Wall clock time and date at job start Sat Apr 11 2020 06:18:01 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 1.30818 * 1 3 3 Si 1.86795 * 120.00031 * 2 1 4 4 H 1.48505 * 109.47309 * 269.99871 * 3 2 1 5 5 H 1.48502 * 109.47184 * 29.99803 * 3 2 1 6 6 H 1.48496 * 109.47315 * 149.99889 * 3 2 1 7 7 C 1.39950 * 120.00152 * 179.97438 * 2 1 3 8 8 H 1.07991 * 120.00244 * 197.84756 * 7 2 1 9 9 C 1.41400 * 119.99722 * 17.84853 * 7 2 1 10 10 C 1.40716 * 120.24098 * 204.38393 * 9 7 2 11 11 C 1.37619 * 119.74238 * 180.02562 * 10 9 7 12 12 C 1.38636 * 120.24651 * 0.02562 * 11 10 9 13 13 C 1.50704 * 119.74582 * 179.97438 * 12 11 10 14 14 S 1.81405 * 109.46845 * 90.00426 * 13 12 11 15 15 O 1.42100 * 110.54259 * 68.37597 * 14 13 12 16 16 O 1.42098 * 110.54275 * 291.62049 * 14 13 12 17 17 N 1.65599 * 104.44681 * 179.97438 * 14 13 12 18 18 C 1.46500 * 120.00016 * 65.00225 * 17 14 13 19 19 C 1.53007 * 109.47402 * 164.99733 * 18 17 14 20 20 O 1.42963 * 109.46836 * 300.00200 * 19 18 17 21 21 C 1.43096 * 113.76763 * 178.79183 * 20 19 18 22 22 C 1.53259 * 108.94265 * 302.02853 * 21 20 19 23 23 C 1.53254 * 108.84744 * 54.52420 * 22 21 20 24 24 O 1.42973 * 109.46725 * 59.99804 * 19 18 17 25 25 C 1.38632 * 120.50680 * 0.25724 * 12 11 10 26 26 C 1.37620 * 120.24252 * 359.44416 * 25 12 11 27 27 H 0.97003 * 120.00360 * 0.02562 * 1 2 3 28 28 H 1.08000 * 120.12685 * 0.02562 * 10 9 7 29 29 H 1.08000 * 119.87243 * 180.02562 * 11 10 9 30 30 H 1.09003 * 109.47449 * 330.00417 * 13 12 11 31 31 H 1.09000 * 109.47296 * 209.99981 * 13 12 11 32 32 H 0.96996 * 120.00137 * 244.99797 * 17 14 13 33 33 H 1.08997 * 109.47412 * 44.99784 * 18 17 14 34 34 H 1.09005 * 109.47129 * 284.99449 * 18 17 14 35 35 H 1.08994 * 109.47375 * 179.97438 * 19 18 17 36 36 H 1.09002 * 109.55783 * 61.86411 * 21 20 19 37 37 H 1.08998 * 109.56220 * 182.07892 * 21 20 19 38 38 H 1.09002 * 109.57388 * 174.33279 * 22 21 20 39 39 H 1.08999 * 109.57323 * 294.58612 * 22 21 20 40 40 H 1.09003 * 109.56256 * 65.31341 * 23 22 21 41 41 H 1.08995 * 109.56020 * 185.63844 * 23 22 21 42 42 H 1.07995 * 119.87698 * 179.70248 * 25 12 11 43 43 H 1.07999 * 120.12802 * 180.27560 * 26 25 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 1.3082 0.0000 0.0000 3 14 2.2422 1.6177 0.0000 4 1 2.4897 2.0464 -1.4001 5 1 1.4396 2.6527 0.7000 6 1 3.5397 1.4402 0.7000 7 6 2.0080 -1.2120 0.0005 8 1 3.0489 -1.2344 0.2872 9 6 1.3520 -2.4072 -0.3743 10 6 1.8258 -3.6499 0.0856 11 6 1.1798 -4.8068 -0.2860 12 6 0.0666 -4.7511 -1.1105 13 6 -0.6318 -6.0251 -1.5109 14 16 -1.9235 -6.4134 -0.2978 15 8 -2.9772 -5.4628 -0.3698 16 8 -1.3446 -6.7725 0.9493 17 7 -2.6027 -7.8180 -0.8528 18 6 -1.8069 -9.0470 -0.9020 19 6 -2.7358 -10.2492 -1.0844 20 8 -3.6491 -10.3164 0.0134 21 6 -4.5827 -11.3970 -0.0786 22 6 -5.3742 -11.2609 -1.3839 23 6 -4.3882 -11.1719 -2.5537 24 8 -3.4669 -10.1056 -2.3046 25 6 -0.4055 -3.5329 -1.5742 26 6 0.2211 -2.3629 -1.2105 27 1 -0.4851 0.8400 -0.0004 28 1 2.6930 -3.6955 0.7276 29 1 1.5414 -5.7616 0.0660 30 1 0.0910 -6.8403 -1.5456 31 1 -1.0837 -5.8981 -2.4946 32 1 -3.5275 -7.8270 -1.1453 33 1 -1.2495 -9.1565 0.0282 34 1 -1.1106 -8.9957 -1.7391 35 1 -2.1437 -11.1635 -1.1214 36 1 -4.0450 -12.3451 -0.0750 37 1 -5.2662 -11.3619 0.7698 38 1 -6.0170 -12.1316 -1.5136 39 1 -5.9844 -10.3585 -1.3486 40 1 -3.8430 -12.1115 -2.6440 41 1 -4.9336 -10.9746 -3.4765 42 1 -1.2706 -3.5017 -2.2199 43 1 -0.1509 -1.4145 -1.5692 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC000867161634.mol2 43 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 06:18:01 Heat of formation + Delta-G solvation = -178.849908 kcal Electronic energy + Delta-G solvation = -27299.725997 eV Core-core repulsion = 23242.376244 eV Total energy + Delta-G solvation = -4057.349753 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 341.118 amu Computer time = 1.44 seconds Orbital eigenvalues (eV) -40.94367 -39.57057 -38.08227 -36.91287 -36.67610 -36.27167 -35.94254 -33.21023 -33.12602 -31.26837 -29.52481 -28.92439 -26.88381 -25.97069 -23.83490 -23.00306 -22.16324 -22.02054 -20.29970 -19.28967 -18.71869 -18.41490 -18.02834 -17.38036 -17.16712 -16.99333 -16.58798 -16.07483 -15.86715 -15.69204 -15.64370 -15.59686 -15.22802 -14.54320 -14.33280 -14.26379 -13.89192 -13.72954 -13.63345 -13.50473 -13.17617 -13.09135 -13.02325 -13.00165 -12.76861 -12.71530 -12.41855 -12.19885 -12.06085 -12.01591 -11.88049 -11.53463 -11.33874 -11.04055 -10.97985 -10.65448 -10.40855 -9.46021 -9.26537 -8.70525 -6.40164 -0.70763 0.89254 1.07962 1.38016 1.51149 1.52659 1.90729 2.18525 2.59502 2.63173 2.64546 2.94659 3.30805 3.66262 3.75685 3.82287 3.84419 3.85120 3.97854 4.10434 4.25362 4.43046 4.46617 4.47374 4.52923 4.53666 4.57309 4.72386 4.78851 4.88877 4.95629 5.00703 5.09507 5.14748 5.26891 5.35562 5.62315 5.84768 5.88097 6.03192 6.05508 6.14036 6.17192 6.29098 6.61569 6.85554 6.94089 8.26242 Molecular weight = 341.12amu Principal moments of inertia in cm(-1) A = 0.035491 B = 0.002229 C = 0.002208 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 788.746125 B =12559.058468 C =12679.464958 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.819 5.819 2 C 0.031 3.969 3 Si 0.990 3.010 4 H -0.260 1.260 5 H -0.269 1.269 6 H -0.255 1.255 7 C -0.488 4.488 8 H 0.084 0.916 9 C 0.084 3.916 10 C -0.245 4.245 11 C -0.075 4.075 12 C -0.233 4.233 13 C -0.518 4.518 14 S 2.598 3.402 15 O -1.006 7.006 16 O -0.997 