Wall clock time and date at job start Wed Apr 1 2020 02:48:26
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 1.31518 * 1
3 3 Si 1.86808 * 119.99904 * 2 1
4 4 H 1.48497 * 109.46918 * 180.02562 * 3 2 1
5 5 H 1.48507 * 109.47081 * 299.99957 * 3 2 1
6 6 H 1.48499 * 109.46892 * 60.00073 * 3 2 1
7 7 C 1.37874 * 120.00403 * 180.02562 * 2 1 3
8 8 H 1.07994 * 120.00238 * 179.97438 * 7 2 1
9 9 C 1.50703 * 119.99738 * 359.97438 * 7 2 1
10 10 O 1.42898 * 110.64370 * 298.31975 * 9 7 2
11 11 C 1.55160 * 110.71860 * 61.45728 * 9 7 2
12 12 C 1.54903 * 101.58296 * 153.86354 * 11 9 7
13 13 N 1.47429 * 104.83336 * 322.99013 * 12 11 9
14 14 S 1.65599 * 125.65121 * 204.09055 * 13 12 11
15 15 O 1.42105 * 104.27655 * 333.95302 * 14 13 12
16 16 O 1.42101 * 104.27764 * 206.09739 * 14 13 12
17 17 C 1.81395 * 104.44748 * 90.02608 * 14 13 12
18 18 C 1.52999 * 109.46986 * 180.02562 * 17 14 13
19 19 H 1.09002 * 110.24873 * 59.29539 * 18 17 14
20 20 C 1.55188 * 110.28234 * 181.30941 * 18 17 14
21 21 C 1.54120 * 100.71181 * 154.01431 * 20 18 17
22 22 C 1.52401 * 115.83376 * 96.46445 * 21 20 18
23 23 C 1.54037 * 86.64530 * 93.64238 * 22 21 20
24 24 C 1.52396 * 115.95407 * 198.23591 * 21 20 18
25 25 C 1.53077 * 103.84177 * 327.40070 * 21 20 18
26 26 O 1.43603 * 107.17247 * 19.90563 * 25 21 20
27 27 C 1.47022 * 108.69781 * 24.35678 * 13 12 11
28 28 H 0.96998 * 119.99906 * 0.02562 * 1 2 3
29 29 H 0.96693 * 114.00473 * 61.68318 * 10 9 7
30 30 H 1.09004 * 111.00455 * 35.78631 * 11 9 7
31 31 H 1.08998 * 111.04071 * 271.95463 * 11 9 7
32 32 H 1.09000 * 110.37146 * 204.15374 * 12 11 9
33 33 H 1.08998 * 110.36668 * 81.82950 * 12 11 9
34 34 H 1.09003 * 109.47393 * 299.99669 * 17 14 13
35 35 H 1.08994 * 109.47678 * 60.00285 * 17 14 13
36 36 H 1.08999 * 111.15760 * 271.96008 * 20 18 17
37 37 H 1.09008 * 111.15644 * 36.20403 * 20 18 17
38 38 H 1.09007 * 113.68195 * 208.07732 * 22 21 20
39 39 H 1.09002 * 113.68820 * 339.20319 * 22 21 20
40 40 H 1.09002 * 113.56873 * 269.77603 * 23 22 21
41 41 H 1.09001 * 113.57335 * 139.00925 * 23 22 21
42 42 H 1.09000 * 113.68654 * 20.90050 * 24 21 20
43 43 H 1.08995 * 113.68707 * 152.02876 * 24 21 20
44 44 H 1.08994 * 109.90100 * 260.52098 * 25 21 20
45 45 H 1.09005 * 109.90103 * 139.28765 * 25 21 20
46 46 H 1.09005 * 109.88113 * 118.13365 * 27 13 12
47 47 H 1.09009 * 109.88030 * 239.28945 * 27 13 12
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 2.2492 1.6178 0.0000
4 1 3.7092 1.3464 -0.0006
5 1 1.8904 2.3965 -1.2126
6 1 1.8904 2.3965 1.2125
7 6 2.0046 -1.1940 -0.0005
8 1 3.0846 -1.1939 -0.0010
9 6 1.2512 -2.4991 -0.0005
10 8 0.4503 -2.6185 1.1769
11 6 0.3757 -2.6275 -1.2751
12 6 0.2711 -4.1655 -1.4270
13 7 1.5925 -4.6758 -1.0183
14 16 2.2559 -6.1198 -1.4844
15 8 1.1347 -6.9425 -1.7766
16 8 3.1523 -6.4496 -0.4322
17 6 3.1710 -5.7287 -3.0010
18 6 3.8370 -6.9979 -3.5363
19 1 3.0851 -7.7582 -3.7476
