Wall clock time and date at job start Tue Mar 31 2020 21:33:32 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 1.31517 * 1 3 3 Si 1.86800 * 119.99993 * 2 1 4 4 H 1.48491 * 109.47281 * 269.99701 * 3 2 1 5 5 H 1.48501 * 109.47224 * 30.00184 * 3 2 1 6 6 H 1.48508 * 109.46559 * 149.99924 * 3 2 1 7 7 C 1.37881 * 119.99629 * 179.97438 * 2 1 3 8 8 H 1.07998 * 120.00120 * 0.02562 * 7 2 1 9 9 C 1.50700 * 119.99500 * 180.02562 * 7 2 1 10 10 C 1.52998 * 109.46691 * 180.02562 * 9 7 2 11 11 S 1.81401 * 109.47126 * 179.97438 * 10 9 7 12 12 O 1.42096 * 110.54415 * 291.62745 * 11 10 9 13 13 O 1.42099 * 110.53988 * 68.37851 * 11 10 9 14 14 N 1.65596 * 104.45094 * 180.02562 * 11 10 9 15 15 C 1.46692 * 121.34017 * 261.12280 * 14 11 10 16 16 C 1.51217 * 109.44713 * 135.47199 * 15 14 11 17 17 C 1.38840 * 117.77756 * 191.05416 * 16 15 14 18 18 C 1.37952 * 120.50725 * 181.34704 * 17 16 15 19 19 C 1.38272 * 119.71682 * 359.97400 * 18 17 16 20 20 C 1.37907 * 119.82479 * 359.75645 * 19 18 17 21 21 C 1.37660 * 122.36678 * 11.94053 * 16 15 14 22 22 C 1.50600 * 122.86324 * 358.32062 * 21 16 15 23 23 C 1.47231 * 121.33762 * 81.40186 * 14 11 10 24 24 H 1.09000 * 109.77443 * 124.57499 * 23 14 11 25 25 C 1.50700 * 109.77371 * 3.83288 * 23 14 11 26 26 N 1.34776 * 120.00020 * 123.14664 * 25 23 14 27 27 O 1.21278 * 119.99625 * 303.14558 * 25 23 14 28 28 H 0.96998 * 119.99871 * 359.97438 * 1 2 3 29 29 H 1.08995 * 109.46987 * 60.00669 * 9 7 2 30 30 H 1.09003 * 109.47289 * 300.00087 * 9 7 2 31 31 H 1.09003 * 109.47229 * 300.00006 * 10 9 7 32 32 H 1.09005 * 109.47060 * 60.00355 * 10 9 7 33 33 H 1.08999 * 109.43424 * 255.63679 * 15 14 11 34 34 H 1.08998 * 109.43625 * 15.50671 * 15 14 11 35 35 H 1.08000 * 119.74406 * 1.37278 * 17 16 15 36 36 H 1.08004 * 120.14593 * 180.02562 * 18 17 16 37 37 H 1.07998 * 120.08901 * 179.77262 * 19 18 17 38 38 H 1.07997 * 119.70731 * 180.02562 * 20 19 18 39 39 H 1.09005 * 109.20094 * 259.79132 * 22 21 16 40 40 H 1.09004 * 109.19590 * 140.50524 * 22 21 16 41 41 H 0.97001 * 120.00239 * 0.02562 * 26 25 23 42 42 H 0.96996 * 119.99634 * 180.02562 * 26 25 23 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 2.4967 2.0464 -1.4000 5 1 1.4466 2.6527 0.7001 6 1 3.5468 1.4400 0.7001 7 6 2.0045 -1.1941 0.0005 8 1 1.4645 -2.1294 0.0005 9 6 3.5115 -1.1941 0.0011 10 6 4.0214 -2.6366 0.0010 11 16 5.8354 -2.6367 0.0009 12 8 6.3341 -2.1462 -1.2360 13 8 6.3341 -2.1465 1.2380 14 7 6.2486 -4.2403 0.0001 15 6 6.6262 -4.9315 1.2376 16 6 5.9367 -6.2762 1.2937 17 6 5.9819 -6.9771 2.4913 18 6 5.3956 -8.2213 2.5972 19 6 4.7577 -8.7739 1.5019 20 6 4.7074 -8.0762 0.3134 21 6 