Wall clock time and date at job start Tue Mar 31 2020 10:17:55
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 1.86800 * 119.99510 * 2 1
4 4 H 1.48502 * 109.46873 * 180.02562 * 3 2 1
5 5 H 1.48501 * 109.47452 * 300.00187 * 3 2 1
6 6 H 1.48502 * 109.47172 * 60.00253 * 3 2 1
7 7 C 1.37878 * 120.00552 * 180.02562 * 2 1 3
8 8 H 1.08001 * 120.00171 * 181.11057 * 7 2 1
9 9 C 1.50701 * 119.99474 * 1.11238 * 7 2 1
10 10 N 1.46897 * 110.01651 * 303.12351 * 9 7 2
11 11 C 1.46897 * 111.00308 * 300.57294 * 10 9 7
12 12 H 1.09000 * 109.47264 * 350.67494 * 11 10 9
13 13 C 1.52999 * 109.47374 * 110.67867 * 11 10 9
14 14 C 1.52999 * 109.47241 * 60.00278 * 13 11 10
15 15 C 1.53000 * 109.47274 * 59.99576 * 14 13 11
16 16 C 1.52999 * 109.47332 * 300.00368 * 15 14 13
17 17 H 1.08999 * 109.47217 * 299.99701 * 16 15 14
18 18 C 1.50706 * 109.47028 * 179.97438 * 16 15 14
19 19 C 1.38240 * 120.00063 * 299.73032 * 18 16 15
20 20 C 1.38227 * 119.99717 * 179.78778 * 19 18 16
21 21 C 1.38232 * 120.00157 * 0.46422 * 20 19 18
22 22 C 1.38237 * 120.00117 * 359.76075 * 21 20 19
23 23 C 1.38230 * 119.99665 * 0.03338 * 22 21 20
24 24 C 1.53002 * 109.47168 * 230.68074 * 11 10 9
25 25 C 1.54262 * 110.03556 * 64.51769 * 9 7 2
26 26 C 1.54970 * 104.16029 * 95.75266 * 25 9 7
27 27 C 1.54888 * 102.77438 * 37.88954 * 26 25 9
28 28 C 1.53878 * 110.03114 * 181.73742 * 9 7 2
29 29 H 0.97000 * 120.00692 * 5.01843 * 1 2 3
30 30 H 1.00900 * 111.00027 * 176.61559 * 10 9 7
31 31 H 1.08994 * 109.47034 * 300.00168 * 13 11 10
32 32 H 1.09000 * 109.46960 * 179.97438 * 13 11 10
33 33 H 1.08999 * 109.46943 * 300.00079 * 14 13 11
34 34 H 1.09000 * 109.47337 * 180.02562 * 14 13 11
35 35 H 1.09009 * 109.46653 * 60.00382 * 15 14 13
36 36 H 1.09000 * 109.47380 * 179.97438 * 15 14 13
37 37 H 1.08002 * 119.99891 * 359.97438 * 19 18 16
38 38 H 1.08003 * 120.00182 * 180.24705 * 20 19 18
39 39 H 1.08004 * 120.00023 * 179.79293 * 21 20 19
40 40 H 1.07997 * 120.00266 * 180.02562 * 22 21 20
41 41 H 1.08003 * 120.00158 * 179.97438 * 23 22 21
42 42 H 1.09004 * 109.47252 * 59.99485 * 24 11 10
43 43 H 1.09000 * 109.47612 * 179.97438 * 24 11 10
44 44 H 1.08999 * 110.48973 * 214.39976 * 25 9 7
45 45 H 1.09000 * 110.48459 * 337.04613 * 25 9 7
46 46 H 1.09003 * 110.71934 * 279.57560 * 26 25 9
47 47 H 1.08996 * 110.92355 * 156.29693 * 26 25 9
48 48 H 1.09005 * 110.48459 * 203.40955 * 27 26 25
49 49 H 1.08994 * 110.60164 * 80.82332 * 27 26 25
50 50 H 1.09001 * 110.03152 * 359.94614 * 28 9 7
51 51 H 1.08994 * 110.03328 * 121.32973 * 28 9 7
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 2.2490 1.6178 0.0000
4 1 3.7090 1.3465 -0.0006
5 1 1.8902 2.3966 -1.2125
6 1 1.8902 2.3965 1.2125
7 6 2.0046 -1.1940 -0.0005
8 1 3.0845 -1.1940 0.0176
9 6 1.2513 -2.4990 -0.0265
10 7 0.3275 -2.5690 1.1135
11 6 1.0530 -2.4643 2.3864
12 1 2.1252 -2.5246 2.1996
13 6 0.7256 -1.1260 3.0516
14 6 -0.7793 -1.0416 3.3141
15 6 -1.2011 -2.1866 4.2371
16 6 -0.8737 -3.5249 3.5719
17 1 -1.4121 -3.6026 2.6273
