Wall clock time and date at job start Tue Mar 31 2020 13:42:12
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
*******************************************************************************
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 1.31619 * 1
3 3 Si 1.86805 * 119.99738 * 2 1
4 4 H 1.48500 * 109.46691 * 179.72473 * 3 2 1
5 5 H 1.48503 * 109.47032 * 299.72117 * 3 2 1
6 6 H 1.48494 * 109.47062 * 59.72467 * 3 2 1
7 7 C 1.38810 * 119.99810 * 179.72475 * 2 1 3
8 8 H 1.07999 * 119.99779 * 155.10382 * 7 2 1
9 9 N 1.36929 * 120.00233 * 335.09825 * 7 2 1
10 10 C 1.47424 * 125.65182 * 331.84059 * 9 7 2
11 11 C 1.54907 * 104.83588 * 204.09122 * 10 9 7
12 12 C 1.55155 * 101.58106 * 322.98622 * 11 10 9
13 13 C 1.47026 * 125.65011 * 151.52776 * 9 7 2
14 14 H 1.09008 * 109.88082 * 59.56305 * 13 9 7
15 15 C 1.53001 * 109.88016 * 298.39992 * 13 9 7
16 16 N 1.46500 * 109.47302 * 61.51176 * 15 13 9
17 17 C 1.34773 * 120.00122 * 186.19375 * 16 15 13
18 18 O 1.21282 * 119.99987 * 359.97438 * 17 16 15
19 19 C 1.50698 * 120.00289 * 179.97438 * 17 16 15
20 20 H 1.08998 * 110.37422 * 305.91985 * 19 17 16
21 21 O 1.43932 * 110.42317 * 183.54617 * 19 17 16
22 22 C 1.43766 * 109.64100 * 215.17130 * 21 19 17
23 23 C 1.53679 * 106.82634 * 1.34163 * 22 21 19
24 24 H 1.09005 * 109.74052 * 267.27731 * 23 22 21
25 25 C 1.51240 * 112.33139 * 144.99799 * 23 22 21
26 26 O 1.42699 * 111.49579 * 295.00558 * 25 23 22
27 27 C 1.43201 * 112.75732 * 299.56261 * 26 25 23
28 28 C 1.52760 * 108.43296 * 64.90812 * 27 26 25
29 29 C 1.53101 * 110.45683 * 300.07423 * 28 27 26
30 30 H 1.08993 * 113.39848 * 283.65631 * 29 28 27
31 31 H 0.97003 * 120.00035 * 174.41820 * 1 2 3
32 32 H 1.09004 * 110.36730 * 322.92980 * 10 9 7
33 33 H 1.08999 * 110.37071 * 85.13755 * 10 9 7
34 34 H 1.08999 * 111.00619 * 81.06130 * 11 10 9
35 35 H 1.09004 * 111.00163 * 204.87710 * 11 10 9
36 36 H 1.09001 * 110.71912 * 153.86399 * 12 11 10
37 37 H 1.09001 * 110.72641 * 277.14216 * 12 11 10
38 38 H 1.09002 * 109.46872 * 181.50928 * 15 13 9
39 39 H 1.08997 * 109.47151 * 301.50638 * 15 13 9
40 40 H 0.96999 * 119.99738 * 6.19548 * 16 15 13
41 41 H 1.08994 * 109.99143 * 120.68235 * 22 21 19
42 42 H 1.09007 * 109.98932 * 242.00264 * 22 21 19
43 43 H 1.09009 * 109.07216 * 55.52514 * 25 23 22
44 44 H 1.09002 * 109.07350 * 174.48317 * 25 23 22
45 45 H 1.08995 * 109.64492 * 305.22764 * 27 26 25
46 46 H 1.08996 * 109.81899 * 184.69498 * 27 26 25
47 47 H 1.09005 * 109.30122 * 179.77545 * 28 27 26
48 48 H 1.08993 * 109.14547 * 60.28148 * 28 27 26
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 1.3162 0.0000 0.0000
3 14 2.2501 1.6178 0.0000
4 1 3.7101 1.3464 0.0067
5 1 1.8965 2.3935 -1.2159
6 1 1.8863 2.3994 1.2091
7 6 2.0102 -1.2021 0.0058
8 1 3.0149 -1.2475 -0.3878
9 7 1.4210 -2.3305 0.5105
10 6 0.3854 -2.3634 1.5591
11 6 0.5064 -3.7720 2.1921
12 6 0.8343 -4.6439 0.9514
13 6 1.7119 -3.7095 0.0919
