Wall clock time and date at job start Mon Mar 30 2020 03:11:13
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
* DEV - DEVELOPER OPTIONS ARE ALLOWED
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS USER-SPECIFIED
* DIELEC - THE SOLVENT DIELECTRIC CONSTANT IS 2.06
* IOFR - THE SOLVENT INDEX OF REFRACTION IS 1.4345
* ALPHA - THE SOLVENT ALPHA IS 0.00
* BETA - THE SOLVENT BETA IS 0.00
* GAMMA - THE SOLVENT MACROSCOPIC SURFACE TENSION IS
* 38.93 CAL MOL^-1 ANGSTROM^-2
* FACARB - THE FRACTION OF AROMATIC CARBONS IS 0.00
* FEHALO - THE FRACTION OF ELECTRONEGATIVE HALOGENS IS 0.00
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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 C
2 2 C 1.52998 * 1
3 3 C 1.52998 * 109.47281 * 2 1
4 4 H 1.09008 * 109.47060 * 177.66118 * 3 2 1
5 5 C 1.50692 * 109.47123 * 297.66189 * 3 2 1
6 6 H 1.08001 * 119.99861 * 120.00420 * 5 3 2
7 7 C 1.37870 * 120.00351 * 299.99889 * 5 3 2
8 8 N 1.31520 * 120.00058 * 0.02562 * 7 5 3
9 9 Si 1.86799 * 120.00180 * 179.97438 * 7 5 3
10 10 H 1.48495 * 109.47303 * 60.00373 * 9 7 5
11 11 H 1.48503 * 109.47305 * 179.97438 * 9 7 5
12 12 H 1.48503 * 109.47313 * 299.99906 * 9 7 5
13 13 N 1.46902 * 109.46974 * 57.66488 * 3 2 1
14 14 C 1.46904 * 110.99718 * 183.37741 * 13 3 2
15 15 C 1.46895 * 110.99839 * 59.42440 * 13 3 2
16 16 H 1.08993 * 109.50696 * 308.12252 * 15 13 3
17 17 C 1.53123 * 109.50143 * 188.00636 * 15 13 3
18 18 C 1.53123 * 109.16189 * 182.40468 * 17 15 13
19 19 C 1.53042 * 109.27790 * 57.65528 * 18 17 15
20 20 N 1.46854 * 109.51941 * 300.82118 * 19 18 17
21 21 C 1.46837 * 111.19851 * 61.74395 * 20 19 18
22 22 H 1.09001 * 109.46808 * 295.63005 * 1 2 3
23 23 H 1.09000 * 109.47139 * 55.62609 * 1 2 3
24 24 H 1.09000 * 109.47236 * 175.62852 * 1 2 3
25 25 H 1.08998 * 109.47140 * 120.00268 * 2 1 3
26 26 H 1.08999 * 109.46869 * 240.00168 * 2 1 3
27 27 H 0.96999 * 119.99949 * 179.97438 * 8 7 5
28 28 H 1.09000 * 109.46839 * 60.00303 * 14 13 3
29 29 H 1.09000 * 109.46838 * 179.97438 * 14 13 3
30 30 H 1.08997 * 109.47046 * 299.99768 * 14 13 3
31 31 H 1.09002 * 109.52001 * 302.30911 * 17 15 13
32 32 H 1.08997 * 109.52595 * 62.49775 * 17 15 13
33 33 H 1.08991 * 109.50371 * 297.71093 * 18 17 15
34 34 H 1.09003 * 109.53567 * 177.61363 * 18 17 15
35 35 H 1.08994 * 109.46114 * 180.80449 * 19 18 17
36 36 H 1.08995 * 109.46262 * 60.83195 * 19 18 17
37 37 H 1.00895 * 110.99731 * 297.64402 * 20 19 18
38 38 H 1.09001 * 109.46219 * 178.23962 * 21 20 19
39 39 H 1.08995 * 109.46617 * 58.27353 * 21 20 19
Note: An asterisk (*) indicates this parameter was or will be optimized.