18 6 -1.2887 -4.6527 4.4813
19 6 -0.7307 -4.7658 5.7410
20 6 -1.1146 -5.7978 6.5768
21 6 -2.0493 -6.7221 6.1493
22 6 -2.6038 -6.6117 4.8879
23 6 -2.2231 -5.5773 4.0537
24 6 0.6313 -3.6094 3.3095
25 6 0.4692 -2.6315 -1.3495
26 6 1.4042 -3.4666 -2.2606
27 6 2.0219 -4.4878 -1.2733
28 6 2.2385 -3.6784 0.0220
29 1 -0.4851 0.8368 -0.0735
30 1 -0.2246 -3.4129 1.0802
31 1 1.0261 -0.3103 2.3941
32 1 1.2637 -1.0486 3.9964
33 1 -1.3177 -1.1192 2.3696
34 1 -1.0126 -0.0879 3.7876
35 1 -0.6627 -2.1090 5.1817
36 1 -2.2732 -2.1262 4.4244
37 1 0.0029 -4.0462 6.0733
38 1 -0.6816 -5.8839 7.5625
39 1 -2.3467 -7.5303 6.8011
40 1 -3.3344 -7.3336 4.5540
41 1 -2.6560 -5.4912 3.0680
42 1 0.8645 -4.5629 2.8356
43 1 1.1700 -3.5321 4.2539
44 1 -0.4718 -3.1566 -1.1854
45 1 0.2881 -1.6492 -1.7856
46 1 2.1782 -2.8368 -2.6995
47 1 0.8360 -3.9764 -3.0385
48 1 2.9731 -4.8594 -1.6544
49 1 1.3339 -5.3143 -1.0962
50 1 3.2624 -3.3069 0.0633
51 1 2.0325 -4.3022 0.8918
RHF calculation, no. of doubly occupied orbitals= 60
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=WATER
ZINC001256114290.mol2 51
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 10:17:55
Heat of formation + Delta-G solvation = -2.756392 kcal
Electronic energy + Delta-G solvation = -27794.713400 eV
Core-core repulsion = 24463.963300 eV
Total energy + Delta-G solvation = -3330.750100 eV
No. of doubly occupied orbitals = 60
Molecular weight
(most abundant/longest-lived isotopes) = 313.210 amu
Computer time = 0.84 seconds
Orbital eigenvalues (eV)
-40.91643 -39.67037 -38.12952 -34.58609 -33.73047 -32.86186 -31.69865 -30.26501
-29.31899 -29.11508 -27.75754 -25.42138 -24.21734 -23.37479 -22.91249 -21.67839
-21.11559 -20.44843 -19.47177 -17.83479 -17.58688 -16.67420 -16.57835 -16.17881
-15.90979 -15.68444 -15.30627 -15.10629 -14.81474 -14.57097 -14.15532 -14.03333
-14.00826 -13.81431 -13.33275 -13.17442 -13.11169 -12.96007 -12.81179 -12.58819
-12.41353 -12.17915 -12.12049 -11.97390 -11.76460 -11.63249 -11.55552 -11.47662
-11.33560 -11.16029 -11.08114 -10.75242 -10.71043 -10.52373 -10.07526 -9.72901
-9.45686 -8.28883 -7.71562 -5.89571 0.56065 0.59071 1.39070 1.46894
1.51138 2.56050 2.97776 3.42620 3.79782 3.88757 3.99073 4.13429
4.21042 4.24307 4.25572 4.27009 4.36031 4.41264 4.50763 4.59779
4.66812 4.71894 4.78359 4.83223 4.87921 4.90937 4.92237 4.99923
5.06181 5.10407 5.13034 5.17437 5.22443 5.24875 5.28268 5.31387
5.32504 5.39713 5.46325 5.60102 5.60919 5.68386 5.70404 5.71720
5.75090 5.86795 5.91582 5.94980 5.99651 6.13141 6.22847 6.53050
6.94608 7.23987 7.58176 7.77744 9.23670
Molecular weight = 313.21amu
Principal moments of inertia in cm(-1)
A = 0.015762 B = 0.004528 C = 0.003855
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1776.013221 B = 6181.730259 C = 7261.640724
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.841 5.841
2 C 0.068 3.932
3 Si 0.898 3.102
4 H -0.282 1.282
5 H -0.288 1.288
6 H -0.289 1.289
7 C -0.521 4.521
8 H 0.027 0.973
9 C 0.241 3.759
