Wall clock time and date at job start Tue Mar 31 2020 14:42:17
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 1.52992 * 1
3 3 H 1.09006 * 109.47219 * 2 1
4 4 S 1.81399 * 109.47022 * 119.99857 * 2 1 3
5 5 C 1.76202 * 103.00265 * 292.59329 * 4 2 1
6 6 C 1.38968 * 120.08106 * 274.93929 * 5 4 2
7 7 C 1.38085 * 119.91827 * 179.76493 * 6 5 4
8 8 C 1.38304 * 120.07766 * 0.48366 * 7 6 5
9 9 N 1.48004 * 119.91737 * 179.74460 * 8 7 6
10 10 O 1.21802 * 120.00086 * 180.02562 * 9 8 7
11 11 O 1.21799 * 120.00146 * 0.02562 * 9 8 7
12 12 C 1.38300 * 120.15970 * 359.77234 * 8 7 6
13 13 C 1.38075 * 120.08596 * 359.97438 * 12 8 7
14 14 C 1.50693 * 109.47102 * 240.00213 * 2 1 3
15 15 O 1.20831 * 119.99784 * 264.99543 * 14 2 1
16 16 O 1.34228 * 120.00209 * 85.00025 * 14 2 1
17 17 C 1.45205 * 117.00211 * 179.97438 * 16 14 2
18 18 H 1.09004 * 109.46852 * 329.99945 * 17 16 14
19 19 C 1.52992 * 109.46843 * 89.99830 * 17 16 14
20 20 C 1.50700 * 109.47162 * 210.00229 * 17 16 14
21 21 H 1.07996 * 120.00164 * 359.97438 * 20 17 16
22 22 C 1.37879 * 119.99549 * 180.02562 * 20 17 16
23 23 N 1.31508 * 120.00486 * 359.97438 * 22 20 17
24 24 Si 1.86805 * 119.99476 * 179.97438 * 22 20 17
25 25 H 1.48492 * 109.47302 * 359.97438 * 24 22 20
26 26 H 1.48494 * 109.47014 * 120.00253 * 24 22 20
27 27 H 1.48505 * 109.46925 * 239.99688 * 24 22 20
28 28 H 1.09005 * 109.47225 * 185.93414 * 1 2 3
29 29 H 1.09003 * 109.47616 * 305.93322 * 1 2 3
30 30 H 1.09004 * 109.47564 * 65.93506 * 1 2 3
31 31 H 1.08005 * 120.04356 * 359.97438 * 6 5 4
32 32 H 1.08003 * 119.95892 * 180.23571 * 7 6 5
33 33 H 1.08006 * 119.95566 * 179.97438 * 12 8 7
34 34 H 1.07993 * 120.04502 * 179.97438 * 13 12 8
35 35 H 1.09002 * 109.47438 * 180.02562 * 19 17 16
36 36 H 1.09003 * 109.47413 * 300.00231 * 19 17 16
37 37 H 1.09004 * 109.47302 * 60.00391 * 19 17 16
38 38 H 0.96994 * 120.00399 * 180.02562 * 23 22 20
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 1.5299 0.0000 0.0000
3 1 1.8933 1.0277 0.0000
4 16 2.1346 -0.8551 1.4811
5 6 1.6448 0.2209 2.7878
6 6 2.4520 1.2938 3.1461
7 6 2.0626 2.1377 4.1673
8 6 0.8758 1.9103 4.8399
9 7 0.4646 2.8138 5.9377
10 8 -0.5801 2.6146 6.5314
11 8 1.1709 3.7565 6.2475
12 6 0.0725 0.8404 4.4895
13 6 0.4529 -0.0047 3.4659
14 6 2.0322 -0.7103 -1.2304
15 8 2.3197 -1.8827 -1.1761
16 8 2.1604 -0.0407 -2.3867
17 6 2.6506 -0.7886 -3.5308
18 1 3.3134 -1.5833 -3.1884
19 6 1.4681 -1.4001 -4.2847
20 6 3.4076 0.1364 -4.4486
21 1 3.5097 1.1818 -4.1975
22 6 3.9688 -0.3519 -5.6095
23 7 3.8440 -1.6247 -5.9156
24 14 4.9066 0.7949 -6.7476
25 1 4.9022 2.1674 -6.1808
26 1 6.3068 0.3199 -6.8849
27 1 4.2556 0.8089 -8.0823
28 1 -0.3634 -1.0222 0.1062
29 1 -0.3634 0.6031 0.8321
30 1 -0.3634 0.4191 -0.9384
31 1 3.3812 1.4695 2.6242
32 1 2.6876 2.9740 4.4438
33 1 -0.8535 0.6656 5.0173
34 1 -0.1746 -0.8402 3.1932
35 1 1.8360 -1.9619 -5.1434
36 1 0.9206 -2.0691 -3.6208
37 1 0.8053 -0.6054 -4.6271
38 1 4.2392 -1.9683 -6.7320
RHF calculation, no. of doubly occupied orbitals= 57
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
ZINC000113688070.mol2 38
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Tue Mar 31 2020 14:42:17
Heat of formation + Delta-G solvation = -78.931120 kcal
Electronic energy + Delta-G solvation = -23955.867106 eV
