Wall clock time and date at job start Mon Mar 30 2020 04:13:40
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.
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* 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 C
2 2 C 1.17403 * 1
3 3 C 1.47198 * 179.97438 * 2 1
4 4 C 1.53004 * 109.47366 * 337.90982 * 3 2 1
5 5 H 1.09004 * 109.46829 * 55.00003 * 4 3 2
6 6 C 1.53000 * 109.47255 * 175.00127 * 4 3 2
7 7 O 1.42902 * 109.46925 * 54.99953 * 6 4 3
8 8 N 1.46897 * 109.47288 * 295.00108 * 4 3 2
9 9 C 1.46899 * 111.00373 * 154.99777 * 8 4 3
10 10 H 1.09004 * 109.46746 * 34.99998 * 9 8 4
11 11 C 1.50702 * 109.47020 * 275.00318 * 9 8 4
12 12 H 1.07994 * 120.00225 * 305.06941 * 11 9 8
13 13 C 1.37882 * 120.00067 * 125.07008 * 11 9 8
14 14 N 1.31510 * 120.00398 * 172.92289 * 13 11 9
15 15 Si 1.86801 * 119.99906 * 352.91891 * 13 11 9
16 16 H 1.48498 * 109.47295 * 85.60553 * 15 13 11
17 17 H 1.48500 * 109.47442 * 205.61113 * 15 13 11
18 18 H 1.48506 * 109.47086 * 325.60913 * 15 13 11
19 19 C 1.50693 * 109.47222 * 155.00120 * 9 8 4
20 20 C 1.38236 * 120.00264 * 45.79046 * 19 9 8
21 21 C 1.38230 * 120.00149 * 179.78837 * 20 19 9
22 22 C 1.38236 * 119.99849 * 0.43596 * 21 20 19
23 23 C 1.38233 * 120.00234 * 359.81857 * 22 21 20
24 24 C 1.38235 * 119.99617 * 226.05910 * 19 9 8
25 25 H 4.44647 * 5.63292 * 179.97438 * 4 1 2
26 26 H 1.09000 * 109.46862 * 217.91421 * 3 2 1
27 27 H 1.09001 * 109.47092 * 97.91296 * 3 2 1
28 28 H 1.08998 * 109.47231 * 175.00470 * 6 4 3
29 29 H 1.09000 * 109.46822 * 295.00318 * 6 4 3
30 30 H 0.96706 * 113.99624 * 179.97438 * 7 6 4
31 31 H 1.00904 * 111.00000 * 278.95554 * 8 4 3
32 32 H 0.96995 * 120.00404 * 179.97438 * 14 13 11
33 33 H 1.08002 * 119.99549 * 359.97438 * 20 19 9
34 34 H 1.07998 * 120.00459 * 180.27023 * 21 20 19
35 35 H 1.08003 * 120.00132 * 179.83161 * 22 21 20
36 36 H 1.07997 * 120.00243 * 179.97438 * 23 22 21
37 37 H 1.08001 * 120.00263 * 359.97438 * 24 19 9
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 1.1740 0.0000 0.0000
3 6 2.6460 0.0007 0.0000
4 6 3.1567 -1.3357 0.5425
5 1 2.7224 -2.1520 -0.0349
6 6 4.6815 -1.3840 0.4267
7 8 5.2454 -0.2485 1.0860
8 7 2.7682 -1.4725 1.9525
9 6 2.6900 -2.8866 2.3424
10 1 3.4598 -3.4515 1.8166
11 6 1.3323 -3.4326 1.9824
12 1 0.4402 -2.9440 2.3452
13 6 1.2290 -4.5561 1.1897
14 7 0.0550 -5.1140 0.9895
15 14 2.7566 -5.2856 0.3999
16 1 3.4147 -6.2110 1.3568
17 1 2.3724 -6.0314 -0.8253
18 1 3.6973 -4.1941 0.0404
19 6 2.9031 -3.0104 3.8290
20 6 2.2453 -2.1571 4.6951
21 6 2.4374 -2.2735 6.0590
22 6 3.2945 -3.2374 6.5564
23 6 3.9564 -4.0872 5.6902
24 6 3.7609 -3.9736 4.3263
25 1 -1.0497 -0.0003 0.0003
26 1 3.0089 0.8116 0.6315
27 1 3.0093 0.1423 -1.0179
28 1 5.0527 -2.2965 0.8932
29 1 4.9665 -1.3719 -0.6253
30 1 6.2113 -0.2139 1.0528
31 1 3.4018 -0.9664 2.5529
32 1 -0.0177 -5.9041 0.4316
33 1 1.5788 -1.4015 4.3061
34 1 1.9201 -1.6098 6.7359
35 1 3.4468 -3.3266 7.6219
36 1 4.6263 -4.8399 6.0788
37 1 4.2779 -4.6377 3.6495
RHF calculation, no. of doubly occupied orbitals= 48
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
ZINC000717786055.mol2 37
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 04:13:40
