13 13 N 1.46903 * 109.47177 * 179.97438 * 12 10 9 14 14 C 1.47446 * 110.99901 * 69.86829 * 13 12 10 15 15 C 1.54320 * 107.23299 * 123.26024 * 14 13 12 16 16 C 1.55138 * 103.01699 * 22.28557 * 15 14 13 17 17 H 1.08995 * 110.99411 * 82.43781 * 16 15 14 18 18 C 1.53003 * 110.99191 * 206.25593 * 16 15 14 19 19 N 1.46508 * 109.46895 * 293.54512 * 18 16 15 20 20 C 1.34769 * 119.99816 * 179.97438 * 19 18 16 21 21 O 1.21598 * 120.00561 * 0.02562 * 20 19 18 22 22 C 1.47452 * 119.99746 * 180.02562 * 20 19 18 23 23 C 1.37982 * 124.15515 * 180.02562 * 22 20 19 24 24 S 1.72106 * 104.03407 * 180.02562 * 23 22 20 25 25 N 1.56397 * 96.15184 * 359.97438 * 24 23 22 26 26 N 1.27422 * 109.87953 * 359.72596 * 25 24 23 27 27 C 1.47835 * 111.00330 * 190.71312 * 13 12 10 28 28 H 0.97001 * 119.99781 * 359.97438 * 1 2 3 29 29 H 0.96999 * 120.00238 * 359.97438 * 9 7 2 30 30 H 1.09005 * 109.47076 * 299.99278 * 12 10 9 31 31 H 1.09002 * 109.47753 * 59.99519 * 12 10 9 32 32 H 1.09003 * 109.89131 * 242.66576 * 14 13 12 33 33 H 1.08996 * 109.88887 * 3.69329 * 14 13 12 34 34 H 1.09001 * 110.70559 * 140.66086 * 15 14 13 35 35 H 1.08993 * 110.70859 * 263.90255 * 15 14 13 36 36 H 1.08995 * 109.46961 * 53.54237 * 18 16 15 37 37 H 1.08999 * 109.47485 * 173.54993 * 18 16 15 38 38 H 0.97003 * 119.99490 * 0.02562 * 19 18 16 39 39 H 1.08003 * 127.98404 * 359.95731 * 23 22 20 40 40 H 1.08997 * 110.37759 * 332.46336 * 27 13 12 41 41 H 1.09002 * 110.37700 * 94.80654 * 27 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 1.3141 0.0000 0.0000 3 14 2.2481 1.6178 0.0000 4 1 2.4957 2.0464 1.4001 5 1 3.5457 1.4402 -0.7001 6 1 1.4455 2.6527 -0.7001 7 6 2.0090 -1.2034 0.0005 8 1 1.4690 -2.1387 0.0005 9 7 3.3799 -1.2033 0.0000 10 6 4.0538 -2.3706 0.0000 11 8 3.4473 -3.4210 0.0009 12 6 5.5607 -2.3705 0.0000 13 7 6.0505 -3.7555 0.0006 14 6 5.7800 -4.4121 -1.2915 15 6 7.1327 -4.9083 -1.8443 16 6 8.0145 -5.0084 -0.5718 17 1 7.8367 -5.9465 -0.0463 18 6 9.4964 -4.8490 -0.9180 19 7 9.9344 -5.9898 -1.7262 20 6 11.2113 -6.0640 -2.1508 21 8 12.0000 -5.1844 -1.8628 22 6 11.6521 -7.2118 -2.9647 23 6 12.9359 -7.3746 -3.4434 24 16 12.8731 -8.8605 -4.3095 25 7 11.3617 -9.1521 -4.0327 26 7 10.8635 -8.2192 -3.3219 27 6 7.5056 -3.8028 0.2572 28 1 -0.4850 0.8401 0.0004 29 1 3.8649 -0.3633 -0.0011 30 1 5.9240 -1.8567 -0.8901 31 1 5.9242 -1.8566 0.8899 32 1 5.1072 -5.2570 -1.1445 33 1 5.3331 -3.6986 -1.9837 34 1 7.0219 -5.8856 -2.3141 35 1 7.5500 -4.1868 -2.5466 36 1 9.6406 -3.9275 -1.4819 37 1 10.0818 -4.8084 0.0005 38 1 9.3052 -6.6913 -1.9562 39 1 13.7841 -6.7200 -3.3071 40 1 7.9808 -2.8820 -0.0811 41 1 7.6990 -3.9630 1.3179 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 ZINC001753130553.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 22:29:14 Heat of formation + Delta-G solvation = -14.699134 kcal Electronic energy + Delta-G solvation = -25733.169706 eV Core-core repulsion = 21774.835046 eV Total energy + Delta-G solvation = -3958.334660 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) -42.15775 -40.90024 -40.31981 -39.29604 -36.31827 -35.85732 -33.78018 -33.46807 -32.85561 -30.52563 -28.95185 -28.15250 -26.73227 -25.53465 -24.07726 -22.30566 -21.84128 -21.59122 -21.13657 -20.24645 -20.01147 -18.01773 -17.68367 -17.46528 -17.14225 -16.96582 -16.77046 -16.47576 -16.16941 -15.95642 -15.59724 -15.29339 -14.88931 -14.70409 -14.58446 -14.23303 -14.10080 -13.67618 -13.61298 -13.35416 -13.16230 -13.02153 -12.90816 -12.41958 -12.31245 -12.08978 -11.97913 -11.91295 -11.62192 -11.53604 -11.49402 -11.27660 -11.18275 -10.91811 -10.39948 -10.23374 -10.21021 -9.18597 -8.40726 -6.01373 -0.94418 -0.04909 0.29999 0.52922 1.29932 1.35880 1.44366 1.97018 1.98109 1.99207 2.23287 2.66571 2.74662 3.14791 3.23088 3.59509 3.60895 3.70783 3.76992 3.90523 4.17310 4.29234 4.32595 4.36087 4.38182 4.46419 4.48940 4.69484 4.74880 4.77663 4.94217 5.06869 5.16772 5.21793 5.35829 5.53627 5.91321 6.01245 6.12898 6.19175 6.51526 6.61129 6.89617 6.93729 7.41132 7.99113 8.77065 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.030865 B = 0.001706 C = 0.001671 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 906.953826 B =16411.705632 C =16747.834458 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.936 5.936 2 C -0.017 4.017 3 Si 0.966 3.034 4 H -0.256 1.256 5 H -0.232 1.232 6 H -0.275 1.275 7 C -0.327 4.327 8 H 0.054 0.946 9 N -0.594 5.594 10 C 0.450 3.550 11 O -0.608 6.608 12 C 0.050 3.950 13 N -0.532 5.532 14 C 0.055 3.945 15 C -0.128 4.128 16 C -0.097 4.097 17 H 0.097 0.903 18 C 0.137 3.863 19 N -0.701 5.701 20 C 0.604 3.396 21 O -0.555 6.555 22 C -0.047 4.047 23 C -0.236 4.236 24 S 0.559 5.441 25 N -0.334 5.334 26 N -0.234 5.234 27 C 0.052 3.948 28 H 0.279 0.721 29 H 0.389 0.611 30 H 0.079 0.921 31 H 0.121 0.879 32 H 0.053 0.947 33 H 0.034 0.966 34 H 0.086 0.914 35 H 0.077 0.923 36 H 0.075 0.925 37 H 0.083 0.917 38 H 0.416 0.584 39 H 0.230 0.770 40 H 0.069 0.931 41 H 0.094 0.906 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 35.058 -11.940 -8.212 37.935 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 -0.576 5.576 2 C -0.215 4.215 3 Si 0.786 3.214 4 H -0.181 1.181 5 H -0.155 1.155 6 H -0.201 1.201 7 C -0.456 4.456 8 H 0.072 0.928 9 N -0.236 5.236 10 C 0.238 3.762 11 O -0.491 6.491 12 C -0.081 4.081 13 N -0.257 5.257 14 C -0.072 4.072 15 C -0.167 4.167 16 C -0.116 4.116 17 H 0.115 0.885 18 C 0.013 3.987 19 N -0.351 5.351 20 C 0.386 3.614 21 O -0.433 6.433 22 C -0.195 4.195 23 C -0.393 4.393 24 S 0.694 5.306 25 N -0.314 5.314 26 N -0.103 5.103 27 C -0.075 4.075 28 H 0.088 0.912 29 H 0.225 0.775 30 H 0.096 0.904 31 H 0.139 0.861 32 H 0.071 0.929 33 H 0.053 0.947 34 H 0.104 0.896 35 H 0.096 0.904 36 H 0.093 0.907 37 H 0.101 0.899 38 H 0.253 0.747 39 H 0.246 0.754 40 H 0.088 0.912 41 H 0.113 0.887 Dipole moment (debyes) X Y Z Total from point charges 34.166 -13.814 -8.405 37.800 hybrid contribution -0.567 2.358 0.100 2.427 sum 33.599 -11.456 -8.304 36.457 Atomic orbital electron populations 1.69810 1.08141 1.29194 1.50494 1.26125 0.96483 1.02728 0.96151 0.85353 0.79426 0.76683 0.79971 1.18076 1.15515 1.20057 1.18989 0.81534 0.94859 1.50261 0.92826 1.42040 1.05780 1.07577 1.68212 1.20973 0.90946 0.83298 0.81022 1.90541 1.71327 1.32739 1.54507 1.22025 0.90237 0.91516 1.04314 1.63126 1.15253 1.14676 1.32655 1.22614 0.97450 0.98404 0.88776 1.22866 0.93779 1.02649 0.97377 1.22423 0.92656 1.00295 