Wall clock time and date at job start Tue Mar 31 2020 03:28:25 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 1.31519 * 1 3 3 Si 1.86793 * 120.00024 * 2 1 4 4 H 1.48507 * 109.47047 * 239.99674 * 3 2 1 5 5 H 1.48497 * 109.47269 * 359.97438 * 3 2 1 6 6 H 1.48501 * 109.47539 * 119.99681 * 3 2 1 7 7 C 1.37878 * 119.99695 * 179.97438 * 2 1 3 8 8 C 1.51270 * 120.85206 * 0.02562 * 7 2 1 9 9 C 1.53230 * 108.53373 * 231.32267 * 8 7 2 10 10 C 1.52960 * 109.40325 * 305.37070 * 9 8 7 11 11 H 1.09006 * 109.41315 * 303.56042 * 10 9 8 12 12 N 1.46499 * 109.41324 * 183.70740 * 10 9 8 13 13 C 1.34781 * 120.00156 * 154.99984 * 12 10 9 14 14 O 1.21282 * 119.99908 * 359.97438 * 13 12 10 15 15 C 1.50703 * 119.99869 * 179.97438 * 13 12 10 16 16 H 1.08991 * 108.86837 * 318.58574 * 15 13 12 17 17 C 1.52826 * 108.88990 * 77.08368 * 15 13 12 18 18 S 1.82041 * 108.22065 * 172.57275 * 17 15 13 19 19 C 1.81837 * 101.24970 * 298.60479 * 18 17 15 20 20 C 1.50145 * 109.06631 * 44.08352 * 19 18 17 21 21 O 1.21283 * 116.83117 * 159.71387 * 20 19 18 22 22 N 1.31774 * 126.33911 * 339.42009 * 20 19 18 23 23 C 1.52961 * 109.81937 * 63.59993 * 10 9 8 24 24 C 1.51276 * 120.84696 * 179.97438 * 7 2 1 25 25 H 0.96995 * 120.00118 * 0.02562 * 1 2 3 26 26 H 1.09003 * 109.62665 * 111.60959 * 8 7 2 27 27 H 1.08990 * 109.62576 * 351.03416 * 8 7 2 28 28 H 1.09002 * 109.48123 * 185.39269 * 9 8 7 29 29 H 1.08998 * 109.48604 * 65.35113 * 9 8 7 30 30 H 0.96999 * 119.99963 * 334.99984 * 12 10 9 31 31 H 1.08992 * 109.71131 * 292.26026 * 17 15 13 32 32 H 1.09005 * 109.71232 * 52.84648 * 17 15 13 33 33 H 1.09003 * 109.54104 * 284.20212 * 19 18 17 34 34 H 1.09004 * 109.54068 * 163.95779 * 19 18 17 35 35 H 0.97004 * 115.07955 * 186.49281 * 22 20 19 36 36 H 1.08996 * 109.47954 * 56.38091 * 23 10 9 37 37 H 1.08999 * 109.48317 * 176.42326 * 23 10 9 38 38 H 1.09001 * 109.62297 * 248.39380 * 24 7 2 39 39 H 1.08998 * 109.62675 * 8.76736 * 24 7 2 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 2.2492 1.6177 0.0000 4 1 3.1030 1.6963 -1.2125 5 1 1.2842 2.7464 -0.0006 6 1 3.1029 1.6965 1.2125 7 6 2.0045 -1.1941 0.0005 8 6 1.2677 -2.5152 0.0005 9 6 1.8229 -3.3826 1.1351 10 6 3.3399 -3.5070 0.9839 11 1 3.5739 -3.9112 -0.0010 12 7 3.8599 -4.4075 2.0158 13 6 5.0174 -5.0676 1.8133 14 8 5.6283 -4.9164 0.7766 15 6 5.5525 -5.9935 2.8751 16 1 5.4138 -5.5283 3.8510 17 6 4.7622 -7.3009 2.8356 18 16 5.5609 -8.4833 3.9660 19 6 7.2082 -8.6379 3.2117 20 6 7.7045 -7.2723 2.8334 21 8 8.9008 -7.1487 2.6766 22 7 6.9663 -6.1963 2.6500 23 6 3.9907 -2.1310 1.1350 24 6 3.5171 -1.2165 0.0000 25 1 -0.4850 0.8400 -0.0004 26 1 1.4199 -3.0193 -0.9538 27 1 0.2037 -2.3409 0.1601 28 1 1.3706 -4.3733 1.0900 29 1 1.5899 -2.9197 2.0941 30 1 3.3711 -4.5288 2.8449 31 1 3.7365 -7.1203 3.1569 32 1 4.7646 -7.7015 1.8218 33 1 7.1440 -9.2623 2.3205 34 1 7.8955 -9.0905 3.9265 35 1 7.4442 -5.4223 2.3130 36 1 3.7064 -1.6977 2.0939 37 1 5.0748 -2.2347 1.0898 38 1 3.8771 -1.6006 -0.9545 39 1 3.8983 -0.2073 0.1556 RHF calculation, no. of doubly occupied orbitals= 53 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 ZINC001180555102.mol2 39 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 03:28:25 Heat of formation + Delta-G solvation = -103.030368 kcal Electronic energy + Delta-G solvation = -22177.870589 eV Core-core repulsion = 18823.973232 eV Total energy + Delta-G solvation = -3353.897357 eV No. of doubly occupied orbitals = 53 Molecular weight (most abundant/longest-lived isotopes) = 298.114 amu Computer time = 0.63 seconds Orbital eigenvalues (eV) -41.83115 -40.64717 -38.61961 -36.76597 -35.47812 -33.56376 -31.85382 -31.44804 -31.13448 -29.06259 -26.22513 -24.09200 -23.32970 -21.95346 -21.34478 -20.95094 -19.28388 -18.26112 -18.15049 -17.79420 -17.22346 -16.74043 -16.47475 -16.43162 -15.97407 -15.36885 -15.25111 -14.94519 -14.57517 -14.40896 -14.15004 -14.01917 -13.91557 -13.48502 -13.44092 -12.85571 -12.76881 -12.66454 -12.56186 -12.04550 -11.98324 -11.83644 -11.61032 -11.46151 -10.96127 -10.79359 -10.72307 -10.55767 -10.32402 -9.97250 -8.89090 -8.18552 -6.12007 0.33475 0.93196 1.36039 1.38166 1.41143 1.46927 1.48272 1.75430 2.28159 2.39684 3.09224 3.09890 3.33395 3.56753 3.80973 4.03756 4.05208 4.19299 4.31077 4.36305 4.49245 4.53822 4.71824 4.84028 4.96191 5.07282 5.10083 5.20360 5.24975 5.31844 5.55338 5.56702 5.65937 5.76409 5.84100 6.07449 6.34043 6.50747 6.81525 6.94279 7.16087 7.46430 8.91919 Molecular weight = 298.11amu Principal moments of inertia in cm(-1) A = 0.032388 B = 0.003310 C = 0.003096 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 864.322983 B = 8457.753333 C = 9040.794714 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.927 5.927 2 C 0.028 3.972 3 Si 0.936 3.064 4 H -0.274 1.274 5 H -0.293 1.293 6 H -0.264 1.264 7 C -0.500 4.500 8 C 0.007 3.993 9 C -0.100 4.100 10 C 0.167 3.833 11 H 0.058 0.942 12 N -0.698 5.698 13 C 0.504 3.496 14 O -0.573 6.573 15 C 0.136 3.864 16 H 0.143 0.857 17 C -0.097 4.097 18 S -0.205 6.205 19 C -0.103 4.103 20 C 0.525 3.475 21 O -0.590 6.590 22 N -0.695 5.695 23 C -0.107 4.107 24 C -0.013 4.013 25 H 0.264 0.736 26 H -0.003 1.003 27 H 0.034 0.966 28 H 0.066 0.934 29 H 0.061 0.939 30 H 0.418 0.582 31 H 0.164 0.836 32 H 0.099 0.901 33 H 0.139 0.861 34 H 0.155 0.845 35 H 0.401 0.599 36 H 0.059 0.941 37 H 0.041 0.959 38 H 0.012 0.988 39 H 0.024 0.976 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 7.397 -16.167 11.050 20.933 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 -0.566 5.566 2 C -0.170 4.170 3 Si 0.764 3.236 4 H -0.200 1.200 5 H -0.220 1.220 6 H -0.189 1.189 7 C -0.519 4.519 8 C -0.031 4.031 9 C -0.138 4.138 10 C 0.063 3.937 11 H 0.076 0.924 12 N -0.349 5.349 13 C 0.287 3.713 14 O -0.452 6.452 15 C 0.025 3.975 16 H 0.160 0.840 17 C -0.246 4.246 18 S 0.023 5.977 19 C -0.253 4.253 20 C 0.311 3.689 21 O -0.472 6.472 22 N -0.344 5.344 23 C -0.146 4.146 24 C -0.051 4.051 25 H 0.073 0.927 26 H 0.015 0.985 27 H 0.053 0.947 28 H 0.084 0.916 29 H 0.080 0.920 30 H 0.256 0.744 31 H 0.182 0.818 32 H 0.117 0.883 33 H 0.157 0.843 34 H 0.173 0.827 35 H 0.237 0.763 36 H 0.078 0.922 37 H 0.060 0.940 38 H 0.031 0.969 39 H 0.043 0.957 Dipole moment (debyes) X Y Z Total from point charges 7.687 -16.671 11.297 21.555 hybrid contribution 0.545 2.142 -1.360 2.595 sum 8.232 -14.529 9.937 19.432 Atomic orbital electron populations 1.69927 1.07374 1.27545 1.51771 1.25491 0.95288 1.01351 0.94911 0.85907 0.78425 0.80020 0.79296 1.19981 1.21975 1.18888 1.20596 0.90722 0.92167 1.48440 1.19307 0.97354 0.93220 0.93213 1.21694 0.92479 0.99232 