Wall clock time and date at job start Sat Apr 11 2020 05:54:01 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 1.31515 * 1 3 3 Si 1.86794 * 119.99877 * 2 1 4 4 H 1.48504 * 109.47406 * 269.99960 * 3 2 1 5 5 H 1.48500 * 109.47527 * 30.00069 * 3 2 1 6 6 H 1.48505 * 109.46936 * 149.99966 * 3 2 1 7 7 C 1.37878 * 119.99865 * 180.02562 * 2 1 3 8 8 H 1.07999 * 119.99674 * 179.97438 * 7 2 1 9 9 C 1.50699 * 119.99976 * 359.97438 * 7 2 1 10 10 H 1.09007 * 109.49755 * 60.06749 * 9 7 2 11 11 C 1.53035 * 109.50182 * 300.00365 * 9 7 2 12 12 C 1.53042 * 109.53818 * 178.68354 * 11 9 7 13 13 C 1.53188 * 109.31458 * 61.36361 * 12 11 9 14 14 N 1.46923 * 108.77493 * 305.36471 * 13 12 11 15 15 S 1.65596 * 120.63147 * 233.58230 * 14 13 12 16 16 O 1.42098 * 106.40513 * 329.93969 * 15 14 13 17 17 O 1.42102 * 106.40350 * 197.01614 * 15 14 13 18 18 C 1.76200 * 107.21686 * 83.47766 * 15 14 13 19 19 C 1.38633 * 120.47175 * 12.45517 * 18 15 14 20 20 C 1.38578 * 118.49342 * 180.02562 * 19 18 15 21 21 C 1.38630 * 119.35491 * 0.02562 * 20 19 18 22 22 N 1.31472 * 120.90367 * 0.26964 * 21 20 19 23 23 C 1.32778 * 121.64523 * 359.43988 * 22 21 20 24 24 C 1.48067 * 119.72954 * 180.28674 * 23 22 21 25 25 O 1.21431 * 120.00003 * 174.32995 * 24 23 22 26 26 O 1.34679 * 119.99952 * 354.33299 * 24 23 22 27 27 C 1.46935 * 118.73824 * 53.86159 * 14 13 12 28 28 H 0.97000 * 120.00089 * 0.02562 * 1 2 3 29 29 H 1.09001 * 109.45810 * 58.66151 * 11 9 7 30 30 H 1.08997 * 109.45032 * 298.69802 * 11 9 7 31 31 H 1.09000 * 109.49713 * 301.41014 * 12 11 9 32 32 H 1.09007 * 109.49451 * 181.31478 * 12 11 9 33 33 H 1.08990 * 109.58882 * 185.57605 * 13 12 11 34 34 H 1.09004 * 109.58572 * 65.15446 * 13 12 11 35 35 H 1.08001 * 120.75532 * 359.97438 * 19 18 15 36 36 H 1.07998 * 120.32294 * 180.02562 * 20 19 18 37 37 H 1.08004 * 119.54497 * 179.97438 * 21 20 19 38 38 H 0.96696 * 116.99798 * 179.97438 * 26 24 23 39 39 H 1.08996 * 109.58548 * 65.92471 * 27 14 13 40 40 H 1.09000 * 109.58342 * 186.35224 * 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 1.3152 0.0000 0.0000 3 14 2.2491 1.6177 0.0000 4 1 2.4966 2.0465 -1.4001 5 1 1.4466 2.6527 0.7000 6 1 3.5467 1.4401 0.7001 7 6 2.0045 -1.1941 -0.0005 8 1 3.0845 -1.1940 -0.0010 9 6 1.2510 -2.4991 -0.0005 10 1 0.6247 -2.5576 -0.8908 11 6 0.3713 -2.5812 1.2490 12 6 -0.4191 -3.8916 1.2334 13 6 0.5569 -5.0722 1.2509 14 7 1.4997 -4.9229 0.1340 15 16 1.7177 -6.1503 -0.9560 16 8 1.4828 -7.3607 -0.2496 17 8 2.9333 -5.8711 -1.6370 18 6 0.4337 -6.0170 -2.1552 19 6 -0.3534 -4.8775 -2.2189 20 