20 6 4.6531 -6.6780 -4.8170
21 6 5.7061 -7.8025 -4.7740
22 6 5.3954 -9.0359 -5.6135
23 6 6.2214 -8.3718 -6.7313
24 6 6.9504 -7.5841 -5.6264
25 6 5.9341 -8.0337 -3.2781
26 8 4.7958 -7.4956 -2.5875
27 6 2.2210 -3.6933 -0.1232
28 1 -0.4850 0.8400 -0.0004
29 1 -0.2277 -1.9345 1.2625
30 1 0.8729 -2.1827 -2.1371
31 1 -0.6073 -2.1824 -1.1211
32 1 0.0660 -4.4313 -2.4640
33 1 -0.5066 -4.5594 -0.7726
34 1 2.4828 -5.3366 -3.7498
35 1 3.9343 -4.9820 -2.7826
36 1 4.0310 -6.7534 -5.7089
37 1 5.1231 -5.6968 -4.7492
38 1 5.8401 -9.9526 -5.2262
39 1 4.3384 -9.1455 -5.8563
40 1 5.6290 -7.7432 -7.3962
41 1 6.8662 -9.0672 -7.2687
42 1 7.1299 -6.5391 -5.8794
43 1 7.8379 -8.0873 -5.2428
44 1 6.8399 -7.5195 -2.9570
45 1 6.0196 -9.1016 -3.0764
46 1 2.3890 -4.1392 0.8572
47 1 3.1675 -3.3578 -0.5472
RHF calculation, no. of doubly occupied orbitals= 63
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
ZINC001364014481.mol2 47
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 02:48:26
Heat of formation + Delta-G solvation = -165.069882 kcal
Electronic energy + Delta-G solvation = -29595.685396 eV
Core-core repulsion = 25484.310233 eV
Total energy + Delta-G solvation = -4111.375163 eV
No. of doubly occupied orbitals = 63
Molecular weight
(most abundant/longest-lived isotopes) = 345.149 amu
Computer time = 0.86 seconds
Orbital eigenvalues (eV)
-41.63698 -39.75955 -38.22169 -38.15317 -37.02382 -36.06664 -34.15679 -33.49970
-30.81997 -30.42655 -30.00229 -27.71892 -26.70506 -26.66820 -23.41275 -23.27643
-22.48970 -21.59454 -20.02965 -19.54678 -19.16574 -18.60664 -18.03317 -17.41290
-16.99139 -16.87303 -16.71637 -16.18857 -16.07611 -15.93855 -15.78256 -14.98534
-14.84936 -14.58113 -14.21493 -13.99492 -13.93513 -13.73453 -13.52886 -13.33256
-13.20835 -13.17401 -13.14761 -13.11287 -12.97869 -12.79433 -12.78222 -12.61445
-12.22660 -12.16989 -12.06333 -11.91485 -11.74938 -11.29676 -11.18607 -11.15979
-11.12321 -10.66074 -10.59145 -10.08138 -9.86871 -8.19090 -6.33738 -0.82023
1.43415 1.48271 1.57497 1.64767 2.42164 2.55772 2.80684 3.03735
3.11130 3.20791 3.39165 3.59190 3.75775 3.78595 3.84218 3.90011
3.95130 4.07329 4.18408 4.21842 4.30666 4.45185 4.50188 4.54041
4.67446 4.73217 4.74193 4.75598 4.84872 4.86936 4.90470 4.95995
4.97749 5.11654 5.15336 5.23057 5.24584 5.32184 5.39519 5.49684
5.55520 5.60754 5.82769 5.85464 6.15167 6.71178 7.36625 7.46153
8.86999
Molecular weight = 345.15amu
Principal moments of inertia in cm(-1)
A = 0.016412 B = 0.002904 C = 0.002653
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1705.612718 B = 9638.905665 C =10550.110784
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.909 5.909
2 C 0.034 3.966
3 Si 0.960 3.040
4 H -0.271 1.271
5 H -0.276 1.276
6 H -0.285 1.285
7 C -0.556 4.556
8 H 0.060 0.940
9 C 0.230 3.770
10 O -0.598 6.598
11 C -0.122 4.122
12 C 0.121 3.879