Cartesian coordinates (angstroms)
NO. Atom X Y Z
1 6 0.0000 0.0000 0.0000
2 6 1.5300 0.0000 0.0000
3 6 2.0400 1.4425 0.0000
4 1 3.1293 1.4427 0.0419
5 6 1.5856 2.1359 -1.2584
6 1 0.9617 3.0152 -1.1951
7 6 1.9664 1.6481 -2.4903
8 7 2.7259 0.5771 -2.5674
9 14 1.4025 2.5073 -4.0502
10 1 1.8970 3.9075 -4.0505
11 1 1.9442 1.7914 -5.2332
12 1 -0.0814 2.5063 -4.1071
13 7 1.5048 2.1510 1.1702
14 6 1.9091 3.5633 1.1608
15 6 1.9171 1.4938 2.4176
16 1 1.6719 0.4329 2.3682
17 6 1.1838 2.1342 3.5994
18 6 1.6636 1.4845 4.9004
19 6 3.1802 1.6521 5.0195
20 7 3.8355 1.0223 3.8660
21 6 3.4263 1.6610 2.6087
22 1 -0.3633 0.4445 0.9266
23 1 -0.3633 0.5802 -0.8482
24 1 -0.3634 -1.0247 -0.0783
25 1 1.8933 -0.5139 0.8899
26 1 1.8933 -0.5138 -0.8900
27 1 2.9936 0.2337 -3.4342
28 1 1.5308 4.0435 0.2583
29 1 1.4991 4.0645 2.0376
30 1 2.9969 3.6300 1.1792
31 1 1.3981 3.2027 3.6252
32 1 0.1105 1.9796 3.4893
33 1 1.4143 0.4236 4.8907
34 1 1.1767 1.9651 5.7490
35 1 3.5269 1.1781 5.9377
36 1 3.4276 2.7133 5.0429
37 1 3.6531 0.0302 3.8437
38 1 3.9518 1.1935 1.7760
39 1 3.6725 2.7222 2.6435
RHF calculation, no. of doubly occupied orbitals= 44
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)
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC000082499471.mol2 39
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Mon Mar 30 2020 03:11:13
Heat of formation + Delta-G solvation = -0.072449 kcal
Electronic energy + Delta-G solvation = -17151.480216 eV
Core-core repulsion = 14707.626529 eV
Total energy + Delta-G solvation = -2443.853686 eV
No. of doubly occupied orbitals = 44
Molecular weight
(most abundant/longest-lived isotopes) = 226.174 amu
Computer time = 0.28 seconds
Orbital eigenvalues (eV)
-39.25136 -36.16609 -33.02600 -31.34798 -30.93376 -29.04654 -26.24498 -25.15985
-23.38740 -22.84886 -21.59834 -19.93291 -18.45117 -16.21110 -15.63122 -15.36049
-14.61114 -14.52219 -14.18201 -13.74098 -13.38566 -12.80009 -12.35990 -12.29366
-11.99457 -11.92513 -11.56207 -11.24187 -10.95978 -10.92091 -10.87267 -10.75708
-10.49008 -10.42490 -10.05306 -9.75655 -9.54361 -9.37992 -8.80339 -8.48950
-8.28364 -6.90973 -5.99176 -4.02775 3.32234 3.37019 3.39617 4.39847
4.52569 4.91977 5.09483 5.21018 5.30914 5.34827 5.53848 5.65155
5.77995 5.82537 5.99870 6.06025 6.17396 6.23963 6.34197 6.40356
6.49532 6.52678 6.57464 6.70606 6.81067 6.84873 7.12874 7.18930
7.35519 7.45309 7.57944 7.68203 7.77367 7.84924 8.20778 8.36416
8.63688 9.02518 9.61121 11.07059
Molecular weight = 226.17amu
Principal moments of inertia in cm(-1)
A = 0.041849 B = 0.007744 C = 0.007630
