Wall clock time and date at job start Wed Apr 1 2020 05:17:09
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 1.53001 * 1
3 3 H 1.09005 * 109.50727 * 2 1
4 4 C 1.53296 * 109.50651 * 120.09625 * 2 1 3
5 5 N 1.47144 * 108.38551 * 67.62848 * 4 2 1
6 6 S 1.65594 * 120.98246 * 230.50733 * 5 4 2
7 7 O 1.42104 * 106.40395 * 161.31422 * 6 5 4
8 8 O 1.42100 * 106.40449 * 28.39507 * 6 5 4
9 9 N 1.65607 * 107.21911 * 274.85215 * 6 5 4
10 10 C 1.47077 * 120.87952 * 85.21916 * 9 6 5
11 11 C 1.53238 * 108.51959 * 231.20714 * 10 9 6
12 12 N 1.46896 * 109.33858 * 306.16992 * 11 10 9
13 13 C 1.46903 * 110.99900 * 187.25724 * 12 11 10
14 14 C 1.50699 * 109.47251 * 170.00213 * 13 12 11
15 15 H 1.07997 * 119.99817 * 359.97438 * 14 13 12
16 16 C 1.37877 * 119.99891 * 179.97438 * 14 13 12
17 17 N 1.31518 * 120.00208 * 0.02562 * 16 14 13
18 18 Si 1.86806 * 119.99921 * 179.97438 * 16 14 13
19 19 H 1.48500 * 109.46836 * 60.00018 * 18 16 14
20 20 H 1.48499 * 109.47002 * 179.97438 * 18 16 14
21 21 H 1.48499 * 109.46878 * 299.99921 * 18 16 14
22 22 C 1.46892 * 111.27042 * 63.10528 * 12 11 10
23 23 C 1.47076 * 120.88093 * 265.23774 * 9 6 5
24 24 C 1.47152 * 118.03725 * 50.78160 * 5 4 2
25 25 C 1.53714 * 108.16143 * 309.16060 * 24 5 4
26 26 H 1.09007 * 109.69702 * 292.54447 * 25 24 5
27 27 C 1.52999 * 109.44447 * 172.37270 * 25 24 5
28 28 O 1.42956 * 109.14758 * 52.53671 * 25 24 5
29 29 H 1.08998 * 109.47725 * 306.04816 * 1 2 3
30 30 H 1.09004 * 109.46793 * 66.04620 * 1 2 3
31 31 H 1.09003 * 109.47069 * 186.03836 * 1 2 3
32 32 H 1.08994 * 109.68434 * 307.89899 * 4 2 1
33 33 H 1.09006 * 109.67353 * 187.34795 * 4 2 1
34 34 H 1.08999 * 109.62873 * 111.49434 * 10 9 6
35 35 H 1.09004 * 109.78929 * 351.01480 * 10 9 6
36 36 H 1.09008 * 109.49170 * 186.20965 * 11 10 9
37 37 H 1.08997 * 109.49643 * 66.13316 * 11 10 9
38 38 H 1.09003 * 109.46743 * 289.99888 * 13 12 11
39 39 H 1.08999 * 109.47482 * 49.99442 * 13 12 11
40 40 H 0.96994 * 120.00084 * 180.02562 * 17 16 14
41 41 H 1.09003 * 109.49243 * 56.85717 * 22 12 11
42 42 H 1.09003 * 109.49302 * 176.93324 * 22 12 11
43 43 H 1.08993 * 109.63318 * 248.50286 * 23 9 6
44 44 H 1.08999 * 109.62983 * 9.08602 * 23 9 6
45 45 H 1.09000 * 109.68474 * 68.93702 * 24 5 4
46 46 H 1.09002 * 109.68652 * 189.49054 * 24 5 4
47 47 H 1.08994 * 109.47379 * 300.39104 * 27 25 24
48 48 H 1.08999 * 109.47251 * 60.38866 * 27 25 24
49 49 H 1.09006 * 109.47344 * 180.38278 * 27 25 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 1 1.8940 1.0275 0.0000
4 6 2.0419 -0.7246 1.2502
5 7 1.6959 -2.1501 1.1347
6 16 0.9288 -2.9438 2.3691
7 8 0.3608 -4.1159 1.8008
8 8 0.1637 -1.9662 3.0606
9 7 2.0980 -3.4552 3.4246
10 6 2.6057 -2.5636 4.4784
11 6 4.1364 -2.5490 4.4077
12 7 4.6393 -3.9280 4.4651
13 6 6.1041 -3.9501 4.5733
14 6 6.5645 -5.3529 4.8753
15 1 5.8411 -6.1484 4.9771
16 6 7.9090 -5.6208 5.0216
17 7 8.7898 -4.6519 4.8981