5.2939 -6.8207 0.2050 22 6 5.1892 -6.1133 -1.1204 23 6 6.2575 -5.0280 -1.2437 24 1 7.2363 -5.4873 -1.3824 25 6 5.9433 -4.1342 -2.4156 26 7 6.8072 -4.0456 -3.4463 27 8 4.9130 -3.4946 -2.4312 28 1 -0.4850 0.8400 0.0004 29 1 3.8744 -0.6802 0.8912 30 1 3.8752 -0.6804 -0.8888 31 1 3.6577 -3.1506 0.8907 32 1 3.6584 -3.1502 -0.8893 33 1 7.7068 -5.0728 1.2588 34 1 6.3226 -4.3315 2.0954 35 1 6.4795 -6.5446 3.3468 36 1 5.4339 -8.7612 3.5318 37 1 4.2999 -9.7491 1.5770 38 1 4.2084 -8.5094 -0.5408 39 1 4.2030 -5.6568 -1.2062 40 1 5.3193 -6.8375 -1.9245 41 1 7.6311 -4.5574 -3.4340 42 1 6.6051 -3.4700 -4.2003 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 ZINC000104109011.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 21:33:32 Heat of formation + Delta-G solvation = -102.125433 kcal Electronic energy + Delta-G solvation = -28399.296089 eV Core-core repulsion = 24470.303499 eV Total energy + Delta-G solvation = -3928.992589 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 338.113 amu Computer time = 0.76 seconds Orbital eigenvalues (eV) -41.52140 -40.24721 -38.14925 -37.26176 -37.07010 -35.90759 -34.70060 -33.82415 -33.44073 -32.17107 -30.47826 -27.90399 -26.23731 -25.71745 -23.27462 -23.10857 -22.07704 -21.30194 -19.89551 -19.45797 -18.87902 -18.26607 -17.75067 -17.43843 -17.04240 -16.84881 -16.44654 -16.24159 -16.01776 -15.60580 -15.50661 -15.29857 -14.99481 -14.84544 -14.74123 -14.14320 -13.85519 -13.80191 -13.66010 -13.54463 -13.24379 -13.08337 -13.04684 -12.96306 -12.64420 -12.53030 -12.28291 -12.05432 -12.00927 -11.86975 -11.73007 -11.28696 -10.92038 -10.85064 -10.55462 -10.23307 -9.60496 -9.47618 -8.38766 -6.44032 -0.78070 0.45111 0.50518 1.28047 1.28643 1.29658 1.40448 1.75434 2.27294 2.37316 2.72009 2.85711 2.94163 3.11380 3.52008 3.71596 3.81500 3.89106 3.98229 4.04411 4.09866 4.14552 4.26992 4.32394 4.48230 4.53425 4.57368 4.59784 4.75924 4.82914 4.92015 5.02891 5.13590 5.16062 5.21972 5.30288 5.45398 5.60049 5.67452 5.73851 5.98662 6.14506 6.16476 6.45148 6.59829 7.19228 7.38022 8.77560 Molecular weight = 338.11amu Principal moments of inertia in cm(-1) A = 0.012770 B = 0.004309 C = 0.003872 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2192.111228 B = 6495.978247 C = 7229.910549 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.940 5.940 2 C 0.014 3.986 3 Si 0.928 3.072 4 H -0.261 1.261 5 H -0.266 1.266 6 H -0.252 1.252 7 C -0.525 4.525 8 H 0.042 0.958 9 C -0.005 4.005 10 C -0.588 4.588 11 S 2.622 3.378 12 O -0.967 6.967 13 O -0.987 6.987 14 N -0.988 5.988 15 C 0.159 3.841 16 C -0.108 4.108 17 C -0.121 4.121 18 C -0.125 