Wall clock time and date at job start Wed Apr 1 2020 04:39:27
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 C
2 2 C 1.53003 * 1
3 3 C 1.53002 * 109.47343 * 2 1
4 4 N 1.46496 * 109.46883 * 179.97438 * 3 2 1
5 5 C 1.36940 * 120.00445 * 272.76849 * 4 3 2
6 6 H 1.08004 * 119.99568 * 37.32211 * 5 4 3
7 7 C 1.38813 * 120.00067 * 217.33554 * 5 4 3
8 8 N 1.31613 * 120.00150 * 26.22248 * 7 5 4
9 9 Si 1.86794 * 119.99513 * 206.22942 * 7 5 4
10 10 H 1.48496 * 109.47518 * 59.99590 * 9 7 5
11 11 H 1.48505 * 109.46914 * 179.97438 * 9 7 5
12 12 H 1.48506 * 109.47508 * 299.99487 * 9 7 5
13 13 C 1.46500 * 119.99968 * 92.76649 * 4 3 2
14 14 C 1.53000 * 109.47286 * 269.99883 * 13 4 3
15 15 N 1.46500 * 109.47078 * 179.97438 * 14 13 4
16 16 C 1.34783 * 120.00109 * 179.97438 * 15 14 13
17 17 O 1.21536 * 119.99360 * 0.02562 * 16 15 14
18 18 C 1.47945 * 120.00139 * 180.02562 * 16 15 14
19 19 C 1.39226 * 120.19756 * 6.11696 * 18 16 15
20 20 C 1.38214 * 119.99238 * 180.32156 * 19 18 16
21 21 C 1.38372 * 120.39522 * 359.67738 * 20 19 18
22 22 C 1.38204 * 120.40419 * 0.02562 * 21 20 19
23 23 C 1.39218 * 119.99336 * 0.02562 * 22 21 20
24 24 C 1.47947 * 120.19671 * 180.02562 * 23 22 21
25 25 O 1.21539 * 120.00304 * 235.75141 * 24 23 22
26 26 N 1.34782 * 120.00160 * 55.74809 * 24 23 22
27 27 C 1.46494 * 120.00050 * 184.91015 * 26 24 23
28 28 C 1.46498 * 119.99854 * 4.91161 * 26 24 23
29 29 H 1.08998 * 109.47285 * 300.00381 * 1 2 3
30 30 H 1.09003 * 109.46595 * 59.99716 * 1 2 3
31 31 H 1.09000 * 109.47665 * 179.97438 * 1 2 3
32 32 H 1.09005 * 109.46657 * 239.99832 * 2 1 3
33 33 H 1.09003 * 109.46595 * 120.00284 * 2 1 3
34 34 H 1.09002 * 109.46680 * 60.00066 * 3 2 1
35 35 H 1.09000 * 109.46796 * 299.99916 * 3 2 1
36 36 H 0.96997 * 119.99929 * 180.02562 * 8 7 5
37 37 H 1.09008 * 109.47142 * 149.99793 * 13 4 3
38 38 H 1.09005 * 109.47123 * 30.00179 * 13 4 3
39 39 H 1.09001 * 109.47197 * 60.00284 * 14 13 4
40 40 H 1.08993 * 109.47199 * 299.99809 * 14 13 4
41 41 H 0.97005 * 120.00032 * 0.02562 * 15 14 13
42 42 H 1.07995 * 120.00271 * 0.02562 * 19 18 16
43 43 H 1.07999 * 119.79779 * 179.70162 * 20 19 18
44 44 H 1.07998 * 119.79211 * 180.02562 * 21 20 19
45 45 H 1.07995 * 120.00560 * 180.02562 * 22 21 20
46 46 H 1.09000 * 109.47429 * 269.99962 * 27 26 24
47 47 H 1.09004 * 109.47344 * 150.00104 * 27 26 24
48 48 H 1.09001 * 109.47206 * 30.00336 * 27 26 24
49 49 H 1.09003 * 109.47503 * 269.07250 * 28 26 24
50 50 H 1.09006 * 109.47107 * 29.07160 * 28 26 24
51 51 H 1.08997 * 109.47383 * 149.06903 * 28 26 24
Note: An asterisk (*) indicates this parameter was or will be optimized.
