Wall clock time and date at job start Wed Apr 1 2020 03:39:53
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 C
2 2 C 1.53001 * 1
3 3 C 1.52996 * 109.47241 * 2 1
4 4 H 1.08994 * 109.47269 * 55.00202 * 3 2 1
5 5 C 1.50702 * 109.46842 * 174.99958 * 3 2 1
6 6 H 1.08002 * 120.00299 * 120.00437 * 5 3 2
7 7 C 1.37884 * 119.99942 * 299.71996 * 5 3 2
8 8 N 1.31514 * 119.99698 * 0.28408 * 7 5 3
9 9 Si 1.86794 * 119.99837 * 180.27476 * 7 5 3
10 10 H 1.48504 * 109.47196 * 60.00645 * 9 7 5
11 11 H 1.48504 * 109.46887 * 180.02562 * 9 7 5
12 12 H 1.48502 * 109.47679 * 300.00280 * 9 7 5
13 13 N 1.46491 * 109.47168 * 294.99612 * 3 2 1
14 14 C 1.34776 * 120.00056 * 85.00588 * 13 3 2
15 15 O 1.21560 * 120.00142 * 359.97438 * 14 13 3
16 16 C 1.47845 * 120.00224 * 180.02562 * 14 13 3
17 17 C 1.39576 * 120.14739 * 359.71534 * 16 14 13
18 18 C 1.37952 * 119.85449 * 179.78976 * 17 16 14
19 19 C 1.38354 * 120.14715 * 0.49451 * 18 17 16
20 20 C 1.50704 * 119.85791 * 179.72126 * 19 18 17
21 21 C 1.53004 * 110.53293 * 237.19237 * 20 19 18
22 22 N 1.47314 * 110.59601 * 0.02562 * 20 19 18
23 23 C 1.34527 * 106.61869 * 118.53020 * 22 20 19
24 24 O 1.21540 * 123.77020 * 179.97438 * 23 22 20
25 25 N 1.33787 * 112.45718 * 359.97438 * 23 22 20
26 26 C 1.34770 * 111.64862 * 0.02562 * 25 23 22
27 27 O 1.21228 * 127.16360 * 180.02562 * 26 25 23
28 28 C 1.38367 * 120.29121 * 359.73686 * 19 18 17
29 29 C 1.37955 * 120.14237 * 0.02997 * 28 19 18
30 30 H 1.08991 * 109.47795 * 179.97438 * 1 2 3
31 31 H 1.09003 * 109.47374 * 300.00289 * 1 2 3
32 32 H 1.09003 * 109.46563 * 59.99857 * 1 2 3
33 33 H 1.09003 * 109.46905 * 239.99963 * 2 1 3
34 34 H 1.09003 * 109.46563 * 120.00143 * 2 1 3
35 35 H 0.97005 * 119.99651 * 179.97438 * 8 7 5
36 36 H 0.97003 * 120.00221 * 265.00067 * 13 3 2
37 37 H 1.08003 * 120.06448 * 0.02562 * 17 16 14
38 38 H 1.07998 * 119.92884 * 180.23392 * 18 17 16
39 39 H 1.08997 * 109.47172 * 59.99376 * 21 20 19
40 40 H 1.09003 * 109.46984 * 179.97438 * 21 20 19
41 41 H 1.09002 * 109.46464 * 299.99493 * 21 20 19
42 42 H 0.97002 * 126.68890 * 298.48947 * 22 20 19
43 43 H 0.97004 * 124.18146 * 179.97438 * 25 23 22
44 44 H 1.07999 * 119.92387 * 180.02562 * 28 19 18
45 45 H 1.08007 * 120.07093 * 180.02562 * 29 28 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 1.4424 0.0000
4 1 1.6055 1.9815 0.8418
5 6 3.5419 1.4441 0.1238
6 1 4.1473 1.8887 -0.6522
7 6 4.1430 0.8833 1.2308
8 7 3.4059 0.3419 2.1758
9 14 6.0043 0.8923 1.3879
10 1 6.4946 2.2940 1.3851
11 1 6.3969 0.2326 2.6592
12 1 6.6013 0.1568 0.2442
13 7 1.6526 2.0974 -1.2518
14 6 0.4353 2.6644 -1.3670
15 8 -0.3412 2.6320 -0.4323
16 6 0.0441 3.3249 -2.6305
17 6 0.9351 3.3682 -3.7040
18 6 0.5621 3.9823 -4.8816
19 6 -0.6882 4.5634 -4.9966
20 6 -1.0866 5.2380 -6.2840
