Wall clock time and date at job start Wed Apr 1 2020 04:58:26
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 1.31618 * 1
3 3 Si 1.86793 * 120.00475 * 2 1
4 4 H 1.48499 * 109.47356 * 180.02562 * 3 2 1
5 5 H 1.48499 * 109.47061 * 300.00092 * 3 2 1
6 6 H 1.48506 * 109.46950 * 60.00087 * 3 2 1
7 7 C 1.38819 * 119.99591 * 180.02562 * 2 1 3
8 8 H 1.07997 * 119.99692 * 180.27759 * 7 2 1
9 9 N 1.36936 * 120.00131 * 359.97438 * 7 2 1
10 10 C 1.47423 * 125.64754 * 14.34596 * 9 7 2
11 11 C 1.55130 * 104.72431 * 155.81102 * 10 9 7
12 12 C 1.55158 * 101.48278 * 37.29236 * 11 10 9
13 13 C 1.47015 * 125.64691 * 194.64025 * 9 7 2
14 14 H 1.08997 * 109.88877 * 300.60290 * 13 9 7
15 15 C 1.52999 * 109.88384 * 61.61647 * 13 9 7
16 16 C 1.53044 * 109.46472 * 177.80745 * 15 13 9
17 17 C 1.53187 * 109.31327 * 178.61496 * 16 15 13
18 18 N 1.46927 * 108.78034 * 54.63364 * 17 16 15
19 19 C 1.34768 * 120.63182 * 126.41328 * 18 17 16
20 20 O 1.21284 * 119.99970 * 179.97438 * 19 18 17
21 21 C 1.50701 * 120.00189 * 359.97438 * 19 18 17
22 22 C 1.52994 * 109.47391 * 180.02562 * 21 19 18
23 23 C 1.50695 * 109.47429 * 180.02562 * 22 21 19
24 24 C 1.41383 * 126.80636 * 124.70833 * 23 22 21
25 25 C 1.35448 * 103.98745 * 179.88836 * 24 23 22
26 26 O 1.34038 * 106.44529 * 0.36854 * 25 24 23
27 27 N 1.20927 * 111.56849 * 359.74978 * 26 25 24
28 28 C 1.46931 * 118.73398 * 306.39412 * 18 17 16
29 29 C 1.53048 * 109.46091 * 57.73744 * 15 13 9
30 30 H 0.97000 * 119.99390 * 359.97438 * 1 2 3
31 31 H 1.09005 * 110.36604 * 274.74173 * 10 9 7
32 32 H 1.09000 * 110.36806 * 37.05655 * 10 9 7
33 33 H 1.08996 * 111.19034 * 279.18889 * 11 10 9
34 34 H 1.08994 * 110.90382 * 155.27411 * 11 10 9
35 35 H 1.09003 * 110.71681 * 205.96510 * 12 11 10
36 36 H 1.08998 * 110.71706 * 82.69819 * 12 11 10
37 37 H 1.09001 * 109.45633 * 297.76862 * 15 13 9
38 38 H 1.08997 * 109.49287 * 298.56365 * 16 15 13
39 39 H 1.09000 * 109.49320 * 58.66043 * 16 15 13
40 40 H 1.09004 * 109.58323 * 294.84456 * 17 16 15
41 41 H 1.08996 * 109.70428 * 174.49497 * 17 16 15
42 42 H 1.08999 * 109.47258 * 300.00397 * 21 19 18
43 43 H 1.09002 * 109.47001 * 60.00093 * 21 19 18
44 44 H 1.09011 * 109.47223 * 299.99964 * 22 21 19
45 45 H 1.08998 * 109.47602 * 60.00123 * 22 21 19
46 46 H 1.08000 * 128.00572 * 0.02562 * 24 23 22
47 47 H 1.07995 * 126.77780 * 180.09651 * 25 24 23
48 48 H 1.08998 * 109.58552 * 293.81138 * 28 18 17
49 49 H 1.09003 * 109.70055 * 173.46573 * 28 18 17
50 50 H 1.08997 * 109.49582 * 301.34166 * 29 15 13
51 51 H 1.09000 * 109.49620 * 61.43338 * 29 15 13
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 2.2503 1.6176 0.0000
4 1 3.7103 1.3462 -0.0006
5 1 1.8916 2.3963 -1.2125
6 1 1.8916 2.3963 1.2126
7 6 2.0102 -1.2023 -0.0005
8 1 3.0902 -1.2023 0.0040
9 7 1.3255 -2.3881 -0.0005
10 6 -0.1094 -2.5517 -0.2969
11 6 -0.2483 -4.0211 -0.7745
12 6 0.7641 -4.7443 0.1526
13 6 1.8981 -3.7082 0.3009
14 1 2.7022 -3.9324 -0.4000
15 6 2.4362 -3.7272 1.7330
16 6 2.9803 -5.1210 2.0549
17 6 3.5493 -5.1268 3.4771