Cartesian coordinates (angstroms)
NO. Atom X Y Z
1 6 0.0000 0.0000 0.0000
2 6 1.5300 0.0000 0.0000
3 6 2.0401 1.4425 0.0000
4 7 3.5051 1.4424 0.0006
5 6 4.1893 1.3852 1.1854
6 1 3.8148 0.7784 1.9965
7 6 5.3641 2.1074 1.3440
8 7 5.5662 3.1989 0.6368
9 14 6.6583 1.5300 2.5609
10 1 7.1211 0.1704 2.1836
11 1 7.8098 2.4676 2.5410
12 1 6.0732 1.4928 3.9254
13 6 4.2381 1.5034 -1.2663
14 6 4.4932 0.0838 -1.7768
15 7 5.2257 0.1448 -3.0441
16 6 5.5633 -0.9930 -3.6829
17 8 5.2595 -2.0696 -3.2077
18 6 6.3035 -0.9313 -4.9624
19 6 6.7645 0.2899 -5.4465
20 6 7.4498 0.3435 -6.6456
21 6 7.6879 -0.8124 -7.3682
22 6 7.2430 -2.0342 -6.8998
23 6 6.5501 -2.1071 -5.6945
24 6 6.0723 -3.4127 -5.1887
25 8 4.8952 -3.5705 -4.9305
26 7 6.9423 -4.4272 -5.0142
27 6 6.4547 -5.7501 -4.6167
28 6 8.3756 -4.2068 -5.2220
29 1 -0.3634 0.5139 0.8899
30 1 -0.3632 0.5139 -0.8900
31 1 -0.3634 -1.0276 -0.0005
32 1 1.8933 -0.5139 -0.8900
33 1 1.8933 -0.5139 0.8900
34 1 1.6767 1.9563 0.8900
35 1 1.6768 1.9563 -0.8900
36 1 6.3873 3.7033 0.7473
37 1 5.1905 2.0103 -1.1110
38 1 3.6493 2.0533 -2.0006
39 1 3.5409 -0.4231 -1.9322
40 1 5.0820 -0.4660 -1.0426
41 1 5.4685 1.0042 -3.4231
42 1 6.5825 1.1958 -4.8876
43 1 7.8018 1.2931 -7.0207
44 1 8.2248 -0.7593 -8.3038
45 1 7.4328 -2.9323 -7.4688
46 1 6.4373 -5.8194 -3.5291
47 1 7.1163 -6.5173 -5.0191
48 1 5.4475 -5.8983 -5.0063
49 1 8.6306 -4.4270 -6.2587
50 1 8.6193 -3.1676 -5.0008
51 1 8.9435 -4.8617 -4.5612
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
ZINC001663692585.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 04:39:27
Heat of formation + Delta-G solvation = -39.584383 kcal
Electronic energy + Delta-G solvation = -31179.226344 eV
Core-core repulsion = 27078.663057 eV
Total energy + Delta-G solvation = -4100.563288 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 347.200 amu
Computer time = 1.24 seconds
Orbital eigenvalues (eV)
-41.79590 -40.27362 -39.08960 -38.24860 -36.53423 -35.83393 -34.65130 -32.96997
-32.47098 -32.21255 -29.70699 -28.93067 -27.38401 -27.32157 -25.66981 -24.41231
-24.01639 -22.71483 -21.99748 -21.54953 -20.71945 -19.13347 -18.56134 -17.99902
-17.47408 -17.13758 -16.99023 -16.64764 -16.42809 -16.08631 -15.94009 -15.72678
-15.68576 -15.38349 -14.80822 -14.57099 -14.47369 -14.45960 -14.24446 -14.07664
-13.57715 -13.46931 -13.41977 -13.32967 -13.10837 -13.00062 -12.95869 -12.89862
-12.66734 -12.56978 -12.38921 -12.26518 -12.08248 -11.91645 -11.73426 -11.38576
-11.12321 -10.82918 -10.53396 -10.22214 -10.01120 -9.93390 -9.67432 -8.65127
-7.92094 -5.49542 -0.33861 0.12856 1.40706 1.44512 1.51462 1.66447
1.84973 2.03762 2.13668 2.47626 2.79997 3.14913 3.44310 3.56490
3.76783 3.78134 4.07788 4.15385 4.22026 4.27163 4.31335 4.31689
4.33958 4.38442 4.43038 4.46316 4.62272 4.64394 4.69451 4.70856
4.81029 4.82597 4.84734 4.88058 4.94924 5.08933 5.16570 5.18085
5.21847 5.26780 5.33168 5.37943 5.38540 5.52517 5.57839 5.58967
5.67181 5.81407 6.29239 6.39881 6.52020 7.09142 7.13126 7.24730
7.77829 8.32161 9.04924
Molecular weight = 347.20amu
Principal moments of inertia in cm(-1)
A = 0.009903 B = 0.003041 C = 0.002855