6.997 17 N -1.106 6.106 18 C 0.118 3.882 19 C 0.239 3.761 20 O -0.414 6.414 21 C 0.046 3.954 22 C -0.191 4.191 23 C 0.049 3.951 24 O -0.406 6.406 25 C -0.093 4.093 26 C -0.196 4.196 27 H 0.291 0.709 28 H 0.107 0.893 29 H 0.130 0.870 30 H 0.163 0.837 31 H 0.153 0.847 32 H 0.421 0.579 33 H 0.098 0.902 34 H 0.119 0.881 35 H 0.098 0.902 36 H 0.074 0.926 37 H 0.102 0.898 38 H 0.109 0.891 39 H 0.066 0.934 40 H 0.074 0.926 41 H 0.110 0.890 42 H 0.112 0.888 43 H 0.106 0.894 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -6.790 -23.320 -6.869 25.241 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 -0.445 5.445 2 C -0.185 4.185 3 Si 0.810 3.190 4 H -0.184 1.184 5 H -0.193 1.193 6 H -0.179 1.179 7 C -0.517 4.517 8 H 0.102 0.898 9 C 0.081 3.919 10 C -0.265 4.265 11 C -0.094 4.094 12 C -0.237 4.237 13 C -0.650 4.650 14 S 2.697 3.303 15 O -0.996 6.996 16 O -0.987 6.987 17 N -0.866 5.866 18 C -0.008 4.008 19 C 0.143 3.857 20 O -0.335 6.335 21 C -0.030 4.030 22 C -0.229 4.229 23 C -0.026 4.026 24 O -0.327 6.327 25 C -0.113 4.113 26 C -0.215 4.215 27 H 0.102 0.898 28 H 0.125 0.875 29 H 0.147 0.853 30 H 0.181 0.819 31 H 0.171 0.829 32 H 0.256 0.744 33 H 0.116 0.884 34 H 0.137 0.863 35 H 0.115 0.885 36 H 0.092 0.908 37 H 0.120 0.880 38 H 0.128 0.872 39 H 0.084 0.916 40 H 0.092 0.908 41 H 0.128 0.872 42 H 0.130 0.870 43 H 0.124 0.876 Dipole moment (debyes) X Y Z Total from point charges -7.112 -22.522 -5.949 24.356 hybrid contribution -0.167 0.482 -0.437 0.671 sum -7.279 -22.041 -6.385 24.074 Atomic orbital electron populations 1.69889 1.09316 1.31055 1.34201 1.26931 0.95510 1.05051 0.91055 0.85092 0.79010 0.75263 0.79677 1.18404 1.19323 1.17857 1.19979 0.98658 0.92282 1.40800 0.89819 1.18112 0.91619 0.93452 0.88760 1.21240 1.04863 0.92895 1.07464 1.20896 0.94503 0.97961 0.96084 1.18547 1.02587 0.91989 1.10542 1.28969 1.15610 1.04281 1.16149 1.05474 0.75683 0.72586 0.76525 1.93493 1.55547 1.62618 1.87979 1.93485 1.80392 1.82691 1.42088 1.55166 1.23916 1.23109 1.84437 1.21762 0.92994 0.81331 1.04731 1.23675 0.87609 0.98410 0.76028 1.88195 1.48004 1.52566 1.44758 1.22909 0.91656 0.89545 0.98908 1.22787 0.99639 1.04616 0.95843 1.22900 0.90543 0.90393 0.98801 1.88108 1.56189 1.48695 1.39735 1.20946 0.98498 0.92688 0.99128 1.21339 1.00468 0.97165 1.02549 0.89771 0.87510 0.85258 0.81920 0.82865 0.74391 0.88352 0.86319 0.88464 0.90808 0.87991 0.87221 0.91554 0.90769 0.87224 0.86967 0.87623 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 18. 