10 N -0.638 5.638
11 C 0.117 3.883
12 H 0.027 0.973
13 C -0.093 4.093
14 C -0.095 4.095
15 C -0.093 4.093
16 C -0.032 4.032
17 H 0.071 0.929
18 C -0.078 4.078
19 C -0.127 4.127
20 C -0.126 4.126
21 C -0.135 4.135
22 C -0.125 4.125
23 C -0.134 4.134
24 C -0.109 4.109
25 C -0.085 4.085
26 C -0.118 4.118
27 C -0.111 4.111
28 C -0.145 4.145
29 H 0.245 0.755
30 H 0.303 0.697
31 H 0.045 0.955
32 H 0.037 0.963
33 H 0.062 0.938
34 H 0.035 0.965
35 H 0.060 0.940
36 H 0.055 0.945
37 H 0.122 0.878
38 H 0.138 0.862
39 H 0.142 0.858
40 H 0.139 0.861
41 H 0.122 0.878
42 H 0.051 0.949
43 H 0.064 0.936
44 H 0.034 0.966
45 H 0.041 0.959
46 H 0.048 0.952
47 H 0.066 0.934
48 H 0.061 0.939
49 H 0.066 0.934
50 H 0.035 0.965
51 H 0.046 0.954
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -4.014 -12.230 9.546 16.025
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 -0.477 5.477
2 C -0.136 4.136
3 Si 0.727 3.273
4 H -0.207 1.207
5 H -0.215 1.215
6 H -0.216 1.216
7 C -0.560 4.560
8 H 0.045 0.955
9 C 0.152 3.848
10 N -0.268 5.268
11 C 0.007 3.993
12 H 0.045 0.955
13 C -0.132 4.132
14 C -0.132 4.132
15 C -0.130 4.130
16 C -0.050 4.050
17 H 0.089 0.911
18 C -0.078 4.078
19 C -0.145 4.145
20 C -0.144 4.144
21 C -0.152 4.152
22 C -0.143 4.143
23 C -0.152 4.152
24 C -0.147 4.147
25 C -0.123 4.123
26 C -0.156 4.156
27 C -0.149 4.149
28 C -0.185 4.185
29 H 0.055 0.945
30 H 0.121 0.879
31 H 0.063 0.937
32 H 0.055 0.945
33 H 0.081 0.919
34 H 0.053 0.947
35 H 0.078 0.922
36 H 0.074 0.926
37 H 0.140 0.860
38 H 0.156 0.844
39 H 0.160 0.840
40 H 0.156 0.844
41 H 0.140 0.860
42 H 0.070 0.930
43 H 0.083 0.917
44 H 0.052 0.948
45 H 0.060 0.940
46 H 0.067 0.933
47 H 0.084 0.916
48 H 0.079 0.921
49 H 0.084 0.916
50 H 0.054 0.946
51 H 0.065 0.935
Dipole moment (debyes) X Y Z Total
from point charges -4.350 -11.422 9.595 15.539
hybrid contribution 1.196 0.768 -0.235 1.441
sum -3.153 -10.654 9.360 14.528
Atomic orbital electron populations
1.70209 1.05398 1.24754 1.47307 1.25064 0.94880 0.98838 0.94850
0.86506 0.79607 0.84205 0.77002 1.20724 1.21479 1.21555 1.21033
0.90782 0.91428 1.52774 0.95502 1.19122 0.87345 0.90602 0.87752
1.60666 1.25450 1.40201 1.00434 1.20984 0.95270 0.93336 0.89699
0.95482 1.21389 0.95881 0.98730 0.97169 1.21180 0.96628 0.96122
0.99290 1.21450 1.00089 0.93536 0.97928 1.19956 0.95722 0.92253
0.97096 0.91101 1.20042 0.96498 0.96151 0.95122 1.21160 1.00413
0.99053 0.93922 1.21410 0.97949 0.94765 1.00247 1.21429 0.97440
0.99797 0.96582 1.21403 1.00264 0.98149 0.94457 1.21294 0.98094
0.95368 1.00417 1.21933 0.95467 0.97612 0.99686 1.22074 0.95858
0.97678 0.96714 1.22426 0.98621 0.97150 0.97356 1.22223 1.00032
0.97205 0.95421 1.22996 1.00344 0.98257 0.96879 0.94514 0.87936
0.93666 0.94476 0.91898 0.94667 0.92152 0.92592 0.86046 0.84369
0.84042 0.84360 0.85956 0.92997 0.91701 0.94777 0.94029 0.93330
0.91558 0.92054 0.91565 0.94649 0.93546
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 -0.84 -44.44 11.35 21.45 0.24 -44.20 16