4.125 19 C -0.124 4.124 20 C -0.126 4.126 21 C -0.077 4.077 22 C -0.089 4.089 23 C 0.140 3.860 24 H 0.145 0.855 25 C 0.508 3.492 26 N -0.816 5.816 27 O -0.574 6.574 28 H 0.271 0.729 29 H 0.027 0.973 30 H 0.023 0.977 31 H 0.120 0.880 32 H 0.143 0.857 33 H 0.115 0.885 34 H 0.098 0.902 35 H 0.141 0.859 36 H 0.144 0.856 37 H 0.142 0.858 38 H 0.137 0.863 39 H 0.071 0.929 40 H 0.122 0.878 41 H 0.419 0.581 42 H 0.410 0.590 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 19.676 -21.025 -1.112 28.817 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 -0.580 5.580 2 C -0.184 4.184 3 Si 0.750 3.250 4 H -0.186 1.186 5 H -0.191 1.191 6 H -0.176 1.176 7 C -0.564 4.564 8 H 0.060 0.940 9 C -0.044 4.044 10 C -0.719 4.719 11 S 2.719 3.281 12 O -0.957 6.957 13 O -0.978 6.978 14 N -0.827 5.827 15 C 0.035 3.965 16 C -0.109 4.109 17 C -0.140 4.140 18 C -0.143 4.143 19 C -0.142 4.142 20 C -0.144 4.144 21 C -0.078 4.078 22 C -0.127 4.127 23 C 0.032 3.968 24 H 0.163 0.837 25 C 0.291 3.709 26 N -0.380 5.380 27 O -0.454 6.454 28 H 0.080 0.920 29 H 0.045 0.955 30 H 0.041 0.959 31 H 0.138 0.862 32 H 0.161 0.839 33 H 0.132 0.868 34 H 0.116 0.884 35 H 0.159 0.841 36 H 0.162 0.838 37 H 0.160 0.840 38 H 0.155 0.845 39 H 0.089 0.911 40 H 0.140 0.860 41 H 0.251 0.749 42 H 0.242 0.758 Dipole moment (debyes) X Y Z Total from point charges 19.509 -19.845 -0.965 27.845 hybrid contribution -0.765 0.614 -0.320 1.032 sum 18.743 -19.230 -1.285 26.884 Atomic orbital electron populations 1.70015 1.07830 1.28427 1.51737 1.25887 0.95722 1.03012 0.93822 0.85989 0.79868 0.79235 0.79920 1.18565 1.19075 1.17562 1.21124 0.90199 0.93752 1.51341 0.93991 1.19233 0.97302 0.90973 0.96859 1.30463 1.23850 1.05969 1.11601 1.04531 0.77657 0.72946 0.72958 1.93495 1.78695 1.78372 1.45095 1.93491 1.79123 1.78797 1.46380 1.57652 1.83344 1.28118 1.13595 1.20598 1.00868 0.90221 0.84803 1.19975 1.00296 0.96207 0.94431 1.21309 1.00276 0.95416 0.96956 1.21398 0.97708 0.95549 0.99647 1.21408 0.99071 1.00809 0.92884 1.21396 0.99665 0.94041 0.99299 1.19412 0.98797 0.95031 0.94544 1.20805 0.98623 0.96847 0.96462 1.21125 1.03705 0.91030 0.80989 0.83711 1.20646 0.83932 0.81023 0.85264 1.43404 1.23576 1.49063 1.21949 1.90809 1.28192 1.46345 1.80102 0.92015 0.95485 0.95913 0.86206 0.83875 0.86754 0.88398 0.84094 0.83802 0.83971 0.84485 0.91075 0.86016 0.74885 0.75832 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 17. 