Wall clock time and date at job start Tue Mar 31 2020 22:35:17 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 1.31631 * 1 3 3 Si 1.86791 * 120.00164 * 2 1 4 4 H 1.48501 * 109.47426 * 270.00324 * 3 2 1 5 5 H 1.48506 * 109.47265 * 30.00518 * 3 2 1 6 6 H 1.48501 * 109.47110 * 150.00053 * 3 2 1 7 7 C 1.38801 * 119.99638 * 180.02562 * 2 1 3 8 8 H 1.08000 * 119.99735 * 179.97438 * 7 2 1 9 9 S 1.76200 * 120.00294 * 359.97438 * 7 2 1 10 10 C 1.81003 * 100.00080 * 180.02562 * 9 7 2 11 11 C 1.50700 * 109.47091 * 179.97438 * 10 9 7 12 12 O 1.21282 * 120.00137 * 0.02562 * 11 10 9 13 13 N 1.34775 * 119.99937 * 179.97438 * 11 10 9 14 14 C 1.46499 * 120.00172 * 180.02562 * 13 11 10 15 15 C 1.53035 * 109.46104 * 205.00028 * 14 13 11 16 16 C 1.53192 * 109.31257 * 178.62426 * 15 14 13 17 17 N 1.46924 * 108.77479 * 54.63907 * 16 15 14 18 18 C 1.34773 * 120.63655 * 126.36786 * 17 16 15 19 19 O 1.21561 * 119.99660 * 3.89977 * 18 17 16 20 20 C 1.47863 * 120.00454 * 183.62179 * 18 17 16 21 21 N 1.34547 * 126.04729 * 352.84482 * 20 18 17 22 22 C 1.30877 * 107.26831 * 179.88776 * 21 20 18 23 23 N 1.34580 * 107.62608 * 0.37027 * 22 21 20 24 24 H 0.96996 * 125.74733 * 179.78890 * 23 22 21 25 25 N 1.28852 * 108.50028 * 359.76318 * 23 22 21 26 26 C 1.46927 * 118.73496 * 306.63943 * 17 16 15 27 27 C 1.52763 * 109.00978 * 53.31300 * 26 17 16 28 28 H 0.97001 * 119.99801 * 359.97438 * 1 2 3 29 29 H 1.09005 * 109.47100 * 59.99845 * 10 9 7 30 30 H 1.08993 * 109.47160 * 300.00186 * 10 9 7 31 31 H 0.97007 * 119.99998 * 359.97438 * 13 11 10 32 32 H 1.09001 * 109.45592 * 324.97199 * 14 13 11 33 33 H 1.09004 * 109.49967 * 58.67111 * 15 14 13 34 34 H 1.09002 * 109.52413 * 298.59278 * 15 14 13 35 35 H 1.08997 * 109.58706 * 294.84917 * 16 15 14 36 36 H 1.09000 * 109.70084 * 174.49030 * 16 15 14 37 37 H 1.08004 * 126.18385 * 180.12854 * 22 21 20 38 38 H 1.09004 * 109.58595 * 173.14654 * 26 17 16 39 39 H 1.09003 * 109.58676 * 293.57138 * 26 17 16 40 40 H 1.09001 * 109.56590 * 185.54925 * 27 26 17 41 41 H 1.09000 * 109.35623 * 65.49507 * 27 26 17 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 1.6176 0.0000 4 1 2.4978 2.0464 -1.4001 5 1 1.4478 2.6526 0.7002 6 1 3.5479 1.4400 0.7000 7 6 2.0102 -1.2021 -0.0005 8 1 3.0902 -1.2021 -0.0010 9 16 1.1292 -2.7280 -0.0005 10 6 2.5158 -3.8915 -0.0005 11 6 1.9872 -5.3028 0.0001 12 8 0.7910 -5.5024 0.0000 13 7 2.8440 -6.3432 -0.0003 14 6 2.3302 -7.7152 -0.0003 15 6 3.3764 -8.6513 0.6091 16 6 2.8223 -10.0792 0.6390 17 7 2.3979 -10.4503 -0.7178 18 6 2.8582 -11.5766 -1.2975 19 8 3.5756 -12.3326 -0.6718 20 6 2.4856 -11.8958 -2.6923 21 7 1.5945 -11.2270 -3.4466 22 6 1.5518 -11.8182 -4.6135 23 7 2.4091 -12.8550 -4.5765 24 1 2.5817 -13.4738 -5.3033 25 7 2.9623 -12.8869 -3.4132 26 6 1.4669 -9.5669 -1.4331 27 6 2.0318 -8.1476 -1.4376 28 1 -0.4850 0.8401 0.0004 29 1 3.1244 -3.7314 0.8895 30 1 3.1244 -3.7315 -0.8904 31 1 3.8008 -6.1836 -0.0014 32 1 1.4150 -7.7601 0.5900 33 1 3.6057 -8.3287 1.6247 34 1 4.2837 -8.6257 0.0056 35 1 1.9682 -10.1257 1.3146 36 1 3.5963 -10.7666 0.9805 37 1 0.9368 -11.5289 -5.4528 38 1 1.3485 -9.9149 -2.4593 39 1 0.5000 -9.5708 -0.9299 40 1 1.3040 -7.4665 -1.8788 41 1 2.9515 -8.1267 -2.0223 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 ZINC001492118083.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 22:35:17 Heat of formation + Delta-G solvation = 3.275618 kcal Electronic energy + Delta-G solvation = -26174.868165 eV Core-core repulsion = 22217.312949 eV Total energy + Delta-G solvation = -3957.555217 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.61 seconds Orbital eigenvalues (eV) -44.54526 -41.36404 -40.46791 -38.44190 -35.82416 -34.68713 -34.56506 -32.81209 -32.45309 -32.01716 -30.33105 -27.67623 -26.84962 -24.98284 -24.24914 -23.73178 -22.04291 -21.62216 -20.65172 -19.83306 -19.51284 -18.15722 -17.76665 -17.52387 -17.43613 -17.05068 -16.86129 -16.39134 -16.11973 -15.89859 -15.81495 -15.23447 -15.00206 -14.73681 -14.58151 -14.44287 -14.00239 -13.85412 -13.45558 -13.17907 -13.14537 -12.88083 -12.79242 -12.58354 -12.30227 -12.16166 -11.82738 -11.76107 -11.61961 -11.53653 -11.12778 -10.99704 -10.83521 -10.77080 -10.25091 -9.98256 -9.80138 -8.63895 -8.33119 -6.10471 0.25056 1.08861 1.28895 1.43373 1.45740 1.48641 1.59016 1.66179 2.08284 2.14624 2.27745 2.33279 2.93308 3.00902 3.34131 3.45578 3.66228 3.89343 3.97869 3.98938 4.06768 4.15032 4.32636 4.33528 4.40583 4.53541 4.57553 4.74028 4.76864 4.85929 4.90183 4.98013 5.06020 5.24131 5.36976 5.43590 5.51790 5.69600 5.97827 6.16170 6.21474 6.55598 6.78009 7.05474 7.08325 7.29549 8.75968 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.024219 B = 0.001994 C = 0.001911 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1155.842840 B =14039.851917 C =14650.202693 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.911 5.911 2 C 0.013 3.987 3 Si 0.998 3.002 4 H -0.268 1.268 5 H -0.278 1.278 6 H -0.259 1.259 7 C -0.546 4.546 8 H 0.082 0.918 9 S -0.149 6.149 10 C -0.130 4.130 11 C 0.536 3.464 12 O -0.561 6.561 13 N -0.710 5.710 14 C 0.144 3.856 15 C -0.127 4.127 16 C 0.113 3.887 