6 -1.3520 -4.8165 -3.1777 21 6 -1.5342 -5.8879 -4.0384 22 7 -0.7771 -6.9593 -3.9525 23 6 0.1940 -7.0558 -3.0521 24 6 1.0254 -8.2798 -2.9970 25 8 1.9788 -8.3329 -2.2469 26 8 0.7241 -9.3342 -3.7789 27 6 2.2501 -3.6661 0.0061 28 1 -0.4850 0.8400 -0.0004 29 1 -0.3212 -1.7395 1.2615 30 1 1.0003 -2.5470 2.1386 31 1 -1.0296 -3.9375 0.3316 32 1 -1.0628 -3.9386 2.1119 33 1 0.0041 -6.0049 1.1402 34 1 1.1048 -5.0795 2.1932 35 1 -0.1925 -4.0564 -1.5361 36 1 -1.9822 -3.9427 -3.2538 37 1 -2.3118 -5.8438 -4.7866 38 1 1.2960 -10.1107 -3.7083 39 1 2.9332 -3.5610 0.8489 40 1 2.8147 -3.6709 -0.9263 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 ZINC001601064422.mol2 40 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sat Apr 11 2020 05:54:01 Heat of formation + Delta-G solvation = -138.695405 kcal Electronic energy + Delta-G solvation = -28904.675422 eV Core-core repulsion = 24810.952467 eV Total energy + Delta-G solvation = -4093.722955 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 340.097 amu Computer time = 0.62 seconds Orbital eigenvalues (eV) -42.16644 -40.76433 -39.39830 -38.33060 -37.63560 -36.84862 -35.20440 -34.08201 -33.10608 -32.72138 -31.85384 -27.01585 -26.96662 -25.35202 -25.21209 -23.36731 -23.25856 -21.23131 -19.92768 -19.89369 -19.39937 -18.58522 -18.47150 -18.10137 -17.42822 -17.24405 -16.94881 -16.51434 -16.40134 -15.49220 -15.23956 -15.14322 -15.06168 -14.87055 -14.48461 -14.39484 -14.33121 -14.07140 -13.82900 -13.35218 -13.21500 -12.89304 -12.84698 -12.76869 -12.67523 -12.61943 -12.50331 -12.19047 -11.88270 -11.78947 -11.60733 -11.55986 -11.07311 -10.97973 -10.78053 -10.71811 -10.37250 -9.84214 -8.04548 -6.16070 -1.16192 -0.78516 -0.34919 0.99141 1.39979 1.45115 1.48947 1.56358 1.83810 2.30073 2.48398 2.57786 2.92435 3.23157 3.32873 3.49700 3.64429 3.68320 3.85681 3.99867 4.17570 4.24308 4.34046 4.48768 4.57138 4.60555 4.75831 4.79254 4.88659 4.95003 5.08278 5.14938 5.20936 5.29488 5.36611 5.52810 5.67809 5.74385 6.02631 6.19647 6.22780 6.44338 6.61127 6.92156 7.51138 8.98608 Molecular weight = 340.10amu Principal moments of inertia in cm(-1) A = 0.016911 B = 0.004136 C = 0.003836 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1655.289915 B = 6768.073301 C = 7298.277398 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.905 5.905 2 C 0.027 3.973 3 Si 0.942 3.058 4 H -0.280 1.280 5 H -0.285 1.285 6 H -0.274 1.274 7 C -0.536 4.536 8 H 0.051 0.949 9 C 0.038 3.962 10 H 0.019 0.981 11 C -0.105 4.105 12 C -0.129 4.129 13 C 0.117 3.883 14 N -0.995 