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2826.672492 B = 9204.731479 C = 9805.819826
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.138 4.138
2 C -0.136 4.136
3 C 0.147 3.853
4 N -0.596 5.596
5 C -0.281 4.281
6 H 0.049 0.951
7 C -0.018 4.018
8 N -0.902 5.902
9 Si 0.945 3.055
10 H -0.290 1.290
11 H -0.283 1.283
12 H -0.274 1.274
13 C 0.153 3.847
14 C 0.123 3.877
15 N -0.708 5.708
16 C 0.531 3.469
17 O -0.563 6.563
18 C -0.120 4.120
19 C -0.091 4.091
20 C -0.098 4.098
21 C -0.082 4.082
22 C -0.091 4.091
23 C -0.095 4.095
24 C 0.551 3.449
25 O -0.560 6.560
26 N -0.623 5.623
27 C 0.089 3.911
28 C 0.075 3.925
29 H 0.059 0.941
30 H 0.060 0.940
31 H 0.056 0.944
32 H 0.039 0.961
33 H 0.037 0.963
34 H 0.040 0.960
35 H 0.048 0.952
36 H 0.256 0.744
37 H 0.070 0.930
38 H 0.047 0.953
39 H 0.042 0.958
40 H 0.027 0.973
41 H 0.410 0.590
42 H 0.145 0.855
43 H 0.172 0.828
44 H 0.178 0.822
45 H 0.157 0.843
46 H 0.038 0.962
47 H 0.111 0.889
48 H 0.055 0.945
49 H 0.090 0.910
50 H 0.063 0.937
51 H 0.087 0.913
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 8.967 -8.247 -21.132 24.392
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 C -0.196 4.196
2 C -0.176 4.176
3 C 0.021 3.979
4 N -0.316 5.316
5 C -0.411 4.411
6 H 0.066 0.934
7 C -0.218 4.218
8 N -0.544 5.544
9 Si 0.772 3.228
10 H -0.217 1.217
11 H -0.208 1.208
12 H -0.199 1.199
13 C 0.025 3.975
14 C -0.003 4.003
15 N -0.361 5.361
16 C 0.318 3.682
17 O -0.442 6.442
18 C -0.124 4.124
19 C -0.110 4.110
20 C -0.115 4.115
21 C -0.100 4.100
22 C -0.110 4.110
23 C -0.100 4.100
24 C 0.339 3.661
25 O -0.437 6.437
26 N -0.357 5.357
27 C -0.053 4.053
28 C -0.066 4.066
29 H 0.078 0.922
30 H 0.079 0.921
31 H 0.075 0.925
32 H 0.058 0.942
33 H 0.056 0.944
34 H 0.059 0.941
35 H 0.066 0.934
36 H 0.065 0.935
37 H 0.088 0.912
38 H 0.065 0.935
39 H 0.060 0.940
40 H 0.046 0.954
41 H 0.247 0.753
42 H 0.163 0.837
43 H 0.189 0.811
44 H 0.196 0.804
45 H 0.175 0.825
46 H 0.057 0.943
47 H 0.130 0.870
48 H 0.074 0.926
49 H 0.108 0.892
50 H 0.082 0.918
51 H 0.105 0.895
Dipole moment (debyes) X Y Z Total
from point charges 8.230 -8.942 -20.584 23.904
hybrid contribution 0.449 -0.090 1.273 1.353
sum 8.679 -9.032 -19.311 23.017
Atomic orbital electron populations
1.21648 0.94098 1.01721 1.02134 1.22042 0.96606 0.98988 0.99968
1.21039 0.83358 0.94251 0.99212 1.43815 1.00868 1.85363 1.01565
1.19069 1.06539 1.22076 0.93447 0.93378 1.25650 1.02042 0.94279
0.99799 1.70166 1.25999 1.13581 1.44687 0.85719 0.79622 0.77488
0.79935 1.21737 1.20846 1.19900 1.20829 0.98807 0.91265 0.86560
1.21933 0.94030 1.01217 0.83162 1.45826 1.57722 1.08768 1.23756
1.19035 0.79653 0.84020 0.85453 1.90840 1.55597 1.29697 1.68083
1.19910 1.02328 0.95258 0.94861 1.21600 0.96482 0.95474 0.97415
1.21761 0.96013 1.01027 0.92714 1.21810 0.96905 0.90618 1.00627
1.21513 0.95485 1.00897 0.93062 1.19919 1.00654 0.91587 0.97792
1.18708 0.85599 0.84721 0.77046 1.90762 1.19486 1.82930 1.50553
1.47755 1.08653 1.10435 1.68871 1.21666 1.00941 0.83115 0.99623
1.22077 0.78067 1.02878 1.03610 0.92229 0.92082 0.92475 0.94213
0.94369 0.94145 0.93372 0.93469 0.91188 0.93470 0.94013 0.95442