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 -0.82 -43.99 10.95 21.83 0.24 -43.76 16 2 C 0.03 1.55 5.14 85.26 0.44 1.99 16 3 Si 0.99 38.24 29.59 68.60 2.03 40.27 16 4 H -0.26 -9.65 7.11 99.48 0.71 -8.94 16 5 H -0.27 -9.93 7.11 99.48 0.71 -9.22 16 6 H -0.26 -9.50 7.11 99.48 0.71 -8.79 16 7 C -0.49 -26.52 9.05 23.46 0.21 -26.30 16 8 H 0.08 4.31 7.91 -2.92 -0.02 4.29 16 9 C 0.08 4.62 5.57 -21.29 -0.12 4.50 16 10 C -0.24 -12.24 9.80 22.73 0.22 -12.02 16 11 C -0.08 -3.31 9.67 22.22 0.21 -3.10 16 12 C -0.23 -9.87 5.16 -19.67 -0.10 -9.98 16 13 C -0.52 -15.47 6.19 71.24 0.44 -15.03 16 14 S 2.60 89.35 5.44 -56.49 -0.31 89.04 16 15 O -1.01 -43.57 18.08 -127.65 -2.31 -45.88 16 16 O -1.00 -40.69 17.50 -127.65 -2.23 -42.92 16 17 N -1.11 -27.73 5.69 -187.48 -1.07 -28.80 16 18 C 0.12 2.17 6.24 86.38 0.54 2.71 16 19 C 0.24 3.96 3.45 71.98 0.25 4.21 16 20 O -0.41 -8.53 10.40 -126.22 -1.31 -9.85 16 21 C 0.05 0.59 6.96 72.07 0.50 1.09 16 22 C -0.19 -1.99 6.35 30.77 0.20 -1.80 16 23 C 0.05 0.52 6.96 72.07 0.50 1.03 16 24 O -0.41 -6.88 10.12 -126.22 -1.28 -8.16 16 25 C -0.09 -4.46 9.67 22.22 0.21 -4.25 16 26 C -0.20 -10.64 8.70 22.73 0.20 -10.45 16 27 H 0.29 14.08 8.30 -92.71 -0.77 13.32 16 28 H 0.11 4.96 8.06 -2.91 -0.02 4.94 16 29 H 0.13 4.72 8.06 -2.91 -0.02 4.69 16 30 H 0.16 3.46 8.08 -2.39 -0.02 3.44 16 31 H 0.15 3.74 8.08 -2.39 -0.02 3.72 16 32 H 0.42 10.48 8.30 -96.75 -0.80 9.68 16 33 H 0.10 1.86 7.70 -2.39 -0.02 1.84 16 34 H 0.12 1.36 8.14 -2.38 -0.02 1.34 16 35 H 0.10 1.03 8.14 -2.39 -0.02 1.01 16 36 H 0.07 0.63 8.14 -2.39 -0.02 0.61 16 37 H 0.10 1.21 8.14 -2.39 -0.02 1.19 16 38 H 0.11 0.57 8.14 -2.39 -0.02 0.55 16 39 H 0.07 0.93 8.14 -2.39 -0.02 0.91 16 40 H 0.07 0.49 8.14 -2.39 -0.02 0.47 16 41 H 0.11 0.93 8.14 -2.39 -0.02 0.91 16 42 H 0.11 4.83 8.06 -2.91 -0.02 4.81 16 43 H 0.11 5.97 6.16 -2.91 -0.02 5.95 16 Total: -1.00 -78.44 371.84 -2.30 -80.74 By element: Atomic # 1 Polarization: 36.48 SS G_CDS: 0.22 Total: 36.70 kcal Atomic # 6 Polarization: -71.10 SS G_CDS: 3.71 Total: -67.39 kcal Atomic # 7 Polarization: -71.73 SS G_CDS: -0.83 Total: -72.55 kcal Atomic # 8 Polarization: -99.68 SS G_CDS: -7.13 Total: -106.81 kcal Atomic # 14 Polarization: 38.24 SS G_CDS: 2.03 Total: 40.27 kcal Atomic # 16 Polarization: 89.35 SS G_CDS: -0.31 Total: 89.04 kcal Total: -78.44 -2.30 -80.74 kcal The number of atoms in the molecule is 43 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. ZINC000867161634.mol2 43 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 -98.109 kcal (2) G-P(sol) polarization free energy of solvation -78.436 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -176.545 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.305 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -80.740 kcal (6) G-S(sol) free energy of system = (1) + (5) -178.850 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.44 seconds