5.995 15 S 2.712 3.288 16 O -0.962 6.962 17 O -0.982 6.982 18 C -0.681 4.681 19 C -0.011 4.011 20 C -0.134 4.134 21 C 0.145 3.855 22 N -0.451 5.451 23 C 0.157 3.843 24 C 0.529 3.471 25 O -0.518 6.518 26 O -0.469 6.469 27 C 0.126 3.874 28 H 0.261 0.739 29 H 0.070 0.930 30 H 0.032 0.968 31 H 0.061 0.939 32 H 0.086 0.914 33 H 0.093 0.907 34 H 0.084 0.916 35 H 0.163 0.837 36 H 0.193 0.807 37 H 0.227 0.773 38 H 0.441 0.559 39 H 0.069 0.931 40 H 0.072 0.928 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -7.304 -11.877 -5.457 14.973 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 -0.545 5.545 2 C -0.173 4.173 3 Si 0.769 3.231 4 H -0.206 1.206 5 H -0.210 1.210 6 H -0.199 1.199 7 C -0.575 4.575 8 H 0.070 0.930 9 C 0.018 3.982 10 H 0.037 0.963 11 C -0.144 4.144 12 C -0.168 4.168 13 C -0.008 4.008 14 N -0.836 5.836 15 S 2.799 3.201 16 O -0.952 6.952 17 O -0.972 6.972 18 C -0.768 4.768 19 C -0.036 4.036 20 C -0.154 4.154 21 C -0.013 4.013 22 N -0.164 5.164 23 C 0.018 3.982 24 C 0.371 3.629 25 O -0.408 6.408 26 O -0.282 6.282 27 C 0.002 3.998 28 H 0.070 0.930 29 H 0.088 0.912 30 H 0.051 0.949 31 H 0.080 0.920 32 H 0.104 0.896 33 H 0.111 0.889 34 H 0.102 0.898 35 H 0.181 0.819 36 H 0.211 0.789 37 H 0.243 0.757 38 H 0.305 0.695 39 H 0.088 0.912 40 H 0.090 0.910 Dipole moment (debyes) X Y Z Total from point charges -6.921 -12.836 -5.869 15.720 hybrid contribution 0.646 1.582 0.328 1.740 sum -6.275 -11.254 -5.541 14.026 Atomic orbital electron populations 1.69938 1.06541 1.27025 1.50946 1.25469 0.95594 1.01404 0.94803 0.85800 0.78898 0.80396 0.77969 1.20599 1.21041 1.19870 1.21444 0.93207 0.91863 1.50965 0.93040 1.19084 0.93162 0.90873 0.95069 0.96277 1.21432 0.98847 0.96585 0.97508 1.21995 0.97526 0.94681 1.02566 1.21693 0.90629 0.99274 0.89169 1.57781 1.54725 1.31280 1.39771 1.01558 0.73377 0.72239 0.72878 1.93514 1.85934 1.43128 1.72636 1.93500 1.42939 1.85394 1.75338 1.32036 1.22589 1.02583 1.19625 1.21994 0.90967 0.93981 0.96688 1.23128 0.97080 1.01807 0.93341 1.24105 0.95055 0.86007 0.96121 1.67826 1.03193 1.27004 1.18333 1.19441 0.94806 0.90457 0.93480 1.20667 0.81497 0.83921 0.76781 1.90953 1.29299 1.82177 1.38336 1.84561 1.58623 1.25862 1.59110 1.21812 0.94402 0.81888 1.01744 0.92968 0.91187 0.94872 0.91993 0.89575 0.88863 0.89758 0.81929 0.78939 0.75710 0.69535 0.91217 0.90998 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 -0.91 -46.45 11.31 21.45 0.24 -46.21 16 2 C 0.03 1.37 5.30 84.65 0.45 1.82 16 3 Si 0.94 40.85 29.54 68.60 2.03 42.87 16 4 H -0.28 -12.03 7.11 