Wall clock time and date at job start Mon Mar 30 2020 07:05:49
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 1.31513 * 1
3 3 Si 1.86804 * 119.99983 * 2 1
4 4 H 1.48506 * 109.47133 * 180.02562 * 3 2 1
5 5 H 1.48495 * 109.47409 * 300.00722 * 3 2 1
6 6 H 1.48497 * 109.46872 * 60.00534 * 3 2 1
7 7 C 1.37882 * 120.00247 * 180.02562 * 2 1 3
8 8 H 1.08000 * 120.00081 * 173.91437 * 7 2 1
9 9 C 1.50695 * 119.99619 * 353.91411 * 7 2 1
10 10 C 1.53006 * 115.55175 * 84.88910 * 9 7 2
11 11 S 1.81397 * 109.46785 * 39.93464 * 10 9 7
12 12 C 1.81406 * 102.99658 * 180.02562 * 11 10 9
13 13 C 1.52995 * 109.46950 * 179.97438 * 12 11 10
14 14 H 1.09002 * 115.59638 * 330.81998 * 13 12 11
15 15 C 1.53186 * 117.52150 * 116.64170 * 13 12 11
16 16 C 1.52107 * 59.77033 * 107.42311 * 15 13 12
17 17 C 1.53710 * 121.73284 * 248.89872 * 16 15 13
18 18 C 1.54696 * 103.69298 * 216.53279 * 17 16 15
19 19 O 1.44502 * 104.86909 * 336.15436 * 18 17 16
20 20 C 1.44633 * 105.46193 * 39.97909 * 19 18 17
21 21 C 1.53002 * 117.51788 * 230.58735 * 9 7 2
22 22 C 1.53006 * 60.00158 * 107.48269 * 21 9 7
23 23 H 0.96999 * 119.99677 * 354.96647 * 1 2 3
24 24 H 1.08989 * 109.46790 * 279.93025 * 10 9 7
25 25 H 1.09003 * 109.46703 * 159.93241 * 10 9 7
26 26 H 1.09003 * 109.46899 * 59.99793 * 12 11 10
27 27 H 1.09001 * 109.47239 * 299.99770 * 12 11 10
28 28 H 1.08994 * 117.52095 * 359.97438 * 15 13 12
29 29 H 1.08999 * 117.56334 * 214.82250 * 15 13 12
30 30 H 1.08997 * 110.58401 * 335.08843 * 17 16 15
31 31 H 1.09000 * 110.57736 * 97.98702 * 17 16 15
32 32 H 1.09003 * 110.36035 * 95.00266 * 18 17 16
33 33 H 1.09007 * 110.36433 * 217.30759 * 18 17 16
34 34 H 1.08998 * 110.42106 * 201.57737 * 20 19 18
35 35 H 1.09002 * 110.41655 * 79.11646 * 20 19 18
36 36 H 1.08995 * 117.50416 * 214.97093 * 21 9 7
37 37 H 1.09008 * 117.49670 * 359.97438 * 21 9 7
38 38 H 1.08998 * 117.50079 * 252.51576 * 22 21 9
39 39 H 1.09001 * 117.49691 * 107.48594 * 22 21 9
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 1.3151 0.0000 0.0000
3 14 2.2491 1.6178 0.0000
4 1 3.7092 1.3464 -0.0006
5 1 1.8903 2.3966 -1.2123
6 1 1.8905 2.3963 1.2126
7 6 2.0046 -1.1941 -0.0005
8 1 3.0800 -1.1966 -0.0997
9 6 1.2575 -2.4955 0.1373
10 6 0.6978 -3.0761 -1.1631
11 16 1.9034 -2.8414 -2.4980
12 6 1.0732 -3.5802 -3.9319
13 6 1.9758 -3.4602 -5.1614
14 1 2.6513 -2.6048 -5.1680
15 6 2.4719 -4.7589 -5.8047
16 6 1.4094 -3.9188 -6.4967
17 6 -0.0424 -4.4047 -6.6345
18 6 -0.4714 -3.8862 -8.0274
19 8 0.3983 -2.7622 -8.2887
20 6 1.7005 -3.1608 -7.8014
21 6 1.7472 -3.4828 1.1985
22 6 0.4438 -2.7112 1.4150
23 1 -0.4849 0.8368 0.0737
24 1 -0.2310 -2.5662 -1.4184
25 1 0.5037 -4.1406 -1.0317
26 1 0.1351 -3.0572 -4.1178
27 1 0.8693 -4.6320 -3.7316
28 1 2.1555 -5.6983 -5.3515
29 1 3.4735 -4.7582 -6.2348
30 1 -0.0870 -5.4932 -6.6004
31 1 -0.6676 -3.9699 -5.8546
32 1 -0.3274 -4.6603 -8.7811
33 1 -1.5125 -3.5636 -8.0079
34 1 2.3168 -2.2841 -7.6025
35 1 2.1913 -3.8164 -8.5207
36 1 1.6707 -4.5459 0.9704
37 1 2.6104 -3.1913 1.7970
38 1 0.4493 -1.9119 2.1560
39 1 -0.4901 -3.2667 1.3291
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).