Heat of formation + Delta-G solvation = 7.738389 kcal
Electronic energy + Delta-G solvation = -19415.388396 eV
Core-core repulsion = 16544.099287 eV
Total energy + Delta-G solvation = -2871.289109 eV
No. of doubly occupied orbitals = 48
Molecular weight
(most abundant/longest-lived isotopes) = 259.131 amu
Computer time = 0.42 seconds
Orbital eigenvalues (eV)
-40.30497 -38.96348 -36.58959 -35.18296 -34.02219 -32.45724 -31.63456 -30.05448
-28.26476 -27.33911 -24.40378 -23.32835 -21.78607 -21.40124 -19.25283 -18.94477
-18.16886 -17.62859 -16.64379 -16.29031 -16.14954 -15.72794 -15.54353 -15.05464
-14.78338 -14.69677 -14.18206 -14.11858 -13.93281 -13.65687 -13.15872 -12.92762
-12.77502 -12.66900 -12.24599 -11.94525 -11.83046 -11.62335 -11.43623 -11.06118
-10.84941 -10.76899 -10.70770 -9.66928 -9.40639 -8.91546 -8.28268 -6.28418
0.63501 0.68417 1.24789 1.27538 1.36246 2.12337 2.15646 2.28997
2.92129 3.18750 3.32811 3.67831 3.72211 4.13450 4.15709 4.22138
4.26048 4.35421 4.42783 4.46646 4.60637 4.64717 4.81947 4.86750
4.89821 4.93655 5.20413 5.25553 5.33772 5.36965 5.55565 5.71142
5.75011 5.94734 6.15531 6.29479 6.54556 6.74723 6.90990 6.98536
7.01076 7.34242 8.89247
Molecular weight = 259.13amu
Principal moments of inertia in cm(-1)
A = 0.013273 B = 0.009450 C = 0.007693
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2109.115670 B = 2962.338871 C = 3638.718352
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.244 4.244
2 C -0.178 4.178
3 C 0.013 3.987
4 C 0.093 3.907
5 H 0.064 0.936
6 C 0.055 3.945
7 O -0.573 6.573
8 N -0.671 5.671
9 C 0.224 3.776
10 H 0.016 0.984
11 C -0.469 4.469
12 H 0.026 0.974
13 C 0.014 3.986
14 N -0.945 5.945
15 Si 0.926 3.074
16 H -0.267 1.267
17 H -0.290 1.290
18 H -0.238 1.238
19 C -0.071 4.071
20 C -0.118 4.118
21 C -0.126 4.126
22 C -0.137 4.137
23 C -0.121 4.121
24 C -0.149 4.149
25 H 0.224 0.776
26 H 0.095 0.905
27 H 0.102 0.898
28 H 0.036 0.964
29 H 0.070 0.930
30 H 0.396 0.604
31 H 0.332 0.668
32 H 0.263 0.737
33 H 0.107 0.893
34 H 0.139 0.861
35 H 0.149 0.851
36 H 0.143 0.857
37 H 0.108 0.892
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 12.910 6.915 2.879 14.926
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 -0.261 4.261
2 C -0.178 4.178
3 C -0.024 4.024
4 C -0.017 4.017
5 H 0.082 0.918
6 C -0.025 4.025
7 O -0.381 6.381
8 N -0.302 5.302
9 C 0.116 3.884
10 H 0.033 0.967
11 C -0.508 4.508
12 H 0.045 0.955
13 C -0.184 4.184
14 N -0.586 5.586
15 Si 0.750 3.250
16 H -0.192 1.192
17 H -0.216 1.216
18 H -0.162 1.162
19 C -0.072 4.072
20 C -0.136 4.136
21 C -0.144 4.144
22 C -0.155 4.155
23 C -0.139 4.139
24 C -0.168 4.168
25 H 0.241 0.759
26 H 0.114 0.886
27 H 0.120 0.880
28 H 0.054 0.946
29 H 0.088 0.912
30 H 0.245 0.755
31 H 0.151 0.849
32 H 0.072 0.928
33 H 0.125 0.875
34 H 0.156 0.844
35 H 0.167 0.833
36 H 0.161 0.839
37 H 0.127 0.873
Dipole moment (debyes) X Y Z Total
from point charges 11.531 6.963 2.770 13.752
hybrid contribution 1.005 -1.209 -0.743 1.739
sum 12.536 5.754 2.027 13.942
Atomic orbital electron populations
1.25276 0.96839 1.01490 1.02487 1.23489 0.95392 0.99784 0.99116
1.18672 0.83787 0.97866 1.02079 1.21546 0.91475 0.97343 0.91377