18 7 2.5112 -4.6554 4.4039
19 6 2.1657 -5.3906 5.4793
20 8 1.3075 -4.9903 6.2371
21 6 2.8455 -6.7100 5.7402
22 6 2.2723 -7.3362 7.0130
23 6 2.9526 -8.6552 7.2742
24 6 3.6246 -9.0422 8.4564
25 6 4.0516 -10.3004 8.1933
26 8 3.6494 -10.5848 6.9467
27 7 3.0427 -9.6620 6.4540
28 6 1.8574 -3.3672 4.1361
29 6 1.3071 -3.3812 2.7066
30 1 -0.4849 0.8401 0.0004
31 1 -0.7037 -2.3846 0.6015
32 1 -0.4142 -1.8659 -1.0873
33 1 0.0379 -4.1239 -1.8211
34 1 -1.2609 -4.3894 -0.6100
35 1 1.1336 -5.6561 -0.3168
36 1 0.3126 -4.9631 1.1202
37 1 3.2367 -2.9938 1.8299
38 1 2.1746 -5.8516 1.9825
39 1 3.7684 -5.3763 1.3465
40 1 4.4129 -4.4635 3.5278
41 1 3.8495 -6.1388 3.7487
42 1 2.6746 -7.3797 4.8974
43 1 3.9163 -6.5486 5.8646
44 1 2.4430 -6.6665 7.8561
45 1 1.2016 -7.4976 6.8882
46 1 3.7633 -8.4683 9.3607
47 1 4.6100 -10.9454 8.8555
48 1 2.5829 -2.5605 4.2407
49 1 1.0396 -3.2166 4.8410
50 1 0.9045 -2.3982 2.4621
51 1 0.5172 -4.1282 2.6280
RHF calculation, no. of doubly occupied orbitals= 66
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
ZINC001004489694.mol2 51
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 04:58:26
Heat of formation + Delta-G solvation = 24.637061 kcal
Electronic energy + Delta-G solvation = -31251.775625 eV
Core-core repulsion = 27153.997188 eV
Total energy + Delta-G solvation = -4097.778437 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 347.200 amu
Computer time = 1.01 seconds
Orbital eigenvalues (eV)
-45.83855 -41.40442 -39.92919 -37.78440 -36.28728 -34.73328 -33.81879 -33.11360
-32.38300 -31.66891 -31.18121 -29.17298 -26.91195 -26.41884 -25.01981 -24.05438
-23.97074 -22.64388 -21.88470 -21.58561 -20.47918 -19.51633 -18.85975 -18.54718
-18.44951 -17.90726 -17.02651 -16.81931 -16.70053 -16.37418 -15.79575 -15.71088
-15.32627 -15.14794 -14.99240 -14.46853 -14.34923 -14.16946 -13.88159 -13.85099
-13.56320 -13.46821 -13.35008 -13.17002 -13.00283 -12.81654 -12.79475 -12.66157
-12.56019 -12.17125 -11.98765 -11.93581 -11.84366 -11.75074 -11.49146 -11.32209
-11.20270 -10.97246 -10.92506 -10.75788 -10.62789 -10.49244 -9.66307 -8.71945
-7.81583 -5.16028 0.68543 1.32150 1.44655 1.45541 1.54828 1.57508
1.99337 2.51394 2.54192 3.19172 3.37279 3.49508 3.65551 3.69716
3.88015 3.93143 4.03271 4.07282 4.17213 4.22416 4.24678 4.27827
4.33047 4.36437 4.39683 4.46346 4.58475 4.64145 4.68361 4.74108
4.79103 4.81774 4.87483 4.90709 4.93544 5.04995 5.06986 5.09356
5.16529 5.21422 5.22486 5.26047 5.29628 5.53997 5.56906 5.65770
5.69348 5.72636 5.82012 6.30109 6.42805 7.11889 7.16073 7.41148
7.86010 8.54183 9.29947
Molecular weight = 347.20amu
Principal moments of inertia in cm(-1)
A = 0.019135 B = 0.002276 C = 0.002168
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1462.915126 B =12299.636276 C =12912.609597
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.949 5.949
2 C -0.065 4.065
3 Si 0.965 3.035
4 H -0.265 1.265
5 H -0.297 1.297
6 H -0.298 1.298
7 C -0.219 4.219
8 H 0.077 0.923
9 N -0.609 5.609
10 C 0.180 3.820
