Wall clock time and date at job start Tue Mar 31 2020 22:52:25 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 1.31417 * 1 3 3 Si 1.86792 * 120.00236 * 2 1 4 4 H 1.48497 * 109.47222 * 269.99788 * 3 2 1 5 5 H 1.48500 * 109.47302 * 30.00133 * 3 2 1 6 6 H 1.48500 * 109.47116 * 149.99598 * 3 2 1 7 7 C 1.38950 * 119.99405 * 179.97438 * 2 1 3 8 8 H 1.07998 * 120.00508 * 0.02562 * 7 2 1 9 9 N 1.37104 * 119.99773 * 179.97438 * 7 2 1 10 10 C 1.34776 * 120.00185 * 180.02562 * 9 7 2 11 11 O 1.21298 * 119.99742 * 359.97438 * 10 9 7 12 12 C 1.50700 * 119.99922 * 180.02562 * 10 9 7 13 13 N 1.46897 * 109.46639 * 179.97438 * 12 10 9 14 14 C 1.46844 * 111.00142 * 65.79615 * 13 12 10 15 15 C 1.53040 * 109.52447 * 185.83823 * 14 13 12 16 16 C 1.53126 * 109.27479 * 300.81627 * 15 14 13 17 17 H 1.08994 * 109.57259 * 297.71400 * 16 15 14 18 18 N 1.46505 * 109.51805 * 177.55960 * 16 15 14 19 19 C 1.34777 * 119.99722 * 85.32115 * 18 16 15 20 20 O 1.21503 * 120.00322 * 359.97438 * 19 18 16 21 21 C 1.48279 * 119.99711 * 179.71988 * 19 18 16 22 22 C 1.47486 * 128.71156 * 180.27482 * 21 19 18 23 23 N 1.30650 * 102.71736 * 179.97438 * 22 21 19 24 24 O 1.20835 * 109.61540 * 359.97438 * 23 22 21 25 25 N 1.20903 * 115.91054 * 359.71776 * 24 23 22 26 26 C 1.53119 * 109.16009 * 57.65667 * 16 15 14 27 27 H 1.08997 * 109.49891 * 182.40415 * 26 16 15 28 28 O 1.42903 * 109.50306 * 62.32471 * 26 16 15 29 29 C 1.46859 * 110.99860 * 190.00137 * 13 12 10 30 30 H 0.97000 * 119.99715 * 0.02562 * 1 2 3 31 31 H 0.97006 * 119.99848 * 0.02562 * 9 7 2 32 32 H 1.08998 * 109.46804 * 60.00238 * 12 10 9 33 33 H 1.08996 * 109.47265 * 300.00002 * 12 10 9 34 34 H 1.09000 * 109.45716 * 305.84710 * 14 13 12 35 35 H 1.08997 * 109.46642 * 65.82557 * 14 13 12 36 36 H 1.09006 * 109.50467 * 180.87639 * 15 14 13 37 37 H 1.08994 * 109.50439 * 60.75462 * 15 14 13 38 38 H 0.97000 * 119.99795 * 265.31231 * 18 16 15 39 39 H 1.07997 * 128.64447 * 0.02562 * 22 21 19 40 40 H 0.96703 * 113.99285 * 179.97438 * 28 26 16 41 41 H 1.08995 * 109.45747 * 54.14227 * 29 13 12 42 42 H 1.08999 * 109.45125 * 294.17339 * 29 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 1.3142 0.0000 0.0000 3 14 2.2482 1.6176 0.0000 4 1 2.4958 2.0463 -1.4000 5 1 1.4457 2.6526 0.7001 6 1 3.5457 1.4400 0.7001 7 6 2.0088 -1.2034 0.0005 8 1 1.4688 -2.1387 0.0005 9 7 3.3798 -1.2035 0.0000 10 6 4.0537 -2.3707 0.0000 11 8 3.4471 -3.4212 0.0009 12 6 5.5607 -2.3708 0.0000 13 7 6.0502 -3.7558 0.0006 14 6 5.6957 -4.4398 -1.2495 15 6 6.0912 -5.9152 -1.1551 16 6 7.5981 -6.0195 -0.9041 17 1 8.1392 -5.5856 -1.7449 18 7 7.9732 -7.4278 -0.7548 19 6 8.2409 -8.1731 -1.8454 20 8 8.1707 -7.6771 -2.9524 21 6 8.6265 -9.5968 -1.6940 22 6 8.9628 -10.5779 -2.7427 23 7 9.2208 -11.6578 -2.0541 24 8 9.0860 -11.4291 -0.8753 25 7 8.7611 -10.3001 -0.5899 26 6 7.9480 -5.2582 0.3775 27 1 9.0254 -5.2928 0.5386 28 8 7.2799 -5.8607 1.4878 29 6 7.4986 -3.8019 0.2388 30 1 -0.4850 0.8401 -0.0004 31 1 3.8649 -0.3634 -0.0004 32 1 5.9240 -1.8570 0.8900 33 1 5.9240 -1.8570 -0.8899 34 1 4.6209 -4.3618 -1.4138 35 1 6.2250 -3.9745 -2.0809 36 1 5.8421 -6.4192 -2.0890 37 1 5.5519 -6.3846 -0.3324 38 1 8.0290 -7.8238 0.1289 39 1 8.9900 -10.4382 -3.8132 40 1 7.4568 -5.4288 2.3348 41 1 7.7333 -3.2604 1.1551 42 1 8.0192 -3.3395 -0.5998 RHF calculation, no. of doubly occupied orbitals= 63 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). 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 ZINC001100041563.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 22:52:25 Heat of formation + Delta-G solvation = -11.632762 kcal Electronic energy + Delta-G solvation = -29229.125534 eV Core-core repulsion = 24828.170971 eV Total energy + Delta-G solvation = -4400.954563 eV No. of doubly occupied orbitals = 63 Molecular weight (most abundant/longest-lived isotopes) = 339.142 amu Computer time = 0.78 seconds Orbital eigenvalues (eV) -48.00877 -41.48533 -40.53862 -39.49618 -36.86609 -36.09383 -35.86736 -35.64960 -35.57229 -33.75067 -32.66055 -30.89069 -29.05685 -27.30160 -26.04665 -25.15281 -24.25675 -23.80444 -21.85949 -21.27120 -21.16600 -20.19824 -20.12763 -19.63825 -18.70398 -18.06828 -17.67530 -17.43279 -16.93118 -16.52310 -16.42296 -16.12906 -16.00828 -15.53397 -15.42690 -15.14777 -15.05294 -14.77983 -14.49225 -14.02331 -13.92909 -13.84654 -13.59584 -13.13739 -13.02160 -12.81126 -12.66825 -12.57202 -12.45214 -12.39107 -12.14803 -11.97088 -11.89586 -11.80476 -11.47474 -11.44484 -10.91124 -10.41408 -10.24747 -10.15068 -9.13497 -8.39651 -6.00215 -0.41015 0.28017 1.30551 1.36656 1.43027 1.45471 1.72416 1.99729 2.24354 2.29359 2.42862 2.59567 2.83786 3.16633 3.18852 3.33838 3.62337 3.69397 3.72926 3.82438 3.96827 4.05785 4.21615 4.34816 4.39886 4.41550 4.49255 4.51419 4.68414 4.72450 4.75644 4.82323 5.00585 5.20470 5.31711 5.55014 5.91147 6.02914 6.15717 6.22401 6.62217 6.74960 6.91384 7.00464 7.30570 7.42908 8.01575 8.78220 Molecular weight = 339.14amu Principal moments of inertia in cm(-1) A = 0.028320 B = 0.002081 C = 0.002038 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 988.477435 B =13453.405086 C =13736.540791 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.937 5.937 2 C -0.019 4.019 3 Si 0.967 3.033 4 H -0.259 1.259 5 H -0.277 1.277 6 H -0.228 1.228 7 C -0.325 4.325 8 H 