21 6 -1.4730 6.6962 -6.0285
22 7 0.0039 5.1559 -7.2710
23 6 -0.4768 4.4625 -8.3188
24 8 0.1699 4.2113 -9.3167
25 7 -1.7463 4.0802 -8.1394
26 6 -2.2252 4.4894 -6.9480
27 8 -3.3353 4.2979 -6.5001
28 6 -1.5745 4.5282 -3.9346
29 6 -1.2158 3.9131 -2.7530
30 1 -0.3634 -1.0275 -0.0005
31 1 -0.3634 0.5139 0.8900
32 1 -0.3632 0.5139 -0.8900
33 1 1.8933 -0.5139 -0.8900
34 1 1.8932 -0.5139 0.8900
35 1 3.8288 -0.0530 2.9544
36 1 2.2721 2.1230 -1.9977
37 1 1.9129 2.9186 -3.6140
38 1 1.2491 4.0132 -5.7143
39 1 -0.6236 7.2273 -5.5989
40 1 -1.7572 7.1670 -6.9697
41 1 -2.3132 6.7332 -5.3351
42 1 0.8947 5.5297 -7.1829
43 1 -2.2591 3.5719 -8.7873
44 1 -2.5492 4.9834 -4.0310
45 1 -1.9086 3.8860 -1.9249
RHF calculation, no. of doubly occupied orbitals= 64
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
ZINC000183842604.mol2 45
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Wed Apr 1 2020 03:39:53
Heat of formation + Delta-G solvation = -79.585642 kcal
Electronic energy + Delta-G solvation = -29923.605165 eV
Core-core repulsion = 25712.785677 eV
Total energy + Delta-G solvation = -4210.819488 eV
No. of doubly occupied orbitals = 64
Molecular weight
(most abundant/longest-lived isotopes) = 345.152 amu
Computer time = 0.82 seconds
Orbital eigenvalues (eV)
-43.69786 -41.21194 -39.94758 -39.48610 -37.52011 -36.92323 -35.54232 -34.39686
-33.26733 -32.41971 -31.92335 -30.55241 -28.86360 -26.40925 -25.28443 -24.53530
-24.13863 -23.29831 -22.28453 -21.66507 -20.99137 -19.62766 -19.31592 -18.24758
-17.79759 -17.68988 -17.34692 -17.08375 -16.75829 -16.44780 -16.30599 -16.21784
-15.64373 -15.53300 -15.36418 -14.83279 -14.66660 -14.53553 -14.47546 -14.00385
-13.59805 -13.56810 -13.40413 -13.32293 -13.15903 -12.91695 -12.74815 -12.64086
-12.26893 -12.19248 -12.07529 -11.99067 -11.60321 -11.53254 -11.44343 -11.07280
-10.79536 -10.69130 -10.52566 -10.03345 -9.97768 -9.61928 -8.16061 -6.33710
-0.31503 0.33181 0.45811 1.36133 1.45848 1.47361 1.55119 1.82375
1.90790 2.07130 2.34154 2.58657 2.74212 2.94444 3.13722 3.14728
3.63203 3.84960 3.92377 3.96120 4.15436 4.32155 4.43440 4.47615
4.55407 4.60901 4.71666 4.73523 4.74806 4.96121 5.00140 5.04958
5.15051 5.21504 5.22965 5.28495 5.38764 5.42346 5.54199 5.59720
5.73552 5.75744 5.79597 5.80687 5.91867 6.15422 6.29391 6.73413
6.93923 7.06211 7.32352 7.51895 8.89242
Molecular weight = 345.15amu
Principal moments of inertia in cm(-1)
A = 0.017103 B = 0.002448 C = 0.002290
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1636.762164 B =11436.368221 C =12225.633543
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.124 4.124
2 C -0.121 4.121
3 C 0.279 3.721
4 H 0.000 1.000
5 C -0.550 4.550
6 H 0.073 0.927
7 C 0.016 3.984
8 N -0.915 5.915
9 Si 0.970 3.030