99.48 0.71 -11.32 16 5 H -0.28 -12.16 7.11 99.48 0.71 -11.45 16 6 H -0.27 -11.79 7.11 99.48 0.71 -11.09 16 7 C -0.54 -26.94 8.56 25.60 0.22 -26.73 16 8 H 0.05 2.60 7.74 -2.91 -0.02 2.58 16 9 C 0.04 1.66 1.99 -11.32 -0.02 1.64 16 10 H 0.02 0.87 6.15 -2.38 -0.01 0.86 16 11 C -0.11 -4.24 4.96 30.62 0.15 -4.09 16 12 C -0.13 -3.93 5.95 30.67 0.18 -3.75 16 13 C 0.12 3.48 6.35 86.36 0.55 4.03 16 14 N -0.99 -35.05 2.34 -512.29 -1.20 -36.24 16 15 S 2.71 103.23 3.99 -56.49 -0.23 103.00 16 16 O -0.96 -38.87 14.54 -118.55 -1.72 -40.59 16 17 O -0.98 -43.57 16.00 -121.02 -1.94 -45.50 16 18 C -0.68 -22.32 5.88 22.62 0.13 -22.19 16 19 C -0.01 -0.31 9.61 22.45 0.22 -0.09 16 20 C -0.13 -2.60 10.12 22.44 0.23 -2.37 16 21 C 0.14 2.57 11.18 84.84 0.95 3.52 16 22 N -0.45 -11.54 10.12 -184.94 -1.87 -13.41 16 23 C 0.16 4.92 6.75 41.87 0.28 5.20 16 24 C 0.53 16.53 8.18 70.43 0.58 17.11 16 25 O -0.52 -19.50 12.60 29.94 0.38 -19.12 16 26 O -0.47 -10.15 13.25 -55.88 -0.74 -10.89 16 27 C 0.13 5.01 5.66 86.51 0.49 5.50 16 28 H 0.26 12.89 8.31 -92.71 -0.77 12.12 16 29 H 0.07 3.22 6.04 -2.39 -0.01 3.20 16 30 H 0.03 1.34 8.14 -2.39 -0.02 1.32 16 31 H 0.06 1.80 6.83 -2.39 -0.02 1.78 16 32 H 0.09 2.22 8.14 -2.38 -0.02 2.20 16 33 H 0.09 2.46 7.32 -2.39 -0.02 2.44 16 34 H 0.08 2.33 8.14 -2.38 -0.02 2.31 16 35 H 0.16 4.89 3.67 -2.91 -0.01 4.88 16 36 H 0.19 2.35 8.06 -2.91 -0.02 2.33 16 37 H 0.23 1.60 8.06 -2.91 -0.02 1.58 16 38 H 0.44 4.59 9.11 -74.06 -0.67 3.91 16 39 H 0.07 2.72 8.14 -2.39 -0.02 2.70 16 40 H 0.07 2.97 6.95 -2.39 -0.02 2.95 16 Total: -1.00 -72.99 336.28 -0.21 -73.20 By element: Atomic # 1 Polarization: 12.86 SS G_CDS: 0.44 Total: 13.29 kcal Atomic # 6 Polarization: -24.81 SS G_CDS: 4.40 Total: -20.40 kcal Atomic # 7 Polarization: -93.04 SS G_CDS: -2.83 Total: -95.86 kcal Atomic # 8 Polarization: -112.08 SS G_CDS: -4.02 Total: -116.11 kcal Atomic # 14 Polarization: 40.85 SS G_CDS: 2.03 Total: 42.87 kcal Atomic # 16 Polarization: 103.23 SS G_CDS: -0.23 Total: 103.00 kcal Total: -72.99 -0.21 -73.20 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. ZINC001601064422.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 -65.494 kcal (2) G-P(sol) polarization free energy of solvation -72.991 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -138.486 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.210 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -73.201 kcal (6) G-S(sol) free energy of system = (1) + (5) -138.695 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.62 seconds