0.96227 0.88514 1.21363 0.93387 0.88342 0.95558 1.45821 1.10446 1.26147 1.52723 1.16778 0.82574 0.83332 0.78673 1.90833 1.54143 1.39828 1.58520 1.22596 0.92229 0.98147 1.06524 1.29301 1.01927 1.06053 1.02008 1.81273 1.08494 1.06174 1.34624 1.78344 1.11221 1.23026 1.18857 1.71568 1.30752 0.98722 1.09295 1.23100 0.85279 0.97785 1.01369 0.91190 0.77547 0.90357 0.86106 0.92877 0.94690 0.89581 0.90419 0.90699 0.89918 0.74662 0.75366 0.91245 0.88735 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 -57.07 13.96 21.66 0.30 -56.77 16 2 C -0.02 -0.93 5.50 84.93 0.47 -0.46 16 3 Si 0.97 39.17 27.74 68.60 1.90 41.07 16 4 H -0.26 -9.84 7.11 99.48 0.71 -9.13 16 5 H -0.23 -7.90 6.52 99.48 0.65 -7.26 16 6 H -0.28 -11.09 7.11 99.48 0.71 -10.38 16 7 C -0.33 -19.46 10.16 84.04 0.85 -18.61 16 8 H 0.05 3.80 7.39 -2.91 -0.02 3.78 16 9 N -0.59 -28.45 5.09 -306.98 -1.56 -30.01 16 10 C 0.45 20.72 7.43 87.65 0.65 21.37 16 11 O -0.61 -34.37 15.12 -3.07 -0.05 -34.41 16 12 C 0.05 1.57 5.03 85.56 0.43 2.00 16 13 N -0.53 -15.85 4.85 -890.10 -4.32 -20.17 16 14 C 0.06 1.66 5.65 86.65 0.49 2.15 16 15 C -0.13 -2.50 6.12 31.77 0.19 -2.30 16 16 C -0.10 -1.58 3.10 -9.41 -0.03 -1.61 16 17 H 0.10 1.59 8.14 -2.39 -0.02 1.57 16 18 C 0.14 1.99 5.12 86.38 0.44 2.43 16 19 N -0.70 -10.94 5.40 -466.35 -2.52 -13.46 16 20 C 0.60 11.18 7.81 86.67 0.68 11.85 16 21 O -0.56 -12.95 16.80 -4.03 -0.07 -13.02 16 22 C -0.05 -0.73 6.87 41.36 0.28 -0.45 16 23 C -0.24 -2.09 11.21 67.76 0.76 -1.33 16 24 S 0.56 3.35 23.38 -56.49 -1.32 2.03 16 25 N -0.33 -5.11 12.49 37.02 0.46 -4.65 16 26 N -0.23 -4.12 11.24 -50.34 -0.57 -4.68 16 27 C 0.05 1.00 6.15 86.78 0.53 1.54 16 28 H 0.28 15.52 8.31 -92.71 -0.77 14.75 16 29 H 0.39 15.38 5.76 -92.71 -0.53 14.84 16 30 H 0.08 2.03 7.96 -2.38 -0.02 2.02 16 31 H 0.12 3.03 8.07 -2.39 -0.02 3.01 16 32 H 0.05 1.88 8.14 -2.39 -0.02 1.86 16 33 H 0.03 1.16 7.31 -2.39 -0.02 1.14 16 34 H 0.09 1.50 8.14 -2.39 -0.02 1.48 16 35 H 0.08 1.39 8.01 -2.39 -0.02 1.37 16 36 H 0.07 1.13 8.11 -2.39 -0.02 1.11 16 37 H 0.08 1.15 8.14 -2.39 -0.02 1.13 16 38 H 0.42 5.93 7.92 -92.71 -0.73 5.19 16 39 H 0.23 0.92 8.06 -2.91 -0.02 0.90 16 40 H 0.07 1.09 7.70 -2.39 -0.02 1.07 16 41 H 0.09 1.67 8.14 -2.39 -0.02 1.65 16 Total: -1.00 -85.16 362.25 -2.21 -87.37 By element: Atomic # 1 Polarization: 30.35 SS G_CDS: -0.23 Total: 30.12 kcal Atomic # 6 Polarization: 10.82 SS G_CDS: 5.75 Total: 16.57 kcal Atomic # 7 Polarization: -121.53 SS G_CDS: -8.20 Total: -129.73 kcal Atomic # 8 Polarization: -47.32 SS G_CDS: -0.11 Total: -47.43 kcal Atomic # 14 Polarization: 39.17 SS G_CDS: 1.90 Total: 41.07 kcal Atomic # 16 Polarization: 3.35 SS G_CDS: -1.32 Total: 2.03 kcal Total: -85.16 -2.21 -87.37 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. ZINC001753130553.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 72.672 kcal (2) G-P(sol) polarization free energy of solvation -85.158 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -12.487 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.212 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -87.371 kcal (6) G-S(sol) free energy of system = (1) + (5) -14.699 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.62 seconds