10 H -0.270 1.270
11 H -0.288 1.288
12 H -0.264 1.264
13 N -0.697 5.697
14 C 0.536 3.464
15 O -0.584 6.584
16 C -0.131 4.131
17 C -0.085 4.085
18 C -0.099 4.099
19 C -0.079 4.079
20 C 0.174 3.826
21 C -0.145 4.145
22 N -0.699 5.699
23 C 0.711 3.289
24 O -0.575 6.575
25 N -0.672 5.672
26 C 0.538 3.462
27 O -0.477 6.477
28 C -0.095 4.095
29 C -0.072 4.072
30 H 0.045 0.955
31 H 0.027 0.973
32 H 0.041 0.959
33 H 0.041 0.959
34 H 0.073 0.927
35 H 0.265 0.735
36 H 0.402 0.598
37 H 0.143 0.857
38 H 0.157 0.843
39 H 0.100 0.900
40 H 0.084 0.916
41 H 0.091 0.909
42 H 0.454 0.546
43 H 0.441 0.559
44 H 0.153 0.847
45 H 0.128 0.872
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -7.793 12.633 -21.452 26.087
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 -0.181 4.181
2 C -0.160 4.160
3 C 0.175 3.825
4 H 0.018 0.982
5 C -0.588 4.588
6 H 0.091 0.909
7 C -0.184 4.184
8 N -0.553 5.553
9 Si 0.795 3.205
10 H -0.196 1.196
11 H -0.213 1.213
12 H -0.189 1.189
13 N -0.346 5.346
14 C 0.324 3.676
15 O -0.466 6.466
16 C -0.134 4.134
17 C -0.104 4.104
18 C -0.117 4.117
19 C -0.080 4.080
20 C 0.082 3.918
21 C -0.203 4.203
22 N -0.364 5.364
23 C 0.410 3.590
24 O -0.451 6.451
25 N -0.343 5.343
26 C 0.324 3.676
27 O -0.346 6.346
28 C -0.113 4.113
29 C -0.091 4.091
30 H 0.064 0.936
31 H 0.046 0.954
32 H 0.060 0.940
33 H 0.059 0.941
34 H 0.091 0.909
35 H 0.074 0.926
36 H 0.238 0.762
37 H 0.161 0.839
38 H 0.174 0.826
39 H 0.119 0.881
40 H 0.103 0.897
41 H 0.110 0.890
42 H 0.302 0.698
43 H 0.285 0.715
44 H 0.171 0.829
45 H 0.146 0.854
Dipole moment (debyes) X Y Z Total
from point charges -8.520 12.308 -20.821 25.643
hybrid contribution 1.164 -0.527 0.255 1.303
sum -7.356 11.781 -20.566 24.817
Atomic orbital electron populations
1.21683 0.97091 0.99152 1.00208 1.21793 0.93655 0.99191 1.01356
1.18395 0.93774 0.89126 0.81157 0.98201 1.21543 0.91288 1.39275
1.06690 0.90880 1.25767 1.03308 0.94326 0.94991 1.70043 1.37183
1.38302 1.09765 0.85432 0.79081 0.78502 0.77534 1.19551 1.21334
1.18884 1.46209 1.15222 1.55463 1.17711 1.18835 0.82108 0.78691
0.87999 1.90724 1.52467 1.61495 1.41899 1.20154 0.97021 1.02321
0.93941 1.21503 0.99298 0.97552 0.92024 1.21077 0.96147 0.96802
0.97695 1.19680 0.95298 0.99492 0.93552 1.20151 0.85345 0.99151
0.87121 1.22128 1.04873 0.88608 1.04643 1.45590 1.16669 1.58030
1.16160 1.15841 0.81212 0.78372 0.83579 1.91072 1.61539 1.61481
1.30995 1.44255 1.14638 1.54129 1.21285 1.20746 0.88118 0.77690
0.81094 1.90855 1.20799 1.55180 1.67775 1.21051 1.00327 0.98745
0.91200 1.21279 0.94700 0.94749 0.98340 0.93587 0.95400 0.94019
0.94055 0.90876 0.92574 0.76166 0.83907 0.82586 0.88116 0.89714
0.89021 0.69762 0.71474 0.82950 0.85439
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 14.