18 14 8.4796 -7.3596 5.3967
19 1 8.0496 -8.2682 4.3036
20 1 9.9605 -7.3821 5.5047
21 1 7.8823 -7.8106 6.6792
22 6 4.1850 -4.7095 3.3072
23 6 2.6563 -4.8127 3.3328
24 6 2.0572 -2.8511 -0.1076
25 6 1.5397 -2.0216 -1.2937
26 1 0.4497 -2.0289 -1.2994
27 6 2.0616 -2.6214 -2.6009
28 8 2.0076 -0.6769 -1.1651
29 1 -0.3634 0.6047 0.8308
30 1 -0.3633 0.4173 -0.9392
31 1 -0.3633 -1.0220 0.1081
32 1 1.5703 -0.3030 2.1378
33 1 3.1240 -0.6140 1.3212
34 1 2.2877 -2.9315 5.4539
35 1 2.2224 -1.5549 4.3247
36 1 4.5340 -1.9814 5.2492
37 1 4.4530 -2.0849 3.4736
38 1 6.5430 -3.6184 3.6323
39 1 6.4193 -3.2835 5.3760
40 1 9.7357 -4.8404 5.0007
41 1 4.5010 -4.2154 2.3884
42 1 4.6179 -5.7089 3.3505
43 1 2.3432 -5.3968 4.1981
44 1 2.3063 -5.2915 2.4183
45 1 3.1408 -2.9511 -0.1710
46 1 1.5957 -3.8386 -0.1196
47 1 3.1515 -2.6155 -2.5938
48 1 1.7045 -3.6466 -2.6984
49 1 1.7005 -2.0294 -3.4420
RHF calculation, no. of doubly occupied orbitals= 64
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
ZINC000078518784.mol2 49
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 05:17:09
Heat of formation + Delta-G solvation = -128.057671 kcal
Electronic energy + Delta-G solvation = -31174.327749 eV
Core-core repulsion = 27069.538828 eV
Total energy + Delta-G solvation = -4104.788921 eV
No. of doubly occupied orbitals = 64
Molecular weight
(most abundant/longest-lived isotopes) = 347.171 amu
Computer time = 0.90 seconds
Orbital eigenvalues (eV)
-40.76464 -39.81194 -38.59664 -37.10275 -36.03677 -35.90280 -34.43571 -34.28117
-32.14192 -31.05437 -29.66647 -28.15889 -26.82423 -26.21385 -24.71070 -23.78596
-23.59320 -21.63282 -20.98077 -19.86536 -19.19358 -18.59698 -18.47617 -17.81227
-17.21709 -16.74829 -16.50989 -16.22942 -15.96364 -15.83344 -15.73375 -15.47690
-15.32161 -15.31465 -14.95455 -14.14000 -14.09078 -13.74664 -13.65321 -13.63055
-13.49185 -13.32979 -13.29559 -13.19238 -12.93719 -12.87619 -12.74032 -12.70384
-12.57927 -12.49930 -12.31887 -12.26955 -12.14565 -12.06091 -11.63861 -11.36881
-11.28240 -11.18003 -10.60035 -10.20411 -9.83420 -9.00400 -8.19334 -6.29013
-0.63783 1.43278 1.45546 1.53287 1.64139 2.28230 2.41449 2.73035
3.05520 3.13359 3.25323 3.53309 3.63541 3.68153 3.93310 4.03919
4.05791 4.10172 4.20849 4.21908 4.30515 4.31216 4.35312 4.36698
4.44582 4.60299 4.68604 4.71423 4.71933 4.80235 4.84166 4.90727
4.97768 4.99346 5.03996 5.05360 5.08681 5.20274 5.21642 5.25875
5.30730 5.34209 5.57850 5.66084 6.05841 6.21239 6.31787 6.62664
6.87036 7.40917 8.91366
Molecular weight = 347.17amu
Principal moments of inertia in cm(-1)
A = 0.015477 B = 0.003160 C = 0.002988
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1808.679934 B = 8859.086491 C = 9367.563932
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.183 4.183
2 C 0.078 3.922
3 H 0.135 0.865
4 C 0.084 3.916
5 N -1.005 6.005
6 S 2.796 3.204
7 O -0.995 6.995
8 O -0.989 6.989