0.75278 0.83734 0.81075 0.80440 0.82537 0.94278 0.87041 0.92595
0.89165 0.91834 0.89460
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 C -0.14 -4.22 9.91 71.98 0.71 -3.50 16
2 C -0.14 -5.37 6.25 30.60 0.19 -5.18 16
3 C 0.15 6.39 5.71 86.38 0.49 6.88 16
4 N -0.60 -30.22 2.43 -701.98 -1.70 -31.93 16
5 C -0.28 -15.77 9.42 84.03 0.79 -14.98 16
6 H 0.05 2.76 7.95 -2.91 -0.02 2.74 16
7 C -0.02 -1.02 4.82 84.86 0.41 -0.61 16
8 N -0.90 -50.92 11.78 21.65 0.26 -50.67 16
9 Si 0.94 44.98 29.63 68.60 2.03 47.02 16
10 H -0.29 -14.16 7.11 99.48 0.71 -13.45 16
11 H -0.28 -13.07 7.11 99.48 0.71 -12.36 16
12 H -0.27 -12.68 7.11 99.48 0.71 -11.98 16
13 C 0.15 7.10 5.47 86.38 0.47 7.57 16
14 C 0.12 5.56 6.00 86.38 0.52 6.08 16
15 N -0.71 -26.67 5.51 -465.88 -2.57 -29.23 16
16 C 0.53 21.27 7.68 86.81 0.67 21.94 16
17 O -0.56 -28.02 12.99 19.09 0.25 -27.77 16
18 C -0.12 -3.57 5.90 -19.87 -0.12 -3.69 16
19 C -0.09 -1.84 9.52 22.50 0.21 -1.62 16
20 C -0.10 -1.17 10.03 22.30 0.22 -0.95 16
21 C -0.08 -0.82 10.03 22.29 0.22 -0.59 16
22 C -0.09 -1.44 8.28 22.50 0.19 -1.26 16
23 C -0.10 -2.60 4.46 -19.87 -0.09 -2.69 16
24 C 0.55 18.69 5.76 86.82 0.50 19.19 16
25 O -0.56 -25.16 14.39 19.09 0.27 -24.88 16
26 N -0.62 -15.82 3.27 -875.24 -2.87 -18.69 16
27 C 0.09 2.00 10.40 127.77 1.33 3.33 16
28 C 0.08 1.13 9.28 127.77 1.19 2.32 16
29 H 0.06 1.70 8.14 -2.39 -0.02 1.68 16
30 H 0.06 1.70 8.14 -2.39 -0.02 1.68 16
31 H 0.06 1.60 8.14 -2.39 -0.02 1.58 16
32 H 0.04 1.66 6.45 -2.38 -0.02 1.64 16
33 H 0.04 1.62 8.14 -2.39 -0.02 1.60 16
34 H 0.04 1.80 8.06 -2.39 -0.02 1.78 16
35 H 0.05 1.93 7.86 -2.39 -0.02 1.91 16
36 H 0.26 13.86 8.31 -92.71 -0.77 13.08 16
37 H 0.07 3.58 5.70 -2.38 -0.01 3.57 16
38 H 0.05 2.00 7.87 -2.38 -0.02 1.98 16
39 H 0.04 1.99 6.45 -2.39 -0.02 1.97 16
40 H 0.03 1.42 8.14 -2.39 -0.02 1.41 16
41 H 0.41 12.46 6.55 -92.70 -0.61 11.85 16
42 H 0.15 2.52 6.45 -2.91 -0.02 2.50 16
43 H 0.17 0.84 8.06 -2.91 -0.02 0.82 16
44 H 0.18 0.28 8.06 -2.91 -0.02 0.25 16
45 H 0.16 1.62 7.52 -2.91 -0.02 1.60 16
46 H 0.04 0.99 8.14 -2.39 -0.02 0.97 16
47 H 0.11 1.45 8.07 -2.38 -0.02 1.43 16
48 H 0.06 1.46 7.49 -2.39 -0.02 1.45 16
49 H 0.09 0.74 7.75 -2.39 -0.02 0.72 16
50 H 0.06 1.08 6.68 -2.38 -0.02 1.06 16
51 H 0.09 1.03 8.08 -2.39 -0.02 1.01 16
Total: -1.00 -85.33 412.47 3.91 -81.42
By element:
Atomic # 1 Polarization: 22.17 SS G_CDS: 0.32 Total: 22.50 kcal
Atomic # 6 Polarization: 24.32 SS G_CDS: 7.91 Total: 32.23 kcal
Atomic # 7 Polarization: -123.63 SS G_CDS: -6.88 Total: -130.51 kcal
Atomic # 8 Polarization: -53.17 SS G_CDS: 0.52 Total: -52.65 kcal
Atomic # 14 Polarization: 44.98 SS G_CDS: 2.03 Total: 47.02 kcal
Total: -85.33 3.91 -81.42 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.
ZINC001663692585.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 41.837 kcal
(2) G-P(sol) polarization free energy of solvation -85.333 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -43.496 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.912 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -81.421 kcal
(6) G-S(sol) free energy of system = (1) + (5) -39.584 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.24 seconds