0.053 0.947 9 N -0.594 5.594 10 C 0.450 3.550 11 O -0.605 6.605 12 C 0.055 3.945 13 N -0.526 5.526 14 C 0.060 3.940 15 C -0.110 4.110 16 C 0.156 3.844 17 H 0.106 0.894 18 N -0.689 5.689 19 C 0.606 3.394 20 O -0.540 6.540 21 C -0.054 4.054 22 C 0.053 3.947 23 N -0.362 5.362 24 O 0.344 5.656 25 N -0.321 5.321 26 C 0.112 3.888 27 H 0.100 0.900 28 O -0.568 6.568 29 C 0.023 3.977 30 H 0.278 0.722 31 H 0.389 0.611 32 H 0.126 0.874 33 H 0.078 0.922 34 H 0.058 0.942 35 H 0.041 0.959 36 H 0.057 0.943 37 H 0.059 0.941 38 H 0.419 0.581 39 H 0.256 0.744 40 H 0.397 0.603 41 H 0.111 0.889 42 H 0.062 0.938 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 27.869 -11.389 -0.925 30.120 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 -0.578 5.578 2 C -0.217 4.217 3 Si 0.787 3.213 4 H -0.183 1.183 5 H -0.202 1.202 6 H -0.151 1.151 7 C -0.454 4.454 8 H 0.071 0.929 9 N -0.236 5.236 10 C 0.237 3.763 11 O -0.489 6.489 12 C -0.076 4.076 13 N -0.251 5.251 14 C -0.068 4.068 15 C -0.149 4.149 16 C 0.051 3.949 17 H 0.123 0.877 18 N -0.340 5.340 19 C 0.389 3.611 20 O -0.416 6.416 21 C -0.219 4.219 22 C -0.133 4.133 23 N -0.087 5.087 24 O 0.117 5.883 25 N -0.040 5.040 26 C 0.053 3.947 27 H 0.118 0.882 28 O -0.376 6.376 29 C -0.105 4.105 30 H 0.087 0.913 31 H 0.225 0.775 32 H 0.144 0.856 33 H 0.096 0.904 34 H 0.077 0.923 35 H 0.059 0.941 36 H 0.075 0.925 37 H 0.078 0.922 38 H 0.256 0.744 39 H 0.272 0.728 40 H 0.247 0.753 41 H 0.129 0.871 42 H 0.080 0.920 Dipole moment (debyes) X Y Z Total from point charges 26.951 -13.046 -0.889 29.956 hybrid contribution -0.366 2.045 -0.621 2.168 sum 26.585 -11.001 -1.509 28.811 Atomic orbital electron populations 1.69819 1.08208 1.29163 1.50625 1.26154 0.96498 1.02841 0.96242 0.85339 0.79573 0.76583 0.79843 1.18311 1.20208 1.15105 1.18972 0.81599 0.94761 1.50078 0.92923 1.42046 1.05710 1.07636 1.68195 1.21004 0.91072 0.83227 0.80954 1.90539 1.71347 1.32633 1.54392 1.21831 0.90042 0.91109 1.04591 1.61358 1.14204 1.13711 1.35851 1.22017 1.01182 0.93834 0.89799 1.21706 0.95903 0.96036 1.01235 1.21261 0.95086 0.79896 0.98618 0.87651 1.45779 1.67169 1.11688 1.09340 1.16622 0.77241 0.82277 0.84954 1.90848 1.53438 1.71627 1.25672 1.26151 1.07784 0.98739 0.89263 1.28236 0.96262 0.84358 1.04426 1.75113 1.17729 1.24433 0.91382 1.85101 1.59430 1.22986 1.20757 1.75394 1.10968 0.93432 1.24179 1.22042 0.96494 0.90400 0.85808 0.88244 1.86477 1.74106 1.58370 1.18649 1.22996 0.86361 0.97366 1.03801 0.91253 0.77519 0.85605 0.90396 0.92327 0.94140 0.92464 0.92218 0.74397 0.72842 0.75313 0.87100 0.92008 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 -56.82 13.96 21.66 0.30 -56.52 