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 668.904843 B = 3614.815999 C = 3668.679022
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.121 4.121
2 C -0.111 4.111
3 C 0.216 3.784
4 H 0.001 0.999
5 C -0.498 4.498
6 H 0.061 0.939
7 C 0.060 3.940
8 N -0.892 5.892
9 Si 0.893 3.107
10 H -0.279 1.279
11 H -0.288 1.288
12 H -0.277 1.277
13 N -0.525 5.525
14 C 0.033 3.967
15 C 0.048 3.952
16 H 0.079 0.921
17 C -0.111 4.111
18 C -0.156 4.156
19 C 0.057 3.943
20 N -0.686 5.686
21 C 0.024 3.976
22 H 0.039 0.961
23 H 0.059 0.941
24 H 0.014 0.986
25 H 0.011 0.989
26 H 0.092 0.908
27 H 0.260 0.740
28 H 0.073 0.927
29 H 0.043 0.957
30 H 0.014 0.986
31 H 0.060 0.940
32 H 0.065 0.935
33 H 0.059 0.941
34 H 0.062 0.938
35 H 0.068 0.932
36 H 0.068 0.932
37 H 0.337 0.663
38 H 0.078 0.922
39 H 0.070 0.930
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -1.084 1.140 11.151 11.262
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 C -0.178 4.178
2 C -0.149 4.149
3 C 0.110 3.890
4 H 0.018 0.982
5 C -0.537 4.537
6 H 0.079 0.921
7 C -0.141 4.141
8 N -0.532 5.532
9 Si 0.721 3.279
10 H -0.204 1.204
11 H -0.214 1.214
12 H -0.203 1.203
13 N -0.249 5.249
14 C -0.116 4.116
15 C -0.062 4.062
16 H 0.097 0.903
17 C -0.149 4.149
18 C -0.196 4.196
19 C -0.073 4.073
20 N -0.314 5.314
21 C -0.107 4.107
22 H 0.058 0.942
23 H 0.078 0.922
24 H 0.033 0.967
25 H 0.029 0.971
26 H 0.110 0.890
27 H 0.070 0.930
28 H 0.092 0.908
29 H 0.061 0.939
30 H 0.033 0.967
31 H 0.079 0.921
32 H 0.083 0.917
33 H 0.078 0.922
34 H 0.080 0.920
35 H 0.086 0.914
36 H 0.086 0.914
37 H 0.154 0.846
38 H 0.097 0.903
39 H 0.089 0.911
Dipole moment (debyes) X Y Z Total
from point charges -0.917 1.386 11.016 11.140
hybrid contribution -0.346 0.091 -0.985 1.048
sum -1.263 1.477 10.031 10.217
Atomic orbital electron populations
1.21462 0.97392 0.97516 1.01420 1.21570 0.95054 0.98366 0.99925
1.19275 0.92579 0.90674 0.86459 0.98171 1.21056 1.30959 1.11898
0.89764 0.92075 1.24896 0.95219 0.95086 0.98907 1.69864 1.36226
1.22462 1.24608 0.86644 0.79019 0.79561 0.82676 1.20429 1.21416
1.20289 1.62278 1.59447 1.01645 1.01510 1.22263 0.97321 0.90890
1.01083 1.22393 0.93116 0.99577 0.91163 0.90295 1.21630 1.00388
0.99707 0.93168 1.22276 0.97955 1.01019 0.98304 1.21999 0.91423
1.00099 0.93760 1.60677 1.60271 1.07673 1.02781 1.22779 0.96269
1.00123 0.91483 0.94217 0.92239 0.96656 0.97050 0.88982 0.92979
0.90832 0.93851 0.96708 0.92128 0.91672 0.92239 0.91960 0.91362
0.91383 0.84599 0.90316 0.91139
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 12.