13 N -1.014 6.014
14 S 2.624 3.376
15 O -0.987 6.987
16 O -0.982 6.982
17 C -0.609 4.609
18 C 0.077 3.923
19 H 0.092 0.908
20 C -0.111 4.111
21 C -0.123 4.123
22 C -0.131 4.131
23 C -0.133 4.133
24 C -0.121 4.121
25 C 0.054 3.946
26 O -0.408 6.408
27 C 0.140 3.860
28 H 0.269 0.731
29 H 0.377 0.623
30 H 0.069 0.931
31 H 0.071 0.929
32 H 0.095 0.905
33 H 0.050 0.950
34 H 0.179 0.821
35 H 0.153 0.847
36 H 0.111 0.889
37 H 0.094 0.906
38 H 0.090 0.910
39 H 0.073 0.927
40 H 0.087 0.913
41 H 0.077 0.923
42 H 0.076 0.924
43 H 0.092 0.908
44 H 0.079 0.921
45 H 0.078 0.922
46 H 0.043 0.957
47 H 0.081 0.919
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 10.254 -12.737 -17.129 23.680
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 -0.548 5.548
2 C -0.167 4.167
3 Si 0.786 3.214
4 H -0.195 1.195
5 H -0.202 1.202
6 H -0.211 1.211
7 C -0.595 4.595
8 H 0.078 0.922
9 C 0.189 3.811
10 O -0.406 6.406
11 C -0.161 4.161
12 C -0.004 4.004
13 N -0.852 5.852
14 S 2.723 3.277
15 O -0.978 6.978
16 O -0.973 6.973
17 C -0.742 4.742
18 C 0.018 3.982
19 H 0.109 0.891
20 C -0.150 4.150
21 C -0.123 4.123
22 C -0.168 4.168
23 C -0.170 4.170
24 C -0.158 4.158
25 C -0.022 4.022
26 O -0.329 6.329
27 C 0.015 3.985
28 H 0.079 0.921
29 H 0.227 0.773
30 H 0.088 0.912
31 H 0.089 0.911
32 H 0.114 0.886
33 H 0.069 0.931
34 H 0.196 0.804
35 H 0.172 0.828
36 H 0.129 0.871
37 H 0.113 0.887
38 H 0.109 0.891
39 H 0.092 0.908
40 H 0.105 0.895
41 H 0.096 0.904
42 H 0.095 0.905
43 H 0.110 0.890
44 H 0.097 0.903
45 H 0.097 0.903
46 H 0.061 0.939
47 H 0.099 0.901
Dipole moment (debyes) X Y Z Total
from point charges 10.375 -14.058 -16.336 23.919
hybrid contribution 0.005 1.898 -0.012 1.898
sum 10.380 -12.160 -16.348 22.866
Atomic orbital electron populations
1.69794 1.06724 1.28147 1.50118 1.25634 0.95806 1.02046 0.93255
0.85483 0.78964 0.79387 0.77568 1.19546 1.20185 1.21058 1.21803
0.93665 0.91448 1.52546 0.92216 1.19774 0.87659 0.90926 0.82738
1.86139 1.51921 1.56322 1.46253 1.23098 1.01237 0.92303 0.99494
1.22112 0.83097 0.95267 0.99899 1.58518 1.27967 1.37837 1.60856
1.04409 0.73967 0.71883 0.77432 1.93514 1.51289 1.65989 1.86958
1.93527 1.67513 1.82170 1.54098 1.30647 1.14925 1.07572 1.21036
1.22858 0.92787 0.92246 0.90305 0.89061 1.22980 0.96219 0.99167
0.96615 1.22587 0.98432 0.97670 0.93623 1.22896 1.01355 0.96196
0.96392 1.22884 0.98788 0.99342 0.96027 1.22734 0.95666 1.01695
0.95739 1.23249 0.88438 0.99290 0.91196 1.88621 1.31331 1.80009
1.32900 1.21640 0.96239 0.88468 0.92180 0.92118 0.77324 0.91205
0.91057 0.88641 0.93127 0.80353 0.82846 0.87060 0.88744 0.89144
0.90830 0.89454 0.90385 0.90519 0.88984 0.90307 0.90338 0.93883
0.90121
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 -0.91 -46.14 10.67 21.45 0.23 -45.91 16
2 C 0.03 1.69 5.28 84.65 0.45 2.14 16
3 Si 0.96 40.33 29.54 68.60 2.03 42.35 16
4 H -0.27 -11.25 7.11 99.48 0.71 -10.54 16
