Wall clock time and date at job start Wed Apr 1 2020 03:43:25
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 1.31521 * 1
3 3 Si 1.86798 * 119.99557 * 2 1
4 4 H 1.48505 * 109.47073 * 180.02562 * 3 2 1
5 5 H 1.48507 * 109.47233 * 299.99853 * 3 2 1
6 6 H 1.48497 * 109.47470 * 60.00140 * 3 2 1
7 7 C 1.37871 * 120.00132 * 180.02562 * 2 1 3
8 8 H 1.08001 * 120.00038 * 179.97438 * 7 2 1
9 9 C 1.50702 * 120.00065 * 0.02562 * 7 2 1
10 10 C 1.53007 * 109.46877 * 180.02562 * 9 7 2
11 11 C 1.53007 * 109.46680 * 179.97438 * 10 9 7
12 12 C 1.53002 * 109.46663 * 179.97438 * 11 10 9
13 13 H 1.08997 * 109.46848 * 55.00407 * 12 11 10
14 14 N 1.46897 * 109.47444 * 294.99900 * 12 11 10
15 15 C 1.50703 * 109.46898 * 174.99795 * 12 11 10
16 16 O 1.21289 * 119.99495 * 95.17562 * 15 12 11
17 17 N 1.34779 * 119.99944 * 275.17712 * 15 12 11
18 18 C 1.46930 * 120.55651 * 3.49668 * 17 15 12
19 19 C 1.53019 * 108.00419 * 224.55014 * 18 17 15
20 20 H 1.08991 * 109.41179 * 56.84507 * 19 18 17
21 21 C 1.53004 * 109.71280 * 177.08307 * 19 18 17
22 22 C 1.53004 * 109.47166 * 184.61635 * 21 19 18
23 23 N 1.46892 * 109.46961 * 179.97438 * 22 21 19
24 24 C 1.52853 * 108.98377 * 297.04849 * 19 18 17
25 25 C 1.50591 * 110.50011 * 51.29331 * 24 19 18
26 26 C 1.38503 * 118.93223 * 159.51176 * 25 24 19
27 27 C 1.38130 * 120.30610 * 179.57833 * 26 25 24
28 28 C 1.38305 * 120.14905 * 359.97438 * 27 26 25
29 29 C 1.38031 * 119.90660 * 0.11884 * 28 27 26
30 30 C 1.38573 * 121.50132 * 339.26573 * 25 24 19
31 31 H 0.96998 * 119.99865 * 359.97438 * 1 2 3
32 32 H 1.08997 * 109.47295 * 59.99651 * 9 7 2
33 33 H 1.08995 * 109.46769 * 299.99471 * 9 7 2
34 34 H 1.09000 * 109.46994 * 59.99685 * 10 9 7
35 35 H 1.08995 * 109.46941 * 299.99307 * 10 9 7
36 36 H 1.08997 * 109.47184 * 59.99780 * 11 10 9
37 37 H 1.09000 * 109.46651 * 299.99639 * 11 10 9
38 38 H 1.00897 * 111.00195 * 176.04497 * 14 12 11
39 39 H 1.00895 * 111.00078 * 300.00598 * 14 12 11
40 40 H 1.08997 * 109.79598 * 344.20574 * 18 17 15
41 41 H 1.08999 * 109.79475 * 105.06084 * 18 17 15
42 42 H 1.09003 * 109.46667 * 304.61215 * 21 19 18
43 43 H 1.08997 * 109.47658 * 64.61090 * 21 19 18
44 44 H 1.08999 * 109.46513 * 299.99544 * 22 21 19
45 45 H 1.08997 * 109.47277 * 59.99222 * 22 21 19
46 46 H 1.00902 * 111.00481 * 56.04268 * 23 22 21
47 47 H 1.00907 * 110.99811 * 179.97438 * 23 22 21
48 48 H 1.09002 * 109.27407 * 291.03387 * 24 19 18
49 49 H 1.08998 * 109.23873 * 171.53629 * 24 19 18
50 50 H 1.08003 * 119.85143 * 359.58271 * 26 25 24