Core-core repulsion = 20085.699255 eV
Total energy + Delta-G solvation = -3870.167851 eV
No. of doubly occupied orbitals = 57
Molecular weight
(most abundant/longest-lived isotopes) = 325.086 amu
Computer time = 0.49 seconds
Orbital eigenvalues (eV)
-43.32923 -41.44516 -40.38761 -37.76658 -37.75692 -35.43133 -34.47992 -33.13558
-32.59870 -31.62182 -27.81441 -27.48761 -26.31797 -24.28789 -23.78784 -23.49361
-21.54337 -20.50901 -19.80723 -19.41099 -18.73938 -18.67848 -18.54573 -17.32120
-17.00176 -16.61628 -16.44606 -16.11508 -15.95536 -15.01063 -14.95836 -14.77863
-14.61804 -14.19782 -14.13636 -13.61493 -13.33650 -13.11673 -13.01046 -12.90397
-12.83840 -12.79800 -12.67064 -12.42450 -12.36917 -12.35659 -12.16407 -11.74025
-11.65253 -11.42987 -11.03124 -10.63208 -10.51566 -10.49448 -9.07272 -8.31434
-6.48380 -1.53961 -0.22144 -0.15184 0.18295 0.34026 1.07125 1.27320
1.41751 1.42007 1.55604 1.88422 2.11218 2.37967 2.99784 3.25361
3.38607 3.60956 3.67210 3.73629 3.74972 3.88812 4.19695 4.38991
4.46999 4.54541 4.57875 4.60434 4.61710 4.75134 4.79471 4.87460
5.01283 5.02397 5.10254 5.28521 5.45647 5.58870 5.86455 6.01043
6.38376 6.54843 6.81768 7.23133 8.76345
Molecular weight = 325.09amu
Principal moments of inertia in cm(-1)
A = 0.024664 B = 0.002358 C = 0.002250
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1134.983102 B =11869.209165 C =12439.250700
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.139 4.139
2 C -0.072 4.072
3 H 0.138 0.862
4 S -0.088 6.088
5 C -0.082 4.082
6 C -0.068 4.068
7 C -0.058 4.058
8 C -0.036 4.036
9 N 0.027 4.973
10 O -0.167 6.167
11 O -0.177 6.177
12 C -0.055 4.055
13 C -0.058 4.058
14 C 0.468 3.532
15 O -0.534 6.534
16 O -0.354 6.354
17 C 0.219 3.781
18 H 0.009 0.991
19 C -0.143 4.143
20 C -0.547 4.547
21 H 0.069 0.931
22 C 0.017 3.983
23 N -0.916 5.916
24 Si 0.982 3.018
25 H -0.262 1.262
26 H -0.277 1.277
27 H -0.272 1.272
28 H 0.077 0.923
29 H 0.101 0.899
30 H 0.077 0.923
31 H 0.170 0.830
32 H 0.171 0.829
33 H 0.177 0.823
34 H 0.179 0.821
35 H 0.081 0.919
36 H 0.026 0.974
37 H 0.048 0.952
38 H 0.271 0.729
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -7.601 6.170 19.148 21.505
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 -0.197 4.197
2 C -0.201 4.201
3 H 0.156 0.844
4 S 0.146 5.854
5 C -0.194 4.194
6 C -0.089 4.089
7 C -0.079 4.079
8 C -0.119 4.119
9 N 0.543 4.457
10 O -0.383 6.383
11 O -0.390 6.390
12 C -0.076 4.076
13 C -0.079 4.079
14 C 0.310 3.690
15 O -0.424 6.424
16 O -0.271 6.271
17 C 0.166 3.834
18 H 0.027 0.973
19 C -0.201 4.201
20 C -0.585 4.585
21 H 0.087 0.913
22 C -0.183 4.183
23 N -0.554 5.554
24 Si 0.805 3.195
25 H -0.186 1.186
26 H -0.202 1.202
27 H -0.197 1.197
28 H 0.096 0.904
29 H 0.119 0.881
30 H 0.096 0.904
31 H 0.188 0.812
32 H 0.189 0.811
33 H 0.194 0.806
34 H 0.197 0.803
35 H 0.099 0.901
36 H 0.045 0.955
37 H 0.067 0.933
38 H 0.081 0.919
Dipole moment (debyes) X Y Z Total
from point charges -6.679 4.252 18.454 20.081
hybrid contribution -0.040 1.407 -0.497 1.493
sum -6.719 5.659 17.958 19.991
Atomic orbital electron populations
1.22073 0.87716 1.04853 1.05068 1.23231 1.02929 1.03623 0.90284
0.84379 1.86572 1.75919 1.28239 0.94645 1.22456 0.97916 0.98846
1.00206 1.21943 1.00251 0.91587 0.95120 1.21284 0.93388 1.00142