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 -5.64 8.51 71.98 0.61 -5.03 16
2 C -0.12 -5.95 5.45 30.59 0.17 -5.78 16
3 C 0.28 14.13 2.24 44.25 0.10 14.23 16
4 H 0.00 0.01 7.58 -2.39 -0.02 -0.01 16
5 C -0.55 -28.52 8.73 25.60 0.22 -28.29 16
6 H 0.07 3.51 7.74 -2.91 -0.02 3.48 16
7 C 0.02 0.87 5.30 84.66 0.45 1.32 16
8 N -0.91 -51.83 11.30 21.45 0.24 -51.58 16
9 Si 0.97 41.27 29.54 68.60 2.03 43.30 16
10 H -0.27 -11.18 7.11 99.48 0.71 -10.47 16
11 H -0.29 -12.25 7.11 99.48 0.71 -11.54 16
12 H -0.26 -10.68 7.11 99.48 0.71 -9.97 16
13 N -0.70 -28.37 4.97 -449.00 -2.23 -30.60 16
14 C 0.54 21.24 6.34 86.79 0.55 21.80 16
15 O -0.58 -27.76 13.48 -3.90 -0.05 -27.81 16
16 C -0.13 -3.83 5.87 -20.09 -0.12 -3.95 16
17 C -0.09 -1.85 9.54 22.52 0.21 -1.63 16
18 C -0.10 -1.55 9.36 22.23 0.21 -1.34 16
19 C -0.08 -1.17 4.83 -19.80 -0.10 -1.27 16
20 C 0.17 1.80 1.17 2.24 0.00 1.80 16
21 C -0.14 -0.86 8.77 71.98 0.63 -0.23 16
22 N -0.70 -6.13 4.56 -443.24 -2.02 -8.15 16
23 C 0.71 10.16 8.99 179.44 1.61 11.78 16
24 O -0.58 -12.57 18.04 -3.84 -0.07 -12.64 16
25 N -0.67 -8.14 5.70 -441.13 -2.52 -10.66 16
26 C 0.54 7.59 7.35 87.94 0.65 8.23 16
27 O -0.48 -9.27 17.60 -2.87 -0.05 -9.32 16
28 C -0.10 -1.75 8.79 22.23 0.20 -1.56 16
29 C -0.07 -1.85 9.60 22.53 0.22 -1.63 16
30 H 0.05 1.84 8.14 -2.39 -0.02 1.82 16
31 H 0.03 1.35 7.84 -2.39 -0.02 1.34 16
32 H 0.04 1.84 5.64 -2.39 -0.01 1.82 16
33 H 0.04 1.91 8.14 -2.39 -0.02 1.89 16
34 H 0.07 4.02 5.96 -2.39 -0.01 4.00 16
35 H 0.27 14.29 8.31 -92.70 -0.77 13.51 16
36 H 0.40 13.65 6.57 -92.71 -0.61 13.04 16
37 H 0.14 2.76 6.41 -2.91 -0.02 2.74 16
38 H 0.16 1.59 6.69 -2.91 -0.02 1.57 16
39 H 0.10 0.35 8.14 -2.39 -0.02 0.33 16
40 H 0.08 0.35 8.14 -2.39 -0.02 0.34 16
41 H 0.09 0.57 7.32 -2.39 -0.02 0.55 16
42 H 0.45 2.02 8.56 -92.71 -0.79 1.22 16
43 H 0.44 3.93 8.96 -92.71 -0.83 3.10 16
44 H 0.15 2.27 7.31 -2.91 -0.02 2.25 16
45 H 0.13 3.58 7.65 -2.91 -0.02 3.56 16
Total: -1.00 -74.24 372.49 -0.21 -74.44
By element:
Atomic # 1 Polarization: 25.71 SS G_CDS: -1.15 Total: 24.56 kcal
Atomic # 6 Polarization: 2.84 SS G_CDS: 5.62 Total: 8.45 kcal
Atomic # 7 Polarization: -94.46 SS G_CDS: -6.53 Total: -100.99 kcal
Atomic # 8 Polarization: -49.59 SS G_CDS: -0.17 Total: -49.77 kcal
Atomic # 14 Polarization: 41.27 SS G_CDS: 2.03 Total: 43.30 kcal
Total: -74.24 -0.21 -74.44 kcal
The number of atoms in the molecule is 45
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.
ZINC000183842604.mol2 45
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 -5.144 kcal
(2) G-P(sol) polarization free energy of solvation -74.236 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -79.380 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.206 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -74.442 kcal
(6) G-S(sol) free energy of system = (1) + (5) -79.586 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.82 seconds