51 51 H 1.07993 * 119.92644 * 180.02562 * 27 26 25
52 52 H 1.08003 * 120.04584 * 180.14442 * 28 27 26
53 53 H 1.08009 * 119.98371 * 179.97438 * 29 28 27
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 1.3152 0.0000 0.0000
3 14 2.2491 1.6178 0.0000
4 1 3.7091 1.3465 -0.0006
5 1 1.8903 2.3965 -1.2126
6 1 1.8904 2.3965 1.2125
7 6 2.0046 -1.1940 -0.0005
8 1 3.0846 -1.1940 -0.0010
9 6 1.2511 -2.4991 -0.0017
10 6 2.2455 -3.6620 -0.0015
11 6 1.4805 -4.9871 -0.0020
12 6 2.4748 -6.1500 -0.0024
13 1 3.1588 -6.0433 0.8395
14 7 3.2380 -6.1413 -1.2575
15 6 1.7255 -7.4516 0.1210
16 8 1.4366 -8.0817 -0.8744
17 7 1.3762 -7.9155 1.3373
18 6 1.6519 -7.1259 2.5453
19 6 2.2242 -8.0686 3.6061
20 1 3.1126 -8.5615 3.2114
21 6 2.5940 -7.2720 4.8590
22 6 3.2707 -8.1985 5.8713
23 7 3.6262 -7.4335 7.0738
24 6 1.1705 -9.1181 3.9592
25 6 0.6373 -9.7707 2.7112
26 6 0.0178 -11.0053 2.8130
27 6 -0.4893 -11.6256 1.6878
28 6 -0.3818 -11.0164 0.4508
29 6 0.2359 -9.7870 0.3405
30 6 0.7491 -9.1620 1.4714
31 1 -0.4850 0.8400 0.0004
32 1 0.6248 -2.5563 -0.8919
33 1 0.6242 -2.5575 0.8880
34 1 2.8715 -3.6046 0.8890
35 1 2.8727 -3.6039 -0.8910
36 1 0.8542 -5.0447 -0.8922
37 1 0.8535 -5.0449 0.8878
38 1 3.9457 -6.8604 -1.2554
39 1 2.6258 -6.2388 -2.0536
40 1 2.3764 -6.3440 2.3178
41 1 0.7283 -6.6789 2.9129
42 1 3.2779 -6.4673 4.5891
43 1 1.6915 -6.8490 5.3002
44 1 2.5867 -9.0032 6.1410
45 1 4.1731 -8.6214 5.4300
46 1 2.8155 -6.9777 7.4653
47 1 4.0746 -8.0238 7.7584
48 1 0.3499 -8.6386 4.4930
49 1 1.6203 -9.8778 4.5984
50 1 -0.0694 -11.4852 3.7766
51 1 -0.9716 -12.5880 1.7743
52 1 -0.7810 -11.5019 -0.4276
53 1 0.3209 -9.3103 -0.6250
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
ZINC001342871979.mol2 53
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 03:43:25
Heat of formation + Delta-G solvation = -43.363394 kcal
Electronic energy + Delta-G solvation = -30792.043762 eV
Core-core repulsion = 26854.461177 eV
Total energy + Delta-G solvation = -3937.582585 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 345.216 amu
Computer time = 1.02 seconds
Orbital eigenvalues (eV)
-42.41422 -40.07662 -38.40167 -37.25751 -36.41111 -35.29754 -34.37941 -33.17746
-32.18804 -31.26655 -29.57095 -28.37036 -27.35093 -26.51533 -24.65734 -23.89403
-23.48559 -22.23930 -21.77596 -21.00665 -20.20182 -18.69083 -18.42563 -18.10755
-17.19313 -17.08859 -16.68698 -16.48210 -16.45597 -16.23994 -15.94524 -15.70075