14 1 2.7651 -3.9339 0.2609
15 6 1.3703 -3.8867 -1.3890
16 7 2.1988 -2.9846 -2.1926
17 6 1.9850 -2.8753 -3.5188
18 8 1.1070 -3.5242 -4.0470
19 6 2.8369 -1.9469 -4.3454
20 1 2.8201 -0.9413 -3.9252
21 8 2.3806 -1.9284 -5.7104
22 6 3.5061 -1.7907 -6.5943
23 6 4.7632 -1.7522 -5.7111
24 1 5.0168 -0.7183 -5.4765
25 6 5.9461 -2.4306 -6.3653
26 8 5.7178 -3.8287 -6.5371
27 6 5.4970 -4.5103 -5.2973
28 6 4.2005 -3.9865 -4.6822
29 6 4.2991 -2.4799 -4.4286
30 1 4.8987 -2.2264 -3.5544
31 1 -0.4850 -0.8361 -0.0817
32 1 0.5778 -1.5937 2.3067
33 1 -0.6031 -2.2264 1.1206
34 1 1.3183 -3.8054 2.9187
35 1 -0.4355 -4.0779 2.6475
36 1 1.3878 -5.5366 1.2427
37 1 -0.0768 -4.9114 0.4162
38 1 1.5630 -4.9178 -1.6854
39 1 0.3178 -3.6532 -1.5495
40 1 2.9013 -2.4659 -1.7702
41 1 3.5534 -2.6424 -7.2728
42 1 3.4220 -0.8647 -7.1633
43 1 6.1230 -1.9760 -7.3402
44 1 6.8285 -2.2876 -5.7416
45 1 6.3284 -4.3167 -4.6195
46 1 5.4113 -5.5823 -5.4750
47 1 4.0165 -4.4996 -3.7383
48 1 3.3752 -4.1836 -5.3663
RHF calculation, no. of doubly occupied orbitals= 62
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC001028047936.mol2 48
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 13:42:12
Heat of formation + Delta-G solvation = -106.547336 kcal
Electronic energy + Delta-G solvation = -29850.227715 eV
Core-core repulsion = 25905.494315 eV
Total energy + Delta-G solvation = -3944.733400 eV
No. of doubly occupied orbitals = 62
Molecular weight
(most abundant/longest-lived isotopes) = 324.188 amu
Computer time = 0.79 seconds
Orbital eigenvalues (eV)
-41.05823 -38.92343 -37.88617 -37.19914 -33.94468 -33.07934 -32.87239 -32.02200
-29.82923 -29.12265 -28.31189 -25.62739 -25.09726 -24.01623 -23.51362 -22.45172
-20.56791 -19.84597 -19.65958 -19.40192 -17.66843 -17.00723 -16.68187 -16.33239
-15.93046 -15.65511 -15.45181 -15.22034 -14.89300 -14.27526 -14.12655 -13.85256
-13.74604 -13.37074 -13.12709 -13.03276 -12.80732 -12.61259 -12.32148 -12.14550
-12.10699 -11.80524 -11.67937 -11.22748 -11.12318 -10.79442 -10.76947 -10.63765
-10.54231 -10.40705 -10.30414 -10.19647 -10.05624 -9.91799 -9.60368 -9.55004
-9.01870 -8.52773 -8.29908 -6.97785 -6.15390 -3.35586 3.05773 3.40110
3.43321 3.46117 3.55141 3.68386 4.04502 4.10309 4.46444 4.48180
4.69238 4.81020 4.85492 5.06954 5.12610 5.15333 5.23108 5.26556
5.28323 5.32914 5.34123 5.40885 5.44857 5.49253 5.54039 5.65893
5.66980 5.75318 5.87933 5.93057 5.96337 5.97013 6.13232 6.16687
6.22401 6.34523 6.40624 6.46041 6.88583 6.89365 6.89910 6.93656
7.04110 7.14682 7.70818 8.19432 8.38473 8.83150 8.92687 9.69083
10.31648 11.12241
Molecular weight = 324.19amu
Principal moments of inertia in cm(-1)
A = 0.013517 B = 0.004428 C = 0.003772
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2071.000841 B = 6321.885032 C = 7421.006701
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.904 5.904
2 C -0.017 4.017
3 Si 1.064 2.936
4 H -0.291 1.291