5 H -0.28 -11.24 7.11 99.48 0.71 -10.53 16
6 H -0.28 -12.01 7.11 99.48 0.71 -11.30 16
7 C -0.56 -28.49 8.22 25.60 0.21 -28.28 16
8 H 0.06 3.03 7.57 -2.91 -0.02 3.01 16
9 C 0.23 11.12 0.85 -10.35 -0.01 11.11 16
10 O -0.60 -31.26 13.07 -148.98 -1.95 -33.21 16
11 C -0.12 -5.17 5.47 31.99 0.17 -4.99 16
12 C 0.12 4.48 6.88 86.85 0.60 5.08 16
13 N -1.01 -38.64 3.62 -506.41 -1.83 -40.47 16
14 S 2.62 90.85 5.49 -56.49 -0.31 90.54 16
15 O -0.99 -37.74 17.61 -127.65 -2.25 -39.99 16
16 O -0.98 -41.75 17.08 -124.99 -2.14 -43.88 16
17 C -0.61 -13.80 5.92 71.98 0.43 -13.37 16
18 C 0.08 1.67 3.47 31.34 0.11 1.78 16
19 H 0.09 1.85 8.14 -2.39 -0.02 1.83 16
20 C -0.11 -1.61 5.78 31.72 0.18 -1.42 16
21 C -0.12 -1.69 0.94 -52.20 -0.05 -1.74 16
22 C -0.13 -1.45 7.32 30.75 0.23 -1.23 16
23 C -0.13 -1.15 7.96 31.27 0.25 -0.90 16
24 C -0.12 -1.23 7.41 30.75 0.23 -1.00 16
25 C 0.05 1.03 7.31 72.01 0.53 1.56 16
26 O -0.41 -11.12 10.33 -147.24 -1.52 -12.64 16
27 C 0.14 6.15 6.25 86.73 0.54 6.69 16
28 H 0.27 13.03 8.31 -92.71 -0.77 12.26 16
29 H 0.38 19.69 7.46 -74.06 -0.55 19.13 16
30 H 0.07 2.86 8.04 -2.39 -0.02 2.84 16
31 H 0.07 3.22 7.54 -2.39 -0.02 3.20 16
32 H 0.10 2.76 8.14 -2.39 -0.02 2.74 16
33 H 0.05 1.98 8.14 -2.39 -0.02 1.96 16
34 H 0.18 2.78 8.14 -2.39 -0.02 2.76 16
35 H 0.15 3.21 8.14 -2.39 -0.02 3.19 16
36 H 0.11 1.13 8.06 -2.39 -0.02 1.11 16
37 H 0.09 1.28 8.05 -2.38 -0.02 1.26 16
38 H 0.09 0.93 8.03 -2.38 -0.02 0.91 16
39 H 0.07 0.81 8.12 -2.39 -0.02 0.79 16
40 H 0.09 0.67 8.14 -2.39 -0.02 0.65 16
41 H 0.08 0.56 8.14 -2.39 -0.02 0.54 16
42 H 0.08 0.75 8.12 -2.39 -0.02 0.73 16
43 H 0.09 0.83 8.14 -2.39 -0.02 0.81 16
44 H 0.08 1.41 8.08 -2.39 -0.02 1.39 16
45 H 0.08 1.35 7.87 -2.38 -0.02 1.34 16
46 H 0.04 2.04 8.07 -2.38 -0.02 2.02 16
47 H 0.08 3.23 7.66 -2.38 -0.02 3.22 16
Total: -1.00 -69.01 383.90 -3.47 -72.47
By element:
Atomic # 1 Polarization: 34.91 SS G_CDS: 0.41 Total: 35.32 kcal
Atomic # 6 Polarization: -28.44 SS G_CDS: 3.86 Total: -24.58 kcal
Atomic # 7 Polarization: -84.78 SS G_CDS: -1.60 Total: -86.38 kcal
Atomic # 8 Polarization: -121.87 SS G_CDS: -7.85 Total: -129.72 kcal
Atomic # 14 Polarization: 40.33 SS G_CDS: 2.03 Total: 42.35 kcal
Atomic # 16 Polarization: 90.85 SS G_CDS: -0.31 Total: 90.54 kcal
Total: -69.01 -3.47 -72.47 kcal
The number of atoms in the molecule is 47
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.
ZINC001364014481.mol2 47
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 -92.598 kcal
(2) G-P(sol) polarization free energy of solvation -69.005 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -161.603 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.467 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.472 kcal
(6) G-S(sol) free energy of system = (1) + (5) -165.070 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.86 seconds