-15.48770 -15.02639 -14.74332 -14.63878 -14.50799 -14.39920 -14.18580 -14.04538
-13.67198 -13.63112 -13.19161 -13.13157 -12.97107 -12.79352 -12.56930 -12.53386
-12.34344 -12.31268 -12.16076 -11.99941 -11.73236 -11.55386 -11.43331 -11.28300
-11.15802 -11.08488 -10.73686 -10.51589 -9.74590 -9.66308 -9.50598 -8.92341
-8.16359 -6.26577 0.24777 0.42912 1.39339 1.41890 1.42682 1.55956
1.65937 2.44092 2.82792 3.15575 3.17020 3.45335 3.47751 3.63016
3.67919 3.87482 3.91854 4.02240 4.06084 4.17802 4.24739 4.28478
4.36550 4.42716 4.47303 4.50713 4.53071 4.58805 4.62079 4.65227
4.74497 4.84036 4.87276 4.96076 5.04488 5.10166 5.13886 5.22600
5.24400 5.32915 5.33980 5.37310 5.46910 5.56550 5.61307 5.63040
5.83731 5.93521 5.96245 6.13512 6.19741 6.30668 6.31000 6.40030
6.64791 6.85199 6.91416 7.42614 8.95660
Molecular weight = 345.22amu
Principal moments of inertia in cm(-1)
A = 0.009601 B = 0.002753 C = 0.002316
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2915.607372 B =10167.268620 C =12086.306064
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.936 5.936
2 C -0.003 4.003
3 Si 0.962 3.038
4 H -0.261 1.261
5 H -0.281 1.281
6 H -0.277 1.277
7 C -0.536 4.536
8 H 0.061 0.939
9 C 0.022 3.978
10 C -0.081 4.081
11 C -0.095 4.095
12 C 0.091 3.909
13 H 0.124 0.876
14 N -0.814 5.814
15 C 0.481 3.519
16 O -0.550 6.550
17 N -0.545 5.545
18 C 0.092 3.908
19 C -0.088 4.088
20 H 0.076 0.924
21 C -0.106 4.106
22 C 0.064 3.936
23 N -0.866 5.866
24 C -0.069 4.069
25 C -0.121 4.121
26 C -0.102 4.102
27 C -0.142 4.142
28 C -0.116 4.116
29 C -0.188 4.188
30 C 0.129 3.871
31 H 0.262 0.738
32 H -0.017 1.017
33 H -0.008 1.008
34 H 0.058 0.942
35 H 0.058 0.942
36 H 0.047 0.953
37 H 0.068 0.932
38 H 0.350 0.650
39 H 0.348 0.652
40 H 0.107 0.893
41 H 0.083 0.917
42 H 0.070 0.930
43 H 0.073 0.927
44 H 0.041 0.959
45 H 0.066 0.934
46 H 0.346 0.654
47 H 0.349 0.651
48 H 0.087 0.913
49 H 0.100 0.900
50 H 0.153 0.847
51 H 0.146 0.854
52 H 0.133 0.867
53 H 0.150 0.850
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 3.981 -25.673 13.356 29.212
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 -0.576 5.576
2 C -0.200 4.200
3 Si 0.787 3.213
4 H -0.184 1.184
5 H -0.207 1.207
6 H -0.203 1.203
7 C -0.574 4.574
8 H 0.079 0.921
9 C -0.015 4.015
10 C -0.119 4.119
11 C -0.133 4.133
12 C -0.024 4.024
13 H 0.142 0.858
14 N -0.343 5.343
15 C 0.270 3.730
16 O -0.430 6.430
17 N -0.267 5.267
18 C -0.029 4.029
19 C -0.108 4.108
20 H 0.095 0.905
21 C -0.144 4.144
22 C -0.067 4.067
23 N -0.397 5.397