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 -60.97 13.96 21.45 0.30 -60.67 16 2 C 0.01 0.86 5.47 84.66 0.46 1.32 16 3 Si 0.93 46.87 27.47 68.60 1.88 48.76 16 4 H -0.26 -12.67 7.11 99.48 0.71 -11.96 16 5 H -0.27 -12.64 7.11 99.48 0.71 -11.94 16 6 H -0.25 -12.18 6.54 99.48 0.65 -11.53 16 7 C -0.53 -32.80 9.66 25.60 0.25 -32.55 16 8 H 0.04 2.82 7.99 -2.91 -0.02 2.79 16 9 C 0.00 -0.25 4.05 29.85 0.12 -0.13 16 10 C -0.59 -26.12 5.68 71.98 0.41 -25.71 16 11 S 2.62 98.39 4.81 -56.49 -0.27 98.12 16 12 O -0.97 -39.02 13.87 -118.49 -1.64 -40.66 16 13 O -0.99 -40.30 16.64 -127.65 -2.12 -42.42 16 14 N -0.99 -25.95 3.18 -498.71 -1.58 -27.53 16 15 C 0.16 3.37 6.10 85.76 0.52 3.89 16 16 C -0.11 -2.14 5.83 -19.69 -0.11 -2.26 16 17 C -0.12 -2.05 9.62 22.35 0.22 -1.84 16 18 C -0.13 -1.88 10.05 22.21 0.22 -1.66 16 19 C -0.12 -1.87 10.04 22.20 0.22 -1.64 16 20 C -0.13 -2.13 9.59 22.37 0.21 -1.91 16 21 C -0.08 -1.52 5.76 -19.85 -0.11 -1.63 16 22 C -0.09 -1.71 5.20 29.74 0.15 -1.56 16 23 C 0.14 2.87 3.29 44.03 0.14 3.02 16 24 H 0.15 1.63 7.93 -2.39 -0.02 1.61 16 25 C 0.51 13.34 4.63 87.66 0.41 13.75 16 26 N -0.82 -14.10 8.87 -173.54 -1.54 -15.64 16 27 O -0.57 -21.58 12.22 20.04 0.24 -21.34 16 28 H 0.27 16.21 8.31 -92.71 -0.77 15.44 16 29 H 0.03 1.42 7.20 -2.39 -0.02 1.40 16 30 H 0.02 1.22 7.57 -2.39 -0.02 1.20 16 31 H 0.12 5.00 8.14 -2.39 -0.02 4.98 16 32 H 0.14 6.53 5.74 -2.39 -0.01 6.52 16 33 H 0.11 1.73 8.14 -2.39 -0.02 1.72 16 34 H 0.10 2.26 7.14 -2.39 -0.02 2.24 16 35 H 0.14 1.83 8.05 -2.91 -0.02 1.81 16 36 H 0.14 1.47 8.06 -2.91 -0.02 1.44 16 37 H 0.14 1.47 8.06 -2.91 -0.02 1.45 16 38 H 0.14 1.80 8.05 -2.91 -0.02 1.78 16 39 H 0.07 1.80 7.82 -2.38 -0.02 1.78 16 40 H 0.12 1.50 8.10 -2.38 -0.02 1.48 16 41 H 0.42 3.37 8.68 -92.71 -0.80 2.56 16 42 H 0.41 7.15 8.93 -92.71 -0.83 6.32 16 Total: -1.00 -86.97 350.66 -2.24 -89.20 By element: Atomic # 1 Polarization: 21.71 SS G_CDS: -0.62 Total: 21.10 kcal Atomic # 6 Polarization: -52.02 SS G_CDS: 3.11 Total: -48.91 kcal Atomic # 7 Polarization: -101.02 SS G_CDS: -2.83 Total: -103.85 kcal Atomic # 8 Polarization: -100.90 SS G_CDS: -3.52 Total: -104.42 kcal Atomic # 14 Polarization: 46.87 SS G_CDS: 1.88 Total: 48.76 kcal Atomic # 16 Polarization: 98.39 SS G_CDS: -0.27 Total: 98.12 kcal Total: -86.97 -2.24 -89.20 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. ZINC000104109011.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 -12.922 kcal (2) G-P(sol) polarization free energy of solvation -86.966 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -99.888 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.237 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -89.203 kcal (6) G-S(sol) free energy of system = (1) + (5) -102.125 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.76 seconds