1.00430 1.20655 0.93969 0.88561 0.90547 0.92361 1.46016 1.23145 1.44085 1.21647 1.20995 0.81437 0.80825 0.88014 1.90769 1.59035 1.65974 1.29372 1.20993 0.80744 0.96229 0.99495 0.83990 1.23794 1.03937 0.93311 1.03517 1.87382 1.11521 1.59221 1.39612 1.23654 0.98401 0.95340 1.07946 1.19803 0.86224 0.86595 0.76242 1.90816 1.16903 1.85343 1.54101 1.44744 1.08979 1.15030 1.65676 1.21788 0.97546 0.95568 0.99721 1.19619 0.95143 0.95439 0.94941 0.92714 0.98500 0.94725 0.91567 0.92035 0.74399 0.81842 0.88285 0.84307 0.82676 0.76328 0.92213 0.94030 0.96942 0.95714 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 -0.93 -52.24 12.73 21.45 0.27 -51.96 16 2 C 0.03 1.51 5.46 84.65 0.46 1.97 16 3 Si 0.94 42.54 26.80 68.60 1.84 44.38 16 4 H -0.27 -12.34 7.11 99.48 0.71 -11.63 16 5 H -0.29 -13.28 7.11 99.48 0.71 -12.57 16 6 H -0.26 -11.44 7.11 99.48 0.71 -10.73 16 7 C -0.50 -25.09 5.51 -16.17 -0.09 -25.17 16 8 C 0.01 0.33 5.97 30.11 0.18 0.51 16 9 C -0.10 -3.44 5.40 30.66 0.17 -3.27 16 10 C 0.17 5.43 2.35 44.97 0.11 5.53 16 11 H 0.06 2.20 7.58 -2.38 -0.02 2.19 16 12 N -0.70 -15.27 5.07 -442.64 -2.25 -17.52 16 13 C 0.50 11.56 6.87 87.66 0.60 12.16 16 14 O -0.57 -19.06 15.86 -3.04 -0.05 -19.11 16 15 C 0.14 2.03 3.33 44.54 0.15 2.18 16 16 H 0.14 1.34 8.14 -2.39 -0.02 1.32 16 17 C -0.10 -1.06 5.89 71.92 0.42 -0.64 16 18 S -0.21 -2.48 22.40 -56.49 -1.27 -3.75 16 19 C -0.10 -1.42 6.61 71.06 0.47 -0.95 16 20 C 0.53 11.35 7.65 87.94 0.67 12.02 16 21 O -0.59 -17.85 17.60 -3.04 -0.05 -17.91 16 22 N -0.69 -14.08 4.64 -454.79 -2.11 -16.19 16 23 C -0.11 -3.96 5.50 30.67 0.17 -3.79 16 24 C -0.01 -0.59 5.60 30.12 0.17 -0.42 16 25 H 0.26 14.25 8.31 -92.71 -0.77 13.48 16 26 H 0.00 -0.16 8.14 -2.39 -0.02 -0.18 16 27 H 0.03 1.77 7.07 -2.39 -0.02 1.76 16 28 H 0.07 1.91 8.14 -2.39 -0.02 1.89 16 29 H 0.06 2.08 8.14 -2.39 -0.02 2.06 16 30 H 0.42 5.87 8.60 -92.71 -0.80 5.07 16 31 H 0.16 0.91 8.14 -2.39 -0.02 0.89 16 32 H 0.10 1.26 8.13 -2.38 -0.02 1.25 16 33 H 0.14 1.53 8.14 -2.39 -0.02 1.51 16 34 H 0.16 1.75 8.14 -2.39 -0.02 1.73 16 35 H 0.40 9.59 7.85 -92.71 -0.73 8.86 16 36 H 0.06 2.13 8.14 -2.39 -0.02 2.11 16 37 H 0.04 1.50 8.14 -2.39 -0.02 1.48 16 38 H 0.01 0.56 8.14 -2.39 -0.02 0.54 16 39 H 0.02 1.09 5.17 -2.39 -0.01 1.08 16 Total: -1.00 -69.26 326.68 -0.57 -69.83 By element: Atomic # 1 Polarization: 12.54 SS G_CDS: -0.44 Total: 12.10 kcal Atomic # 6 Polarization: -3.35 SS G_CDS: 3.48 Total: 0.12 kcal Atomic # 7 Polarization: -81.59 SS G_CDS: -4.08 Total: -85.67 kcal Atomic # 8 Polarization: -36.91 SS G_CDS: -0.10 Total: -37.02 kcal Atomic # 14 Polarization: 42.54 SS G_CDS: 1.84 Total: 44.38 kcal Atomic # 16 Polarization: -2.48 SS G_CDS: -1.27 Total: -3.75 kcal Total: -69.26 -0.57 -69.83 kcal The number of atoms in the molecule is 39 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. ZINC001180555102.mol2 39 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 -33.200 kcal (2) G-P(sol) polarization free energy of solvation -69.262 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -102.462 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.568 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -69.830 kcal (6) G-S(sol) free energy of system = (1) + (5) -103.030 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.63 seconds