5 H -0.293 1.293
6 H -0.289 1.289
7 C -0.336 4.336
8 H 0.055 0.945
9 N -0.591 5.591
10 C 0.140 3.860
11 C -0.135 4.135
12 C -0.123 4.123
13 C 0.143 3.857
14 H 0.039 0.961
15 C 0.120 3.880
16 N -0.695 5.695
17 C 0.516 3.484
18 O -0.543 6.543
19 C 0.065 3.935
20 H 0.098 0.902
21 O -0.351 6.351
22 C 0.058 3.942
23 C -0.157 4.157
24 H 0.095 0.905
25 C 0.073 3.927
26 O -0.376 6.376
27 C 0.062 3.938
28 C -0.156 4.156
29 C -0.106 4.106
30 H 0.108 0.892
31 H 0.272 0.728
32 H 0.046 0.954
33 H 0.027 0.973
34 H 0.062 0.938
35 H 0.061 0.939
36 H 0.063 0.937
37 H 0.065 0.935
38 H 0.046 0.954
39 H 0.061 0.939
40 H 0.406 0.594
41 H 0.077 0.923
42 H 0.071 0.929
43 H 0.096 0.904
44 H 0.055 0.945
45 H 0.053 0.947
46 H 0.096 0.904
47 H 0.078 0.922
48 H 0.087 0.913
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 12.111 -6.580 -6.355 15.178
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 -0.543 5.543
2 C -0.221 4.221
3 Si 0.894 3.106
4 H -0.217 1.217
5 H -0.220 1.220
6 H -0.215 1.215
7 C -0.464 4.464
8 H 0.072 0.928
9 N -0.316 5.316
10 C 0.015 3.985
11 C -0.174 4.174
12 C -0.161 4.161
13 C 0.035 3.965
14 H 0.057 0.943
15 C -0.006 4.006
16 N -0.348 5.348
17 C 0.300 3.700
18 O -0.420 6.420
19 C 0.004 3.996
20 H 0.115 0.885
21 O -0.269 6.269
22 C -0.019 4.019
23 C -0.176 4.176
24 H 0.114 0.886
25 C -0.004 4.004
26 O -0.294 6.294
27 C -0.015 4.015
28 C -0.194 4.194
29 C -0.125 4.125
30 H 0.126 0.874
31 H 0.084 0.916
32 H 0.065 0.935
33 H 0.045 0.955
34 H 0.081 0.919
35 H 0.080 0.920
36 H 0.082 0.918
37 H 0.084 0.916
38 H 0.064 0.936
39 H 0.079 0.921
40 H 0.244 0.756
41 H 0.095 0.905
42 H 0.089 0.911
43 H 0.114 0.886
44 H 0.073 0.927
45 H 0.071 0.929
46 H 0.114 0.886
47 H 0.096 0.904
48 H 0.105 0.895
Dipole moment (debyes) X Y Z Total
from point charges 11.133 -5.406 -6.940 14.190
hybrid contribution 0.535 -1.003 0.464 1.227
sum 11.668 -6.409 -6.477 14.804
Atomic orbital electron populations
1.70682 1.06724 1.30712 1.46139 1.25824 0.96522 1.01314 0.98471
0.83550 0.74307 0.75809 0.76940 1.21693 1.22028 1.21519 1.19407
0.96319 0.87370 1.43329 0.92787 1.44582 1.46835 1.00198 1.40026
1.21559 0.92861 0.93445 0.90617 1.22772 1.00409 0.97452 0.96735
1.22492 0.99625 0.97246 0.96747 1.21346 0.96952 0.87700 0.90478
0.94319 1.21890 0.95488 0.91119 0.92094 1.45878 1.37350 1.45130
1.06429 1.20066 0.84356 0.82752 0.82827 1.90657 1.33217 1.46068
1.72079 1.23123 0.92297 0.99380 0.84763 0.88458 1.88701 1.29461
1.94855 1.13880 1.23107 0.84116 1.01791 0.92874 1.22755 0.97381
1.01372 0.96054 0.88630 1.21936 0.95099 0.82001 1.01365 1.88090
1.92061 1.19447 1.29847 1.22578 0.95896 0.97158 0.85829 1.22213
0.99858 0.94423 1.02879 1.22889 0.95184 0.96124 0.98264 0.87412
0.91595 0.93547 0.95487 0.91896 0.91994 0.91800 0.91580 0.93556
0.92066 0.75576 0.90483 0.91064 0.88573 0.92656 0.92866 0.88616
0.90369 0.89482
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 16.