16 2 C -0.02 -1.07 5.50 84.93 0.47 -0.60 16 3 Si 0.97 38.41 27.74 68.60 1.90 40.31 16 4 H -0.26 -9.76 7.11 99.48 0.71 -9.05 16 5 H -0.28 -10.99 7.11 99.48 0.71 -10.28 16 6 H -0.23 -7.46 6.52 99.48 0.65 -6.81 16 7 C -0.32 -19.00 10.16 84.04 0.85 -18.14 16 8 H 0.05 3.70 7.39 -2.91 -0.02 3.67 16 9 N -0.59 -27.54 5.09 -306.97 -1.56 -29.10 16 10 C 0.45 19.85 7.46 87.66 0.65 20.51 16 11 O -0.61 -33.29 13.90 -3.09 -0.04 -33.33 16 12 C 0.06 1.56 5.45 85.56 0.47 2.03 16 13 N -0.53 -14.33 4.28 -900.94 -3.86 -18.19 16 14 C 0.06 1.85 5.11 86.33 0.44 2.29 16 15 C -0.11 -3.05 5.52 30.65 0.17 -2.88 16 16 C 0.16 3.07 2.31 45.07 0.10 3.18 16 17 H 0.11 2.02 7.58 -2.39 -0.02 2.00 16 18 N -0.69 -12.83 5.05 -444.60 -2.24 -15.08 16 19 C 0.61 12.39 7.82 86.91 0.68 13.07 16 20 O -0.54 -13.73 16.71 -3.73 -0.06 -13.79 16 21 C -0.05 -0.93 7.56 44.29 0.34 -0.59 16 22 C 0.05 0.69 12.63 87.31 1.10 1.79 16 23 N -0.36 -5.44 12.22 -61.44 -0.75 -6.19 16 24 O 0.34 5.42 11.65 140.85 1.64 7.06 16 25 N -0.32 -5.43 12.13 -52.07 -0.63 -6.06 16 26 C 0.11 1.66 3.42 30.64 0.10 1.76 16 27 H 0.10 0.85 8.14 -2.39 -0.02 0.83 16 28 O -0.57 -9.99 12.06 -148.98 -1.80 -11.78 16 29 C 0.02 0.36 5.12 86.32 0.44 0.80 16 30 H 0.28 15.41 8.31 -92.71 -0.77 14.64 16 31 H 0.39 14.75 5.76 -92.70 -0.53 14.22 16 32 H 0.13 2.73 7.99 -2.39 -0.02 2.71 16 33 H 0.08 1.82 8.12 -2.39 -0.02 1.80 16 34 H 0.06 2.41 5.78 -2.39 -0.01 2.40 16 35 H 0.04 1.09 8.14 -2.39 -0.02 1.07 16 36 H 0.06 1.68 8.14 -2.38 -0.02 1.66 16 37 H 0.06 1.97 7.80 -2.39 -0.02 1.95 16 38 H 0.42 7.11 7.97 -92.71 -0.74 6.37 16 39 H 0.26 1.58 8.06 -2.91 -0.02 1.55 16 40 H 0.40 4.07 9.08 -74.05 -0.67 3.40 16 41 H 0.11 1.22 8.01 -2.39 -0.02 1.20 16 42 H 0.06 0.79 8.14 -2.39 -0.02 0.77 16 Total: -1.00 -83.22 357.99 -2.17 -85.39 By element: Atomic # 1 Polarization: 34.96 SS G_CDS: -0.89 Total: 34.08 kcal Atomic # 6 Polarization: 17.39 SS G_CDS: 5.82 Total: 23.20 kcal Atomic # 7 Polarization: -122.39 SS G_CDS: -8.74 Total: -131.14 kcal Atomic # 8 Polarization: -51.59 SS G_CDS: -0.26 Total: -51.85 kcal Atomic # 14 Polarization: 38.41 SS G_CDS: 1.90 Total: 40.31 kcal Total: -83.22 -2.17 -85.39 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. ZINC001100041563.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 73.754 kcal (2) G-P(sol) polarization free energy of solvation -83.220 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -9.466 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.167 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -85.387 kcal (6) G-S(sol) free energy of system = (1) + (5) -11.633 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.78 seconds