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
ZINC000902543900.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 07:05:49
Heat of formation + Delta-G solvation = -19.179018 kcal
Electronic energy + Delta-G solvation = -18050.323340 eV
Core-core repulsion = 15277.822205 eV
Total energy + Delta-G solvation = -2772.501135 eV
No. of doubly occupied orbitals = 48
Molecular weight
(most abundant/longest-lived isotopes) = 268.124 amu
Computer time = 0.41 seconds
Orbital eigenvalues (eV)
-40.88713 -38.41012 -37.51359 -33.97133 -31.38670 -30.32281 -29.36867 -27.61338
-27.21074 -23.70272 -22.92416 -22.35811 -21.09080 -20.07072 -18.16621 -17.21016
-17.13654 -16.71333 -16.51040 -16.17100 -15.61784 -15.46631 -15.14641 -14.77285
-14.60182 -14.16150 -13.79594 -13.53167 -13.26237 -13.01362 -12.83595 -12.80533
-12.57246 -12.40331 -12.31989 -12.00511 -11.86232 -11.52687 -11.09383 -10.96254
-10.78726 -10.61629 -10.47429 -10.35084 -9.85179 -8.29359 -8.08487 -6.16530
0.96819 1.38895 1.43103 1.52526 2.06659 2.45490 2.66551 3.04535
3.22027 3.35463 3.48240 3.72558 3.77918 3.94329 4.21073 4.22567
4.29398 4.32407 4.40248 4.52127 4.60588 4.64332 4.67508 4.68301
4.76108 4.78049 4.83363 4.89684 4.95774 5.00965 5.02891 5.13142
5.21290 5.22380 5.56215 5.62636 5.79694 5.82455 6.39403 6.85461
7.50247 8.99820
Molecular weight = 268.12amu
Principal moments of inertia in cm(-1)
A = 0.021723 B = 0.004641 C = 0.004226
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1288.656800 B = 6031.712565 C = 6623.815355
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.905 5.905
2 C 0.035 3.965
3 Si 0.938 3.062
4 H -0.270 1.270
5 H -0.285 1.285
6 H -0.279 1.279
7 C -0.485 4.485
8 H 0.047 0.953
9 C 0.023 3.977
10 C -0.020 4.020
11 S -0.256 6.256
12 C -0.057 4.057
13 C -0.132 4.132
14 H 0.098 0.902
15 C -0.131 4.131
16 C -0.153 4.153
17 C -0.122 4.122
18 C 0.044 3.956
19 O -0.403 6.403
20 C 0.079 3.921
21 C -0.183 4.183
22 C -0.154 4.154
23 H 0.258 0.742
24 H 0.049 0.951
25 H 0.067 0.933
26 H 0.064 0.936
27 H 0.085 0.915
28 H 0.109 0.891
29 H 0.115 0.885
30 H 0.100 0.900
31 H 0.066 0.934
32 H 0.080 0.920
33 H 0.096 0.904
34 H 0.087 0.913
35 H 0.087 0.913
36 H 0.093 0.907
37 H 0.078 0.922
38 H 0.061 0.939
39 H 0.076 0.924
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 0.809 -11.660 -13.643 17.965
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 -0.544 5.544
2 C -0.166 4.166
3 Si 0.764 3.236
4 H -0.194 1.194
5 H -0.212 1.212
6 H -0.205 1.205
7 C -0.524 4.524
8 H 0.065 0.935
9 C 0.022 3.978
10 C -0.168 4.168
11 S -0.027 6.027
12 C -0.206 4.206
13 C -0.151 4.151
14 H 0.117 0.883
15 C -0.168 4.168
16 C -0.155 4.155
17 C -0.160 4.160
18 C -0.032 4.032
19 O -0.323 6.323
20 C 0.003 3.997
21 C -0.220 4.220
22 C -0.194 4.194
23 H 0.067 0.933
24 H 0.068 0.932
25 H 0.086 0.914
26 H 0.083 0.917
27 H 0.103 0.897
28 H 0.128 0.872
29 H 0.133 0.867
30 H 0.118 0.882
31 H 0.085 0.915
32 H 0.099 0.901
33 H 0.115 0.885
34 H 0.106 0.894
35 H 0.105 0.895
36 H 0.111 0.889
37 H 0.096 0.904
38 H 0.080 0.920
39 H 0.095 0.905
Dipole moment (debyes) X Y Z Total
from point charges 1.585 -10.862 -13.776 17.614
hybrid contribution -1.055 0.619 0.505 1.323
sum 0.530 -10.243 -13.271 16.773
Atomic orbital electron populations
1.70097 1.06858 1.27079 1.50321 1.25471 0.95360 1.01328 0.94400