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 -0.90 -26.29 13.08 55.49 0.73 -25.57 16
2 C -0.02 -0.44 5.18 -17.43 -0.09 -0.53 16
3 Si 1.06 23.91 29.99 -169.99 -5.10 18.82 16
4 H -0.29 -6.03 7.11 56.52 0.40 -5.63 16
5 H -0.29 -6.65 7.11 56.52 0.40 -6.25 16
6 H -0.29 -6.57 7.11 56.52 0.40 -6.16 16
7 C -0.34 -8.37 8.13 -15.06 -0.12 -8.49 16
8 H 0.05 1.30 6.67 -52.49 -0.35 0.95 16
9 N -0.59 -13.51 2.89 -162.56 -0.47 -13.98 16
10 C 0.14 3.08 5.65 -2.53 -0.01 3.06 16
11 C -0.14 -2.28 7.09 -24.58 -0.17 -2.46 16
12 C -0.12 -1.97 6.49 -24.89 -0.16 -2.13 16
13 C 0.14 2.70 3.34 -66.94 -0.22 2.47 16
14 H 0.04 0.72 8.14 -51.92 -0.42 0.30 16
15 C 0.12 2.33 5.19 -4.04 -0.02 2.31 16
16 N -0.69 -13.28 4.80 -60.30 -0.29 -13.57 16
17 C 0.52 10.27 5.50 -10.99 -0.06 10.21 16
18 O -0.54 -12.84 16.52 -13.67 -0.23 -13.06 16
19 C 0.07 1.09 3.52 -26.36 -0.09 1.00 16
20 H 0.10 1.62 8.14 -51.93 -0.42 1.19 16
21 O -0.35 -6.22 10.21 -54.45 -0.56 -6.78 16
22 C 0.06 0.74 6.78 37.51 0.25 1.00 16
23 C -0.16 -1.66 2.98 -90.32 -0.27 -1.93 16
24 H 0.10 0.87 8.14 -51.93 -0.42 0.45 16
25 C 0.07 0.67 6.12 36.27 0.22 0.89 16
26 O -0.38 -4.29 10.46 -35.23 -0.37 -4.66 16
27 C 0.06 0.64 6.82 37.03 0.25 0.90 16
28 C -0.16 -1.99 4.12 -26.80 -0.11 -2.10 16
29 C -0.11 -1.32 3.63 -88.20 -0.32 -1.64 16
30 H 0.11 1.17 8.14 -51.93 -0.42 0.74 16
31 H 0.27 8.10 6.25 -40.82 -0.26 7.84 16
32 H 0.05 1.10 8.14 -51.93 -0.42 0.67 16
33 H 0.03 0.65 6.73 -51.93 -0.35 0.30 16
34 H 0.06 1.02 8.14 -51.93 -0.42 0.59 16
35 H 0.06 0.93 8.14 -51.93 -0.42 0.50 16
36 H 0.06 0.87 8.14 -51.93 -0.42 0.44 16
37 H 0.07 1.05 7.84 -51.93 -0.41 0.65 16
38 H 0.05 0.82 8.14 -51.93 -0.42 0.39 16
39 H 0.06 1.38 8.12 -51.93 -0.42 0.96 16
40 H 0.41 7.55 6.02 -40.82 -0.25 7.30 16
41 H 0.08 1.00 7.62 -51.93 -0.40 0.61 16
42 H 0.07 0.79 8.14 -51.92 -0.42 0.36 16
43 H 0.10 0.72 8.14 -51.92 -0.42 0.30 16
44 H 0.06 0.43 8.13 -51.93 -0.42 0.01 16
45 H 0.05 0.47 8.12 -51.93 -0.42 0.05 16
46 H 0.10 0.90 8.14 -51.93 -0.42 0.47 16
47 H 0.08 1.02 7.77 -51.93 -0.40 0.62 16
48 H 0.09 1.38 6.94 -51.93 -0.36 1.01 16
LS Contribution 367.72 15.07 5.54 5.54
Total: -1.00 -32.45 367.72 -9.57 -42.02
By element:
Atomic # 1 Polarization: 16.58 SS G_CDS: -7.90 Total: 8.68 kcal
Atomic # 6 Polarization: 3.48 SS G_CDS: -0.93 Total: 2.55 kcal
Atomic # 7 Polarization: -53.08 SS G_CDS: -0.03 Total: -53.11 kcal
Atomic # 8 Polarization: -23.35 SS G_CDS: -1.15 Total: -24.50 kcal
Atomic # 14 Polarization: 23.91 SS G_CDS: -5.10 Total: 18.82 kcal
Total LS contribution 5.54 Total: 5.54 kcal
Total: -32.45 -9.57 -42.02 kcal
The number of atoms in the molecule is 48
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.
ZINC001028047936.mol2 48
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 -64.524 kcal
(2) G-P(sol) polarization free energy of solvation -32.450 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -96.974 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -9.573 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -42.023 kcal
(6) G-S(sol) free energy of system = (1) + (5) -106.547 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.79 seconds