11 C -0.140 4.140
12 C -0.115 4.115
13 C 0.157 3.843
14 H 0.035 0.965
15 C -0.083 4.083
16 C -0.122 4.122
17 C 0.106 3.894
18 N -0.605 5.605
19 C 0.511 3.489
20 O -0.589 6.589
21 C -0.121 4.121
22 C -0.022 4.022
23 C 0.003 3.997
24 C -0.243 4.243
25 C -0.042 4.042
26 O 0.087 5.913
27 N -0.395 5.395
28 C 0.119 3.881
29 C -0.102 4.102
30 H 0.243 0.757
31 H -0.009 1.009
32 H 0.028 0.972
33 H 0.063 0.937
34 H 0.073 0.927
35 H 0.089 0.911
36 H 0.067 0.933
37 H 0.050 0.950
38 H 0.070 0.930
39 H 0.094 0.906
40 H 0.079 0.921
41 H 0.113 0.887
42 H 0.106 0.894
43 H 0.117 0.883
44 H 0.097 0.903
45 H 0.073 0.927
46 H 0.193 0.807
47 H 0.261 0.739
48 H 0.063 0.937
49 H 0.067 0.933
50 H 0.045 0.955
51 H 0.052 0.948
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 11.628 -22.322 14.693 29.144
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 -0.598 5.598
2 C -0.258 4.258
3 Si 0.795 3.205
4 H -0.189 1.189
5 H -0.224 1.224
6 H -0.225 1.225
7 C -0.348 4.348
8 H 0.094 0.906
9 N -0.333 5.333
10 C 0.055 3.945
11 C -0.178 4.178
12 C -0.152 4.152
13 C 0.051 3.949
14 H 0.053 0.947
15 C -0.104 4.104
16 C -0.160 4.160
17 C -0.015 4.015
18 N -0.337 5.337
19 C 0.301 3.699
20 O -0.470 6.470
21 C -0.161 4.161
22 C -0.061 4.061
23 C -0.155 4.155
24 C -0.264 4.264
25 C -0.123 4.123
26 O 0.022 5.978
27 N -0.101 5.101
28 C -0.003 4.003
29 C -0.140 4.140
30 H 0.052 0.948
31 H 0.009 0.991
32 H 0.047 0.953
33 H 0.082 0.918
34 H 0.092 0.908
35 H 0.108 0.892
36 H 0.086 0.914
37 H 0.068 0.932
38 H 0.089 0.911
39 H 0.113 0.887
40 H 0.097 0.903
41 H 0.131 0.869
42 H 0.124 0.876
43 H 0.135 0.865
44 H 0.115 0.885
45 H 0.091 0.909
46 H 0.210 0.790
47 H 0.277 0.723
48 H 0.082 0.918
49 H 0.086 0.914
50 H 0.064 0.936
51 H 0.071 0.929
Dipole moment (debyes) X Y Z Total
from point charges 10.739 -22.121 13.800 28.197
hybrid contribution -0.079 2.204 0.618 2.290
sum 10.660 -19.917 14.418 26.799
Atomic orbital electron populations
1.70156 1.06253 1.24783 1.58604 1.25588 0.96348 1.00653 1.03180
0.85194 0.78504 0.80460 0.76360 1.18897 1.22405 1.22503 1.19259
0.90557 0.83476 1.41545 0.90566 1.44719 1.06045 1.02328 1.80196
1.21181 0.84963 0.92484 0.95898 1.22928 0.99376 0.96334 0.99190
1.22617 0.95670 0.97466 0.99459 1.21192 0.94764 0.85337 0.93571
0.94692 1.21412 0.96608 0.96856 0.95485 1.21943 1.01660 0.96062
0.96343 1.22010 0.89393 1.01773 0.88354 1.48251 1.39384 1.20588
1.25487 1.21153 0.82219 0.86669 0.79869 1.90672 1.34725 1.73286
1.48284 1.21583 1.02135 0.92515 0.99850 1.19631 0.98825 0.89199
0.98400 1.23799 1.01892 0.97094 0.92675 1.23130 1.04368 0.97779
1.01165 1.26878 1.00638 0.98047 0.86759 1.84807 1.52189 1.34339
1.26477 1.73862 1.14519 0.98149 1.23551 1.21423 0.97276 0.84965
0.96680 1.21619 0.98090 1.00983 0.93335 0.94767 0.99091 0.95342
0.91795 0.90794 0.89210 0.91432 0.93173 0.91139 0.88707 0.90297
0.86918 0.87618 0.86490 0.88489 0.90860 0.79011 0.72305 0.91840
0.91400 0.93589 0.92920
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 -0.95 -57.35 10.56 21.65 0.23 -57.12 16