0.85815 0.79446 0.80928 0.77393 1.19426 1.21166 1.20493 1.20468
0.92264 0.89964 1.49660 0.93520 1.18630 0.99146 0.94327 0.85744
1.22768 0.97681 1.00066 0.96305 1.87134 1.30471 1.79807 1.05274
1.22839 1.00175 1.02663 0.94876 1.21802 1.01890 1.00492 0.90890
0.88343 1.23132 0.98615 0.94217 1.00823 1.22377 0.96161 1.03554
0.93455 1.22437 0.93117 1.02393 0.98032 1.23597 0.95360 0.88821
0.95413 1.89141 1.20923 1.39416 1.82803 1.22923 0.85652 0.99029
0.92101 1.23068 0.97380 0.96503 1.05036 1.22478 0.93613 1.01273
1.02021 0.93324 0.93221 0.91424 0.91748 0.89661 0.87226 0.86686
0.88162 0.91515 0.90146 0.88546 0.89436 0.89458 0.88868 0.90371
0.92020 0.90543
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 N -0.91 -51.96 12.93 21.45 0.28 -51.68 16
2 C 0.03 1.93 5.39 84.66 0.46 2.38 16
3 Si 0.94 44.62 29.55 68.60 2.03 46.64 16
4 H -0.27 -12.63 7.11 99.48 0.71 -11.92 16
5 H -0.29 -13.59 7.11 99.48 0.71 -12.88 16
6 H -0.28 -12.90 7.11 99.48 0.71 -12.20 16
7 C -0.48 -26.58 7.55 25.60 0.19 -26.39 16
8 H 0.05 2.65 7.82 -2.91 -0.02 2.63 16
9 C 0.02 1.11 1.65 -52.92 -0.09 1.02 16
10 C -0.02 -0.87 6.05 71.98 0.44 -0.44 16
11 S -0.26 -10.68 20.53 -56.49 -1.16 -11.84 16
12 C -0.06 -1.80 5.40 71.98 0.39 -1.41 16
13 C -0.13 -3.49 5.63 -11.02 -0.06 -3.55 16
14 H 0.10 2.94 8.06 -2.39 -0.02 2.92 16
15 C -0.13 -2.49 9.96 30.36 0.30 -2.19 16
16 C -0.15 -3.22 2.50 -52.30 -0.13 -3.35 16
17 C -0.12 -2.30 6.49 31.41 0.20 -2.10 16
18 C 0.04 0.80 7.65 72.56 0.56 1.36 16
19 O -0.40 -10.02 11.65 -148.98 -1.74 -11.76 16
20 C 0.08 1.63 7.44 72.21 0.54 2.17 16
21 C -0.18 -7.69 9.88 30.60 0.30 -7.39 16
22 C -0.15 -7.11 9.47 30.60 0.29 -6.82 16
23 H 0.26 14.21 8.32 -92.71 -0.77 13.44 16
24 H 0.05 2.43 8.14 -2.40 -0.02 2.41 16
25 H 0.07 2.63 7.95 -2.39 -0.02 2.61 16
26 H 0.06 2.14 7.40 -2.39 -0.02 2.12 16
27 H 0.08 2.34 7.88 -2.39 -0.02 2.32 16
28 H 0.11 1.86 8.04 -2.39 -0.02 1.84 16
29 H 0.11 1.82 8.14 -2.39 -0.02 1.80 16
30 H 0.10 1.44 8.14 -2.39 -0.02 1.42 16
31 H 0.07 1.45 6.90 -2.39 -0.02 1.44 16
32 H 0.08 1.10 8.14 -2.39 -0.02 1.08 16
33 H 0.10 1.59 8.14 -2.38 -0.02 1.57 16
34 H 0.09 1.85 8.12 -2.39 -0.02 1.83 16
35 H 0.09 1.38 8.14 -2.39 -0.02 1.36 16
36 H 0.09 3.38 8.08 -2.39 -0.02 3.36 16
37 H 0.08 3.28 8.14 -2.38 -0.02 3.26 16
38 H 0.06 3.07 8.14 -2.39 -0.02 3.05 16
39 H 0.08 3.24 8.14 -2.39 -0.02 3.22 16
Total: -1.00 -62.45 332.88 3.80 -58.65
By element:
Atomic # 1 Polarization: 15.69 SS G_CDS: 1.00 Total: 16.69 kcal
Atomic # 6 Polarization: -50.08 SS G_CDS: 3.38 Total: -46.70 kcal
Atomic # 7 Polarization: -51.96 SS G_CDS: 0.28 Total: -51.68 kcal
Atomic # 8 Polarization: -10.02 SS G_CDS: -1.74 Total: -11.76 kcal
Atomic # 14 Polarization: 44.62 SS G_CDS: 2.03 Total: 46.64 kcal
Atomic # 16 Polarization: -10.68 SS G_CDS: -1.16 Total: -11.84 kcal
Total: -62.45 3.80 -58.65 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.
ZINC000902543900.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 39.471 kcal
(2) G-P(sol) polarization free energy of solvation -62.445 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -22.975 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.796 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -58.650 kcal
(6) G-S(sol) free energy of system = (1) + (5) -19.179 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.41 seconds