0.91763 1.22775 0.94267 0.88170 0.97261 1.86423 1.26979 1.45378
1.79300 1.60689 1.54969 1.12337 1.02215 1.18483 0.94305 0.86897
0.88676 0.96677 1.20898 0.91654 1.09071 1.29143 0.95520 1.25879
0.98627 0.96958 0.96908 1.70050 1.25944 1.22170 1.40391 0.86089
0.80846 0.79396 0.78633 1.19194 1.21614 1.16221 1.20438 0.94604
0.95264 0.96889 1.20982 0.99283 0.99601 0.93741 1.21410 0.98948
0.99345 0.94660 1.21358 0.97568 0.95923 1.00624 1.21330 1.00361
0.99800 0.92415 1.21145 1.00036 0.98966 0.96657 0.75920 0.88647
0.87971 0.94591 0.91166 0.75465 0.84872 0.92757 0.87524 0.84361
0.83338 0.83905 0.87348
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 C -0.24 -9.60 19.25 74.32 1.43 -8.17 16
2 C -0.18 -7.00 13.06 31.12 0.41 -6.60 16
3 C 0.01 0.42 5.11 28.79 0.15 0.57 16
4 C 0.09 3.41 2.19 44.92 0.10 3.51 16
5 H 0.06 2.78 6.62 -2.39 -0.02 2.76 16
6 C 0.05 1.54 6.69 71.98 0.48 2.02 16
7 O -0.57 -13.68 12.24 -148.98 -1.82 -15.51 16
8 N -0.67 -27.63 5.29 -477.18 -2.52 -30.15 16
9 C 0.22 10.33 1.98 43.42 0.09 10.42 16
10 H 0.02 0.71 3.43 -2.38 -0.01 0.70 16
11 C -0.47 -26.81 8.75 25.60 0.22 -26.59 16
12 H 0.03 1.77 8.06 -2.91 -0.02 1.74 16
13 C 0.01 0.79 5.47 84.66 0.46 1.26 16
14 N -0.95 -59.48 13.96 21.45 0.30 -59.18 16
15 Si 0.93 43.13 26.50 68.60 1.82 44.95 16
16 H -0.27 -11.96 7.11 99.48 0.71 -11.25 16
17 H -0.29 -13.51 7.11 99.48 0.71 -12.81 16
18 H -0.24 -9.85 6.22 99.48 0.62 -9.24 16
19 C -0.07 -3.02 4.65 -19.87 -0.09 -3.11 16
20 C -0.12 -4.69 9.08 22.27 0.20 -4.49 16
21 C -0.13 -4.06 10.05 22.27 0.22 -3.84 16
22 C -0.14 -3.93 10.05 22.27 0.22 -3.70 16
23 C -0.12 -3.74 10.05 22.27 0.22 -3.52 16
24 C -0.15 -5.67 9.67 22.27 0.22 -5.45 16
25 H 0.22 7.45 7.80 -4.43 -0.03 7.42 16
26 H 0.10 2.97 7.73 -2.39 -0.02 2.95 16
27 H 0.10 2.74 8.14 -2.39 -0.02 2.72 16
28 H 0.04 1.08 7.38 -2.39 -0.02 1.06 16
29 H 0.07 1.61 8.14 -2.39 -0.02 1.59 16
30 H 0.40 5.43 9.12 -74.05 -0.68 4.75 16
31 H 0.33 12.77 7.35 -89.69 -0.66 12.11 16
32 H 0.26 15.59 8.31 -92.71 -0.77 14.82 16
33 H 0.11 4.54 7.90 -2.91 -0.02 4.51 16
34 H 0.14 3.63 8.06 -2.91 -0.02 3.61 16
35 H 0.15 3.12 8.06 -2.91 -0.02 3.09 16
36 H 0.14 3.42 8.06 -2.91 -0.02 3.40 16
37 H 0.11 3.99 7.99 -2.91 -0.02 3.97 16
Total: -1.00 -71.43 316.60 1.76 -69.67
By element:
Atomic # 1 Polarization: 38.25 SS G_CDS: -0.35 Total: 37.90 kcal
Atomic # 6 Polarization: -52.02 SS G_CDS: 4.33 Total: -47.68 kcal
Atomic # 7 Polarization: -87.11 SS G_CDS: -2.22 Total: -89.33 kcal
Atomic # 8 Polarization: -13.68 SS G_CDS: -1.82 Total: -15.51 kcal
Atomic # 14 Polarization: 43.13 SS G_CDS: 1.82 Total: 44.95 kcal
Total: -71.43 1.76 -69.67 kcal
The number of atoms in the molecule is 37
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.
ZINC000717786055.mol2 37
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 77.409 kcal
(2) G-P(sol) polarization free energy of solvation -71.430 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 5.979 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.759 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -69.670 kcal
(6) G-S(sol) free energy of system = (1) + (5) 7.738 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.42 seconds