0.93064 1.21523 1.00377 0.96002 0.93963 1.43937 0.99779 1.00719
1.01242 1.94538 1.12403 1.78076 1.53323 1.94553 1.51971 1.21889
1.70615 1.21342 1.00021 0.90484 0.95772 1.21940 0.94514 0.98813
0.92644 1.23211 0.74328 0.85770 0.85680 1.90640 1.47325 1.18550
1.85915 1.86468 1.75981 1.45263 1.19349 1.20417 0.92489 0.91223
0.79306 0.97307 1.21992 0.97267 0.99558 1.01255 1.21306 1.34960
0.96205 1.06018 0.91302 1.25817 0.96599 0.97129 0.98775 1.70010
1.44825 1.14532 1.26013 0.85142 0.77797 0.78610 0.77916 1.18624
1.20214 1.19734 0.90358 0.88064 0.90402 0.81233 0.81113 0.80596
0.80345 0.90082 0.95532 0.93338 0.91944
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 C -0.14 -2.61 9.04 71.98 0.65 -1.96 16
2 C -0.07 -1.81 3.24 29.84 0.10 -1.71 16
3 H 0.14 2.93 8.14 -2.39 -0.02 2.91 16
4 S -0.09 -1.98 20.39 -56.49 -1.15 -3.13 16
5 C -0.08 -1.21 5.32 22.62 0.12 -1.09 16
6 C -0.07 -0.86 9.79 22.41 0.22 -0.64 16
7 C -0.06 -0.73 9.55 22.25 0.21 -0.52 16
8 C -0.04 -0.54 6.85 36.41 0.25 -0.29 16
9 N 0.03 0.53 4.45 -46.40 -0.21 0.33 16
10 O -0.17 -3.60 18.44 18.88 0.35 -3.26 16
11 O -0.18 -3.95 18.44 18.89 0.35 -3.60 16
12 C -0.06 -0.62 9.55 22.25 0.21 -0.41 16
13 C -0.06 -0.63 9.46 22.41 0.21 -0.42 16
14 C 0.47 18.06 7.05 71.23 0.50 18.57 16
15 O -0.53 -24.21 15.36 21.95 0.34 -23.88 16
16 O -0.35 -15.96 9.86 -51.39 -0.51 -16.46 16
17 C 0.22 11.56 2.56 29.85 0.08 11.63 16
18 H 0.01 0.54 7.16 -2.38 -0.02 0.53 16
19 C -0.14 -7.06 9.32 71.98 0.67 -6.39 16
20 C -0.55 -30.00 8.90 25.60 0.23 -29.77 16
21 H 0.07 3.69 7.81 -2.91 -0.02 3.66 16
22 C 0.02 0.90 5.30 84.66 0.45 1.34 16
23 N -0.92 -51.31 11.32 21.45 0.24 -51.06 16
24 Si 0.98 41.60 29.54 68.60 2.03 43.63 16
25 H -0.26 -10.69 7.11 99.48 0.71 -9.98 16
26 H -0.28 -11.47 7.11 99.48 0.71 -10.76 16
27 H -0.27 -11.10 7.11 99.48 0.71 -10.40 16
28 H 0.08 1.50 8.14 -2.38 -0.02 1.48 16
29 H 0.10 1.25 7.57 -2.39 -0.02 1.24 16
30 H 0.08 1.57 8.14 -2.38 -0.02 1.55 16
31 H 0.17 1.75 8.06 -2.91 -0.02 1.72 16
32 H 0.17 1.72 7.60 -2.91 -0.02 1.70 16
33 H 0.18 1.36 7.60 -2.91 -0.02 1.34 16
34 H 0.18 1.24 8.06 -2.91 -0.02 1.22 16
35 H 0.08 4.34 6.07 -2.39 -0.01 4.33 16
36 H 0.03 1.20 8.14 -2.39 -0.02 1.18 16
37 H 0.05 2.23 8.14 -2.38 -0.02 2.21 16
38 H 0.27 14.17 8.31 -92.71 -0.77 13.40 16
Total: -1.00 -68.21 354.01 6.43 -61.78
By element:
Atomic # 1 Polarization: 6.24 SS G_CDS: 1.09 Total: 7.32 kcal
Atomic # 6 Polarization: -15.57 SS G_CDS: 3.90 Total: -11.67 kcal
Atomic # 7 Polarization: -50.77 SS G_CDS: 0.04 Total: -50.74 kcal
Atomic # 8 Polarization: -47.72 SS G_CDS: 0.53 Total: -47.20 kcal
Atomic # 14 Polarization: 41.60 SS G_CDS: 2.03 Total: 43.63 kcal
Atomic # 16 Polarization: -1.98 SS G_CDS: -1.15 Total: -3.13 kcal
Total: -68.21 6.43 -61.78 kcal
The number of atoms in the molecule is 38
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.
ZINC000113688070.mol2 38
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 -17.149 kcal
(2) G-P(sol) polarization free energy of solvation -68.208 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -85.358 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 6.427 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.782 kcal
(6) G-S(sol) free energy of system = (1) + (5) -78.931 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.49 seconds