24 C -0.106 4.106
25 C -0.123 4.123
26 C -0.120 4.120
27 C -0.161 4.161
28 C -0.135 4.135
29 C -0.207 4.207
30 C 0.035 3.965
31 H 0.071 0.929
32 H 0.001 0.999
33 H 0.011 0.989
34 H 0.077 0.923
35 H 0.077 0.923
36 H 0.066 0.934
37 H 0.087 0.913
38 H 0.164 0.836
39 H 0.162 0.838
40 H 0.125 0.875
41 H 0.101 0.899
42 H 0.089 0.911
43 H 0.092 0.908
44 H 0.060 0.940
45 H 0.085 0.915
46 H 0.159 0.841
47 H 0.162 0.838
48 H 0.106 0.894
49 H 0.118 0.882
50 H 0.171 0.829
51 H 0.164 0.836
52 H 0.151 0.849
53 H 0.167 0.833
Dipole moment (debyes) X Y Z Total
from point charges 4.448 -24.631 12.528 27.990
hybrid contribution -1.217 -0.598 -0.174 1.367
sum 3.231 -25.229 12.354 28.277
Atomic orbital electron populations
1.70114 1.07806 1.27533 1.52191 1.25979 0.95733 1.03338 0.94959
0.85435 0.79227 0.78944 0.77676 1.18450 1.20701 1.20291 1.21748
0.93593 0.92350 1.49735 0.92093 1.19045 0.94532 0.93469 0.94432
1.21271 0.97497 0.91649 1.01490 1.21475 0.96694 0.93427 1.01705
1.21690 0.95412 0.88934 0.96388 0.85802 1.59056 1.17419 1.54865
1.02949 1.22841 0.79128 0.88919 0.82075 1.90404 1.55109 1.59517
1.37923 1.45897 1.55298 1.17373 1.08131 1.22352 1.02759 0.94346
0.83441 1.21254 0.98538 0.95859 0.95140 0.90521 1.21486 1.01234
0.98149 0.93545 1.21772 0.99202 0.94626 0.91073 1.58672 1.33985
1.36787 1.10227 1.20574 0.98254 0.98073 0.93655 1.19829 1.02673
0.96408 0.93396 1.21244 0.97172 0.93719 0.99888 1.21413 1.01200
1.01250 0.92216 1.21342 0.98498 0.94740 0.98913 1.22478 1.00168
0.97659 1.00427 1.18091 0.97060 0.86505 0.94876 0.92933 0.99879
0.98938 0.92304 0.92312 0.93419 0.91309 0.83610 0.83795 0.87474
0.89884 0.91102 0.90836 0.94044 0.91516 0.84080 0.83754 0.89437
0.88165 0.82941 0.83609 0.84947 0.83313
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 -0.94 -57.61 13.29 21.45 0.28 -57.33 16
2 C 0.00 -0.17 5.46 84.65 0.46 0.29 16
3 Si 0.96 44.65 29.54 68.60 2.03 46.68 16
4 H -0.26 -11.50 7.11 99.48 0.71 -10.79 16
5 H -0.28 -12.81 7.11 99.48 0.71 -12.10 16
6 H -0.28 -12.46 7.11 99.48 0.71 -11.75 16
7 C -0.54 -30.70 9.11 25.60 0.23 -30.47 16
8 H 0.06 3.35 7.74 -2.91 -0.02 3.33 16
9 C 0.02 1.18 4.97 29.85 0.15 1.33 16
10 C -0.08 -3.26 5.04 30.60 0.15 -3.10 16
11 C -0.09 -3.13 4.78 30.60 0.15 -2.98 16
12 C 0.09 2.42 2.32 44.17 0.10 2.52 16
13 H 0.12 2.78 6.28 -2.39 -0.01 2.76 16
14 N -0.81 -21.37 8.49 -171.80 -1.46 -22.83 16
15 C 0.48 13.57 6.82 87.66 0.60 14.17 16
16 O -0.55 -18.29 12.80 -3.06 -0.04 -18.33 16
17 N -0.55 -13.41 2.98 -630.08 -1.87 -15.29 16