2 C 0.07 3.56 3.19 84.66 0.27 3.83 16
3 Si 0.90 42.81 29.54 68.60 2.03 44.84 16
4 H -0.28 -13.56 7.11 99.48 0.71 -12.85 16
5 H -0.29 -13.72 7.11 99.48 0.71 -13.01 16
6 H -0.29 -13.85 7.11 99.48 0.71 -13.14 16
7 C -0.52 -26.84 6.65 25.60 0.17 -26.67 16
8 H 0.03 1.46 7.33 -2.91 -0.02 1.44 16
9 C 0.24 10.77 0.38 3.51 0.00 10.77 16
10 N -0.64 -26.70 4.06 -448.41 -1.82 -28.52 16
11 C 0.12 4.58 1.59 44.92 0.07 4.65 16
12 H 0.03 1.19 6.31 -2.39 -0.02 1.17 16
13 C -0.09 -3.80 5.59 30.59 0.17 -3.62 16
14 C -0.09 -3.52 5.77 30.59 0.18 -3.35 16
15 C -0.09 -2.80 5.02 30.59 0.15 -2.65 16
16 C -0.03 -0.93 2.18 -11.54 -0.03 -0.96 16
17 H 0.07 2.28 6.53 -2.39 -0.02 2.27 16
18 C -0.08 -2.03 4.78 -19.86 -0.09 -2.13 16
19 C -0.13 -3.02 8.71 22.27 0.19 -2.82 16
20 C -0.13 -2.52 10.05 22.27 0.22 -2.29 16
21 C -0.13 -2.51 10.05 22.27 0.22 -2.29 16
22 C -0.12 -2.52 10.05 22.27 0.22 -2.30 16
23 C -0.13 -3.23 9.67 22.27 0.22 -3.01 16
24 C -0.11 -3.42 4.37 30.60 0.13 -3.29 16
25 C -0.08 -3.71 5.65 31.70 0.18 -3.53 16
26 C -0.12 -4.33 6.91 31.91 0.22 -4.11 16
27 C -0.11 -3.75 6.83 31.67 0.22 -3.54 16
28 C -0.14 -5.73 5.18 31.32 0.16 -5.57 16
29 H 0.24 12.87 8.32 -92.71 -0.77 12.10 16
30 H 0.30 11.98 6.71 -89.69 -0.60 11.38 16
31 H 0.04 2.19 5.74 -2.39 -0.01 2.18 16
32 H 0.04 1.37 8.14 -2.39 -0.02 1.36 16
33 H 0.06 2.72 7.60 -2.39 -0.02 2.70 16
34 H 0.03 1.28 8.14 -2.39 -0.02 1.26 16
35 H 0.06 1.69 7.41 -2.38 -0.02 1.68 16
36 H 0.06 1.62 8.14 -2.39 -0.02 1.60 16
37 H 0.12 2.75 7.10 -2.91 -0.02 2.72 16
38 H 0.14 2.09 8.06 -2.91 -0.02 2.06 16
39 H 0.14 1.85 8.06 -2.91 -0.02 1.83 16
40 H 0.14 2.12 8.06 -2.91 -0.02 2.10 16
41 H 0.12 2.81 7.95 -2.91 -0.02 2.79 16
42 H 0.05 1.62 7.71 -2.39 -0.02 1.60 16
43 H 0.06 1.91 7.37 -2.39 -0.02 1.89 16
44 H 0.03 1.45 7.91 -2.39 -0.02 1.43 16
45 H 0.04 2.10 6.72 -2.39 -0.02 2.08 16
46 H 0.05 1.88 8.14 -2.39 -0.02 1.86 16
47 H 0.07 2.11 8.14 -2.39 -0.02 2.10 16
48 H 0.06 1.87 8.14 -2.38 -0.02 1.85 16
49 H 0.07 2.01 8.14 -2.39 -0.02 1.99 16
50 H 0.03 1.49 7.37 -2.39 -0.02 1.47 16
51 H 0.05 1.73 6.76 -2.39 -0.02 1.72 16
Total: -1.00 -54.74 374.86 3.63 -51.12
By element:
Atomic # 1 Polarization: 29.35 SS G_CDS: 0.29 Total: 29.64 kcal
Atomic # 6 Polarization: -55.76 SS G_CDS: 2.89 Total: -52.87 kcal
Atomic # 7 Polarization: -71.14 SS G_CDS: -1.58 Total: -72.72 kcal
Atomic # 14 Polarization: 42.81 SS G_CDS: 2.03 Total: 44.84 kcal
Total: -54.74 3.63 -51.12 kcal
The number of atoms in the molecule is 51
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.
ZINC001256114290.mol2 51
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 48.360 kcal
(2) G-P(sol) polarization free energy of solvation -54.742 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -6.383 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.626 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -51.116 kcal
(6) G-S(sol) free energy of system = (1) + (5) -2.756 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.84 seconds