9 N -1.005 6.005
10 C 0.135 3.865
11 C 0.042 3.958
12 N -0.541 5.541
13 C 0.211 3.789
14 C -0.523 4.523
15 H 0.065 0.935
16 C 0.003 3.997
17 N -0.934 5.934
18 Si 0.966 3.034
19 H -0.267 1.267
20 H -0.286 1.286
21 H -0.269 1.269
22 C 0.056 3.944
23 C 0.133 3.867
24 C 0.086 3.914
25 C 0.073 3.927
26 H 0.067 0.933
27 C -0.143 4.143
28 O -0.382 6.382
29 H 0.080 0.920
30 H 0.075 0.925
31 H 0.041 0.959
32 H 0.106 0.894
33 H 0.081 0.919
34 H 0.081 0.919
35 H 0.104 0.896
36 H 0.081 0.919
37 H 0.027 0.973
38 H -0.038 1.038
39 H 0.006 0.994
40 H 0.264 0.736
41 H 0.021 0.979
42 H 0.078 0.922
43 H 0.080 0.920
44 H 0.101 0.899
45 H 0.078 0.922
46 H 0.103 0.897
47 H 0.063 0.937
48 H 0.088 0.912
49 H 0.072 0.928
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -16.665 8.206 -11.980 22.104
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 -0.241 4.241
2 C 0.019 3.981
3 H 0.153 0.847
4 C -0.041 4.041
5 N -0.846 5.846
6 S 2.807 3.193
7 O -0.980 6.980
8 O -0.973 6.973
9 N -0.846 5.846
10 C 0.009 3.991
11 C -0.088 4.088
12 N -0.266 5.266
13 C 0.084 3.916
14 C -0.561 4.561
15 H 0.084 0.916
16 C -0.195 4.195
17 N -0.575 5.575
18 Si 0.791 3.209
19 H -0.191 1.191
20 H -0.212 1.212
21 H -0.195 1.195
22 C -0.074 4.074
23 C 0.007 3.993
24 C -0.040 4.040
25 C 0.014 3.986
26 H 0.085 0.915
27 C -0.200 4.200
28 O -0.301 6.301
29 H 0.099 0.901
30 H 0.093 0.907
31 H 0.060 0.940
32 H 0.124 0.876
33 H 0.099 0.901
34 H 0.099 0.901
35 H 0.123 0.877
36 H 0.099 0.901
37 H 0.046 0.954
38 H -0.021 1.021
39 H 0.024 0.976
40 H 0.072 0.928
41 H 0.039 0.961
42 H 0.097 0.903
43 H 0.099 0.901
44 H 0.119 0.881
45 H 0.096 0.904
46 H 0.121 0.879
47 H 0.082 0.918
48 H 0.107 0.893
49 H 0.091 0.909
Dipole moment (debyes) X Y Z Total
from point charges -17.521 7.963 -11.569 22.455
hybrid contribution 1.497 -0.410 -0.119 1.557
sum -16.024 7.553 -11.687 21.223
Atomic orbital electron populations
1.22399 0.95764 1.02031 1.03861 1.22641 0.94157 0.97160 0.84141
0.84731 1.22326 1.01943 0.79129 1.00690 1.58125 1.77257 1.19561
1.29678 1.01476 0.73305 0.72308 0.72191 1.93547 1.76374 1.49535
1.78506 1.93565 1.68002 1.62010 1.73748 1.58113 1.59060 1.21958
1.45437 1.21538 0.92545 0.93666 0.91323 1.22455 0.95408 0.90347
1.00547 1.61893 1.11974 1.11834 1.40851 1.19345 0.82413 0.96510
0.93287 1.21445 0.91998 0.94979 1.47714 0.91641 1.25870 0.96902
1.01488 0.95207 1.70071 1.02063 1.34111 1.51236 0.85481 0.76784
0.79486 0.79134 1.19141 1.21157 1.19452 1.22277 0.94763 0.99393
0.90939 1.21563 0.92254 0.81861 1.03583 1.22400 1.01829 0.96647
0.83105 1.22571 0.98517 0.82366 0.95155 0.91473 1.21768 1.02265
1.01462 0.94526 1.87997 1.72777 1.25643 1.43701 0.90125 0.90652
0.93976 0.87610 0.90097 0.90057 0.87747 0.90056 0.95444 1.02073
0.97600 0.92756 0.96064 0.90319 0.90134 0.88116 0.90396 0.87913
0.91774 0.89317 0.90914
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 17.