17 N -0.585 5.585 18 C 0.609 3.391 19 O -0.561 6.561 20 C 0.128 3.872 21 N -0.507 5.507 22 C 0.226 3.774 23 N -0.381 5.381 24 H 0.473 0.527 25 N -0.276 5.276 26 C 0.069 3.931 27 C -0.132 4.132 28 H 0.271 0.729 29 H 0.108 0.892 30 H 0.108 0.892 31 H 0.415 0.585 32 H 0.072 0.928 33 H 0.102 0.898 34 H 0.081 0.919 35 H 0.085 0.915 36 H 0.097 0.903 37 H 0.285 0.715 38 H 0.164 0.836 39 H 0.067 0.933 40 H 0.064 0.936 41 H 0.070 0.930 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 7.779 -26.270 -10.434 29.317 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 -0.547 5.547 2 C -0.192 4.192 3 Si 0.820 3.180 4 H -0.193 1.193 5 H -0.203 1.203 6 H -0.183 1.183 7 C -0.694 4.694 8 H 0.100 0.900 9 S 0.078 5.922 10 C -0.282 4.282 11 C 0.322 3.678 12 O -0.439 6.439 13 N -0.363 5.363 14 C 0.039 3.961 15 C -0.165 4.165 16 C -0.009 4.009 17 N -0.316 5.316 18 C 0.394 3.606 19 O -0.438 6.438 20 C -0.152 4.152 21 N -0.235 5.235 22 C -0.069 4.069 23 N -0.106 5.106 24 H 0.324 0.676 25 N -0.117 5.117 26 C -0.054 4.054 27 C -0.172 4.172 28 H 0.080 0.920 29 H 0.126 0.874 30 H 0.126 0.874 31 H 0.251 0.749 32 H 0.090 0.910 33 H 0.120 0.880 34 H 0.100 0.900 35 H 0.104 0.896 36 H 0.115 0.885 37 H 0.300 0.700 38 H 0.180 0.820 39 H 0.086 0.914 40 H 0.083 0.917 41 H 0.089 0.911 Dipole moment (debyes) X Y Z Total from point charges 6.303 -27.017 -9.620 29.363 hybrid contribution 1.778 1.144 -0.534 2.180 sum 8.081 -25.873 -10.154 28.945 Atomic orbital electron populations 1.70182 1.07918 1.28565 1.48041 1.26118 0.95979 1.03287 0.93822 0.84963 0.78187 0.76105 0.78782 1.19296 1.20349 1.18279 1.23206 0.95328 0.92110 1.58756 0.90004 1.85545 1.10489 0.99089 1.97031 1.23384 1.03545 0.94574 1.06669 1.20013 0.86306 0.86523 0.74949 1.90690 1.17216 1.85991 1.49971 1.45833 1.10203 1.04768 1.75456 1.21032 0.98015 0.80186 0.96876 1.22111 0.98028 0.93029 1.03371 1.21752 1.01461 0.95696 0.81990 1.47923 1.45358 1.21676 1.16687 1.16628 0.79510 0.81494 0.82983 1.90790 1.39215 1.49751 1.63997 1.23516 0.99478 0.94609 0.97555 1.70684 1.20271 1.28583 1.03937 1.27785 0.94425 0.86056 0.98666 1.45232 1.29200 1.25207 1.10967 0.67576 1.74276 1.20872 1.21520 0.95008 1.22982 0.90705 0.88158 1.03533 1.22106 1.01888 0.96511 0.96650 0.92017 0.87362 0.87373 0.74855 0.90959 0.87958 0.90018 0.89642 0.88488 0.69959 0.82027 0.91427 0.91732 0.91140 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 -0.91 -55.71 13.22 21.65 0.29 -55.42 16 2 C 0.01 0.72 5.49 84.86 0.47 1.19 16 3 Si 1.00 43.41 29.55 68.60 2.03 45.44 16 4 H -0.27 -11.17 7.11 99.48 0.71 -10.46 16 5 H -0.28 -11.81 7.11 99.48 0.71 -11.11 16 6 H -0.26 -10.58 7.11 99.48 0.71 -9.88 16 7 C -0.55 -31.02 9.50 67.95 0.65 -30.37 16 8 H 0.08 4.32 7.80 -2.91 -0.02 4.29 16 9 S -0.15 -8.18 20.57 -56.49 -1.16 -9.34 16 10 C -0.13 -5.07 6.16 71.24 0.44 -4.63 16 11 C 0.54 19.16 7.81 87.66 0.68 19.85 16 12 O -0.56 -25.13 15.53 -3.04 -0.05 -25.18 16 13 N -0.71 -17.25 5.08 -442.41 -2.25 -19.49 16 14 C 0.14 3.16 2.42 45.02 0.11 3.27 16 15 C -0.13 -2.02 5.55 30.67 0.17 -1.85 16 16 C 0.11 2.02 6.43 86.36 0.55 2.58 16 17 N -0.58 -12.28 2.98 -823.11 -2.45 -14.73 16 18 C 0.61 15.28 7.71 86.79 0.67 15.94 16 19 O -0.56 -17.40 16.51 -3.91 -0.06 -17.46 16 20 C 0.13 2.70 7.72 137.13 1.06 3.76 16 21 N -0.51 -7.73 7.71 -193.04 -1.49 -9.22 16 22 C 0.23 1.15 13.14 180.30 2.37 3.52 16 23 N -0.38 -2.41 6.93 -60.37 -0.42 -2.83 16 24 H 0.47 -1.37 8.96 -219.80 -1.97 -3.34 16 25 N -0.28 -5.05 12.30 -52.44 -0.65 -5.70 16 26 C 0.07 1.37 6.27 86.22 0.54 1.91 16 27 C -0.13 -2.87 5.63 30.53 0.17 -2.70 16 28 H 0.27 15.37 8.31 -92.71 -0.77 14.60 16 29 H 0.11 3.80 8.14 -2.39 -0.02 3.78 16 30 H 0.11 3.79 8.14 -2.40 -0.02 3.77 16 31 H 0.41 7.35 8.60 -92.70 -0.80 6.56 16 32 H 0.07 1.92 7.58 -2.39 -0.02 1.90 16 33 H 0.10 1.35 8.14 -2.38 -0.02 1.33 16 34 H 0.08 1.21 8.14 -2.39 -0.02 1.19 16 35 H 0.09 1.38 8.14 -2.39 -0.02 1.36 16 36 H 0.10 1.82 7.02 -2.39 -0.02 1.81 16 37 H 0.29 -2.00 8.06 -2.91 -0.02 -2.02 16 38 H 0.16 3.12 3.66 -57.93 -0.21 2.91 16 39 H 0.07 1.38 8.14 -2.39 -0.02 1.37 16 40 H 0.06 1.71 8.14 -2.39 -0.02 1.69 16 41 H 0.07 1.44 8.14 -2.39 -0.02 1.43 16 Total: -1.00 -90.12 360.67 -0.20 -90.32 By element: Atomic # 1 Polarization: 13.03 SS G_CDS: -1.87 Total: 11.17 kcal Atomic # 6 Polarization: 4.57 SS G_CDS: 7.88 Total: 12.45 kcal Atomic # 7 Polarization: -100.43 SS G_CDS: -6.96 Total: -107.39 kcal Atomic # 8 Polarization: -42.53 SS G_CDS: -0.11 Total: -42.64 kcal Atomic # 14 Polarization: 43.41 SS G_CDS: 2.03 Total: 45.44 kcal Atomic # 16 Polarization: -8.18 SS G_CDS: -1.16 Total: -9.34 kcal Total: -90.12 -0.20 -90.32 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. ZINC001492118083.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 93.591 kcal (2) G-P(sol) polarization free energy of solvation -90.117 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 3.474 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.198 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -90.315 kcal (6) G-S(sol) free energy of system = (1) + (5) 3.276 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.61 seconds