2 C -0.06 -3.66 5.47 84.86 0.46 -3.19 16
3 Si 0.97 46.00 29.55 68.60 2.03 48.03 16
4 H -0.26 -11.78 7.11 99.48 0.71 -11.07 16
5 H -0.30 -14.26 7.11 99.48 0.71 -13.55 16
6 H -0.30 -14.38 7.11 99.48 0.71 -13.67 16
7 C -0.22 -11.84 9.85 84.04 0.83 -11.01 16
8 H 0.08 3.99 7.83 -2.91 -0.02 3.96 16
9 N -0.61 -29.80 2.27 -667.83 -1.51 -31.31 16
10 C 0.18 8.88 5.42 86.93 0.47 9.35 16
11 C -0.14 -5.15 7.10 32.06 0.23 -4.93 16
12 C -0.11 -3.67 5.21 31.78 0.17 -3.51 16
13 C 0.16 5.91 2.95 45.34 0.13 6.05 16
14 H 0.04 1.31 8.14 -2.39 -0.02 1.29 16
15 C -0.08 -2.73 1.91 -10.76 -0.02 -2.75 16
16 C -0.12 -2.74 5.09 30.67 0.16 -2.59 16
17 C 0.11 2.06 6.34 86.36 0.55 2.61 16
18 N -0.60 -15.87 2.97 -818.92 -2.43 -18.31 16
19 C 0.51 13.61 7.70 87.66 0.67 14.28 16
20 O -0.59 -20.49 15.40 -3.04 -0.05 -20.54 16
21 C -0.12 -2.21 4.02 29.85 0.12 -2.09 16
22 C -0.02 -0.42 5.10 29.84 0.15 -0.26 16
23 C 0.00 0.06 6.59 43.58 0.29 0.35 16
24 C -0.24 -2.64 11.12 22.40 0.25 -2.39 16
25 C -0.04 -0.32 12.30 67.17 0.83 0.50 16
26 O 0.09 1.34 11.20 71.64 0.80 2.14 16
27 N -0.40 -7.87 12.06 -49.56 -0.60 -8.46 16
28 C 0.12 3.92 6.43 86.36 0.56 4.48 16
29 C -0.10 -3.75 4.93 30.67 0.15 -3.59 16
30 H 0.24 14.44 8.31 -92.71 -0.77 13.67 16
31 H -0.01 -0.49 8.07 -2.38 -0.02 -0.51 16
32 H 0.03 1.60 6.91 -2.39 -0.02 1.58 16
33 H 0.06 2.27 8.14 -2.39 -0.02 2.25 16
34 H 0.07 2.44 8.14 -2.39 -0.02 2.42 16
35 H 0.09 2.30 8.14 -2.39 -0.02 2.28 16
36 H 0.07 2.16 5.49 -2.39 -0.01 2.15 16
37 H 0.05 1.83 8.04 -2.39 -0.02 1.81 16
38 H 0.07 1.57 7.10 -2.39 -0.02 1.56 16
39 H 0.09 1.77 8.14 -2.39 -0.02 1.75 16
40 H 0.08 1.43 8.14 -2.38 -0.02 1.41 16
41 H 0.11 1.49 5.93 -2.39 -0.01 1.48 16
42 H 0.11 1.83 7.70 -2.39 -0.02 1.82 16
43 H 0.12 1.60 7.94 -2.39 -0.02 1.58 16
44 H 0.10 1.73 8.09 -2.38 -0.02 1.71 16
45 H 0.07 1.64 8.10 -2.39 -0.02 1.62 16
46 H 0.19 1.11 8.06 -2.91 -0.02 1.09 16
47 H 0.26 -0.79 8.06 -2.91 -0.02 -0.81 16
48 H 0.06 2.08 8.14 -2.39 -0.02 2.06 16
49 H 0.07 2.47 7.01 -2.39 -0.02 2.45 16
50 H 0.05 2.16 7.52 -2.39 -0.02 2.14 16
51 H 0.05 1.94 6.14 -2.39 -0.01 1.93 16
Total: -1.00 -75.24 396.15 5.38 -69.86
By element:
Atomic # 1 Polarization: 13.47 SS G_CDS: 0.92 Total: 14.39 kcal
Atomic # 6 Polarization: -4.67 SS G_CDS: 5.99 Total: 1.32 kcal
Atomic # 7 Polarization: -110.88 SS G_CDS: -4.32 Total: -115.20 kcal
Atomic # 8 Polarization: -19.15 SS G_CDS: 0.76 Total: -18.40 kcal
Atomic # 14 Polarization: 46.00 SS G_CDS: 2.03 Total: 48.03 kcal
Total: -75.24 5.38 -69.86 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.
ZINC001004489694.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 94.498 kcal
(2) G-P(sol) polarization free energy of solvation -75.237 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 19.261 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 5.376 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -69.861 kcal
(6) G-S(sol) free energy of system = (1) + (5) 24.637 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.02 seconds