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 -0.18 -2.92 8.67 71.98 0.62 -2.30 16
2 C 0.08 1.28 3.93 30.69 0.12 1.40 16
3 H 0.14 1.62 8.14 -2.38 -0.02 1.60 16
4 C 0.08 1.54 6.07 86.36 0.52 2.07 16
5 N -1.01 -21.69 2.82 -510.87 -1.44 -23.13 16
6 S 2.80 72.80 6.15 -56.49 -0.35 72.45 16
7 O -1.00 -29.82 15.29 -128.00 -1.96 -31.78 16
8 O -0.99 -28.49 15.84 -128.00 -2.03 -30.52 16
9 N -1.01 -27.10 3.39 -512.18 -1.73 -28.84 16
10 C 0.13 3.53 6.51 86.35 0.56 4.09 16
11 C 0.04 1.36 5.62 86.38 0.49 1.85 16
12 N -0.54 -21.84 4.62 -899.82 -4.16 -26.00 16
13 C 0.21 10.75 4.72 85.56 0.40 11.15 16
14 C -0.52 -28.53 8.41 25.60 0.22 -28.32 16
15 H 0.07 3.47 7.13 -2.91 -0.02 3.45 16
16 C 0.00 0.19 5.46 84.65 0.46 0.65 16
17 N -0.93 -55.03 13.29 21.45 0.28 -54.74 16
18 Si 0.97 43.18 29.54 68.60 2.03 45.21 16
19 H -0.27 -11.39 7.11 99.48 0.71 -10.68 16
20 H -0.29 -12.60 7.11 99.48 0.71 -11.89 16
21 H -0.27 -11.70 7.11 99.48 0.71 -10.99 16
22 C 0.06 2.00 5.46 86.39 0.47 2.47 16
23 C 0.13 3.82 6.56 86.35 0.57 4.38 16
24 C 0.09 1.71 6.04 86.50 0.52 2.23 16
25 C 0.07 1.31 3.03 30.83 0.09 1.41 16
26 H 0.07 1.19 6.39 -2.38 -0.02 1.17 16
27 C -0.14 -2.01 9.57 71.98 0.69 -1.32 16
28 O -0.38 -7.53 10.22 -148.98 -1.52 -9.05 16
29 H 0.08 1.15 8.14 -2.39 -0.02 1.13 16
30 H 0.07 1.06 8.14 -2.38 -0.02 1.04 16
31 H 0.04 0.79 6.31 -2.39 -0.02 0.78 16
32 H 0.11 1.78 7.06 -2.39 -0.02 1.76 16
33 H 0.08 1.45 8.14 -2.38 -0.02 1.43 16
34 H 0.08 2.12 8.14 -2.39 -0.02 2.10 16
35 H 0.10 2.22 7.37 -2.38 -0.02 2.20 16
36 H 0.08 2.59 7.99 -2.38 -0.02 2.57 16
37 H 0.03 0.88 8.14 -2.39 -0.02 0.86 16
38 H -0.04 -2.14 8.12 -2.39 -0.02 -2.16 16
39 H 0.01 0.33 7.97 -2.39 -0.02 0.31 16
40 H 0.26 14.70 8.31 -92.71 -0.77 13.93 16
41 H 0.02 0.76 8.14 -2.39 -0.02 0.74 16
42 H 0.08 3.06 6.67 -2.39 -0.02 3.05 16
43 H 0.08 2.30 8.14 -2.39 -0.02 2.28 16
44 H 0.10 2.56 7.09 -2.39 -0.02 2.54 16
45 H 0.08 1.56 8.14 -2.39 -0.02 1.54 16
46 H 0.10 2.01 6.86 -2.39 -0.02 1.99 16
47 H 0.06 0.95 8.14 -2.39 -0.02 0.93 16
48 H 0.09 0.99 8.14 -2.39 -0.02 0.97 16
49 H 0.07 0.94 8.14 -2.38 -0.02 0.92 16
Total: -1.00 -68.86 387.47 -4.21 -73.07
By element:
Atomic # 1 Polarization: 12.64 SS G_CDS: 0.92 Total: 13.56 kcal
Atomic # 6 Polarization: -5.97 SS G_CDS: 5.74 Total: -0.23 kcal
Atomic # 7 Polarization: -125.67 SS G_CDS: -7.05 Total: -132.71 kcal
Atomic # 8 Polarization: -65.84 SS G_CDS: -5.51 Total: -71.35 kcal
Atomic # 14 Polarization: 43.18 SS G_CDS: 2.03 Total: 45.21 kcal
Atomic # 16 Polarization: 72.80 SS G_CDS: -0.35 Total: 72.45 kcal
Total: -68.86 -4.21 -73.07 kcal
The number of atoms in the molecule is 49
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.
ZINC000078518784.mol2 49
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 -54.988 kcal
(2) G-P(sol) polarization free energy of solvation -68.857 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -123.846 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -4.212 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -73.069 kcal
(6) G-S(sol) free energy of system = (1) + (5) -128.058 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.90 seconds