18 C 0.09 1.73 5.01 86.30 0.43 2.16 16
19 C -0.09 -1.23 2.34 -10.83 -0.03 -1.25 16
20 H 0.08 1.17 8.14 -2.39 -0.02 1.15 16
21 C -0.11 -1.26 4.95 30.60 0.15 -1.11 16
22 C 0.06 0.66 6.54 86.31 0.56 1.23 16
23 N -0.87 -9.55 9.62 -186.73 -1.80 -11.34 16
24 C -0.07 -0.89 4.62 29.76 0.14 -0.76 16
25 C -0.12 -2.33 5.76 -19.76 -0.11 -2.45 16
26 C -0.10 -1.67 9.66 22.31 0.22 -1.45 16
27 C -0.14 -2.49 10.04 22.26 0.22 -2.27 16
28 C -0.12 -2.60 10.05 22.24 0.22 -2.38 16
29 C -0.19 -5.27 8.97 22.41 0.20 -5.07 16
30 C 0.13 3.29 6.32 38.08 0.24 3.53 16
31 H 0.26 15.12 8.31 -92.71 -0.77 14.35 16
32 H -0.02 -1.00 8.14 -2.39 -0.02 -1.02 16
33 H -0.01 -0.44 8.14 -2.39 -0.02 -0.46 16
34 H 0.06 2.20 8.14 -2.39 -0.02 2.18 16
35 H 0.06 2.42 7.75 -2.39 -0.02 2.40 16
36 H 0.05 1.74 8.14 -2.39 -0.02 1.72 16
37 H 0.07 2.18 7.63 -2.39 -0.02 2.16 16
38 H 0.35 7.79 9.06 -89.70 -0.81 6.97 16
39 H 0.35 9.72 8.56 -89.70 -0.77 8.95 16
40 H 0.11 1.89 5.53 -2.39 -0.01 1.87 16
41 H 0.08 1.56 8.14 -2.39 -0.02 1.54 16
42 H 0.07 1.02 8.14 -2.39 -0.02 1.00 16
43 H 0.07 0.82 8.12 -2.39 -0.02 0.80 16
44 H 0.04 0.33 6.76 -2.39 -0.02 0.31 16
45 H 0.07 0.76 8.14 -2.39 -0.02 0.74 16
46 H 0.35 3.18 8.99 -89.69 -0.81 2.38 16
47 H 0.35 2.81 9.08 -89.69 -0.81 2.00 16
48 H 0.09 1.02 8.11 -2.39 -0.02 1.01 16
49 H 0.10 0.91 6.97 -2.39 -0.02 0.89 16
50 H 0.15 1.50 8.06 -2.91 -0.02 1.47 16
51 H 0.15 1.70 8.06 -2.91 -0.02 1.68 16
52 H 0.13 2.50 8.06 -2.91 -0.02 2.47 16
53 H 0.15 4.92 4.72 -45.41 -0.21 4.70 16
Total: -1.00 -72.57 413.73 -1.21 -73.78
By element:
Atomic # 1 Polarization: 35.17 SS G_CDS: -2.45 Total: 32.72 kcal
Atomic # 6 Polarization: -32.15 SS G_CDS: 4.10 Total: -28.06 kcal
Atomic # 7 Polarization: -101.94 SS G_CDS: -4.85 Total: -106.79 kcal
Atomic # 8 Polarization: -18.29 SS G_CDS: -0.04 Total: -18.33 kcal
Atomic # 14 Polarization: 44.65 SS G_CDS: 2.03 Total: 46.68 kcal
Total: -72.57 -1.21 -73.78 kcal
The number of atoms in the molecule is 53
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.
ZINC001342871979.mol2 53
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 30.413 kcal
(2) G-P(sol) polarization free energy of solvation -72.565 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -42.152 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.211 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -73.777 kcal
(6) G-S(sol) free energy of system = (1) + (5) -43.363 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.02 seconds