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 C -0.12 -2.65 9.52 37.16 0.35 -2.30 16
2 C -0.11 -2.62 5.07 -26.73 -0.14 -2.75 16
3 C 0.22 5.23 1.51 -68.87 -0.10 5.13 16
4 H 0.00 0.02 6.59 -51.92 -0.34 -0.32 16
5 C -0.50 -13.21 6.71 -34.45 -0.23 -13.44 16
6 H 0.06 1.63 6.43 -52.49 -0.34 1.29 16
7 C 0.06 1.62 5.30 -17.82 -0.09 1.53 16
8 N -0.89 -25.04 11.30 55.43 0.63 -24.41 16
9 Si 0.89 21.16 29.54 -169.99 -5.02 16.14 16
10 H -0.28 -6.55 7.11 56.52 0.40 -6.15 16
11 H -0.29 -6.83 7.11 56.52 0.40 -6.43 16
12 H -0.28 -6.54 7.11 56.52 0.40 -6.14 16
13 N -0.53 -10.85 3.81 -228.20 -0.87 -11.72 16
14 C 0.03 0.64 8.40 60.07 0.50 1.14 16
15 C 0.05 0.85 2.13 -67.63 -0.14 0.71 16
16 H 0.08 1.48 5.94 -51.93 -0.31 1.17 16
17 C -0.11 -1.66 5.22 -26.60 -0.14 -1.79 16
18 C -0.16 -1.91 6.08 -26.65 -0.16 -2.07 16
19 C 0.06 0.71 6.55 -3.83 -0.03 0.68 16
20 N -0.69 -10.03 6.87 -113.82 -0.78 -10.81 16
21 C 0.02 0.42 5.12 -3.84 -0.02 0.40 16
22 H 0.04 0.83 7.69 -51.93 -0.40 0.43 16
23 H 0.06 1.42 7.15 -51.93 -0.37 1.05 16
24 H 0.01 0.29 8.14 -51.93 -0.42 -0.13 16
25 H 0.01 0.24 6.35 -51.93 -0.33 -0.09 16
26 H 0.09 2.44 6.01 -51.93 -0.31 2.13 16
27 H 0.26 7.04 8.31 -40.82 -0.34 6.71 16
28 H 0.07 1.53 6.27 -51.93 -0.33 1.20 16
29 H 0.04 0.73 6.18 -51.93 -0.32 0.41 16
30 H 0.01 0.28 6.45 -51.93 -0.34 -0.05 16
31 H 0.06 0.90 6.32 -51.93 -0.33 0.58 16
32 H 0.06 1.01 8.14 -51.93 -0.42 0.58 16
33 H 0.06 0.73 8.14 -51.93 -0.42 0.30 16
34 H 0.06 0.67 8.14 -51.93 -0.42 0.25 16
35 H 0.07 0.73 8.14 -51.93 -0.42 0.31 16
36 H 0.07 0.86 8.14 -51.93 -0.42 0.44 16
37 H 0.34 4.65 8.86 -39.29 -0.35 4.30 16
38 H 0.08 1.55 6.68 -51.93 -0.35 1.20 16
39 H 0.07 1.24 6.38 -51.93 -0.33 0.91 16
LS Contribution 284.91 15.07 4.29 4.29
Total: -1.00 -26.96 284.91 -8.36 -35.32
By element:
Atomic # 1 Polarization: 10.36 SS G_CDS: -6.41 Total: 3.96 kcal
Atomic # 6 Polarization: -12.58 SS G_CDS: -0.20 Total: -12.77 kcal
Atomic # 7 Polarization: -45.91 SS G_CDS: -1.02 Total: -46.94 kcal
Atomic # 14 Polarization: 21.16 SS G_CDS: -5.02 Total: 16.14 kcal
Total LS contribution 4.29 Total: 4.29 kcal
Total: -26.96 -8.36 -35.32 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.
ZINC000082499471.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 35.248 kcal
(2) G-P(sol) polarization free energy of solvation -26.964 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 8.283 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -8.356 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -35.320 kcal
(6) G-S(sol) free energy of system = (1) + (5) -0.072 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.28 seconds