Wall clock time and date at job start Tue Mar 31 2020 11:47:08
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 N 1.46505 * 1
3 3 C 1.46499 * 119.99873 * 2 1
4 4 C 1.50698 * 109.47099 * 275.35670 * 3 2 1
5 5 H 1.08004 * 120.00214 * 4.39423 * 4 3 2
6 6 C 1.37877 * 120.00036 * 184.39476 * 4 3 2
7 7 N 1.31511 * 119.99772 * 4.76337 * 6 4 3
8 8 Si 1.86800 * 120.00029 * 184.75827 * 6 4 3
9 9 H 1.48501 * 109.46714 * 94.86461 * 8 6 4
10 10 H 1.48501 * 109.47180 * 214.85575 * 8 6 4
11 11 H 1.48494 * 109.47378 * 334.86238 * 8 6 4
12 12 S 1.65607 * 119.99825 * 180.02562 * 2 1 3
13 13 O 1.42099 * 106.39824 * 333.84933 * 12 2 1
14 14 O 1.42107 * 106.39702 * 200.93563 * 12 2 1
15 15 N 1.65598 * 107.21955 * 87.39498 * 12 2 1
16 16 C 1.46493 * 119.99928 * 87.18499 * 15 12 2
17 17 C 1.46502 * 119.99721 * 267.18351 * 15 12 2
18 18 C 1.50709 * 109.46631 * 262.82888 * 17 15 12
19 19 C 1.38266 * 119.98565 * 274.55725 * 18 17 15
20 20 C 1.38221 * 120.04830 * 180.25827 * 19 18 17
21 21 C 1.38218 * 120.02482 * 359.49179 * 20 19 18
22 22 C 1.38435 * 119.97468 * 0.25432 * 21 20 19
23 23 F 1.35109 * 120.02365 * 179.97438 * 22 21 20
24 24 C 1.38174 * 119.98583 * 94.30970 * 18 17 15
25 25 H 1.08998 * 109.46887 * 269.99753 * 1 2 3
26 26 H 1.08995 * 109.47325 * 29.99781 * 1 2 3
27 27 H 1.08996 * 109.46928 * 150.00052 * 1 2 3
28 28 H 1.08994 * 109.47462 * 35.35953 * 3 2 1
29 29 H 1.08999 * 109.46533 * 155.35874 * 3 2 1
30 30 H 0.97003 * 119.99957 * 179.97438 * 7 6 4
31 31 H 1.09009 * 109.46805 * 269.99781 * 16 15 12
32 32 H 1.08994 * 109.47642 * 29.99414 * 16 15 12
33 33 H 1.09003 * 109.47365 * 149.99949 * 16 15 12
34 34 H 1.08998 * 109.46956 * 142.83505 * 17 15 12
35 35 H 1.08998 * 109.47438 * 22.82635 * 17 15 12
36 36 H 1.07993 * 119.97717 * 0.02562 * 19 18 17
37 37 H 1.07999 * 119.98890 * 179.76127 * 20 19 18
38 38 H 1.08010 * 120.01224 * 180.23167 * 21 20 19
39 39 H 1.08005 * 120.01150 * 0.02562 * 24 18 17
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 7 1.4650 0.0000 0.0000
3 6 2.1975 1.2687 0.0000
4 6 2.3338 1.7701 -1.4146
5 1 1.8561 1.2385 -2.2243
6 6 3.0683 2.9074 -1.6752
7 7 3.7269 3.5016 -0.7042
8 14 3.1281 3.6042 -3.4073
9 1 2.0962 4.6624 -3.5510
10 1 4.4711 4.1850 -3.6611
11 1 2.8646 2.5196 -4.3866
12 16 2.2930 -1.4342 -0.0006
13 8 1.4339 -2.3937 0.5997
14 8 3.5963 -1.1453 0.4866
15 7 2.4759 -1.8940 -1.5810
16 6 3.6225 -1.4133 -2.3557
17 6 1.4909 -2.7815 -2.2042
18 6 1.9935 -4.2015 -2.1570
19 6 2.8346 -4.6702 -3.1493
20 6 3.2920 -5.9740 -3.1102
21 6 2.9175 -6.8075 -2.0732
22 6 2.0796 -6.3377 -1.0763
23 9 1.7124 -7.1518 -0.0625
24 6 1.6177 -5.0330 -1.1194
25 1 -0.3633 0.0000 1.0277
26 1 -0.3634 0.8900 -0.5138
27 1 -0.3633 -0.8900 -0.5138
28 1 1.6534 2.0024 0.5947
29 1 3.1881 1.1163 0.4285
30 1 4.2440 4.3016 -0.8876
31 1 3.3610 -0.4770 -2.8487
32 1 4.4685 -1.2486 -1.6885
33 1 3.8912 -2.1566 -3.1064
34 1 1.3392 -2.4841 -3.2418
35 1 0.5465 -2.7123 -1.6645
36 1 3.1314 -4.0184 -3.9575
37 1 3.9459 -6.3402 -3.8878
38 1 3.2781 -7.8251 -2.0408
39 1 0.9635 -4.6655 -0.3425
RHF calculation, no. of doubly occupied orbitals= 56
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)
F: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988).
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
ZINC000044648990.mol2 39
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 11:47:08
Heat of formation + Delta-G solvation = -111.196466 kcal
Electronic energy + Delta-G solvation = -25201.132545 eV
Core-core repulsion = 21377.427103 eV
Total energy + Delta-G solvation = -3823.705441 eV
No. of doubly occupied orbitals = 56
Molecular weight
(most abundant/longest-lived isotopes) = 316.104 amu
Computer time = 0.79 seconds
Orbital eigenvalues (eV)
-49.89987 -40.22839 -38.35133 -37.22305 -37.05155 -36.86386 -34.45771 -32.56716
-31.41482 -29.66347 -28.36301 -26.77779 -25.73185 -24.14167 -23.59771 -22.59643
-19.92531 -18.92861 -18.67959 -18.20183 -18.06485 -17.43213 -17.14904 -17.07795
-16.63099 -16.49057 -15.83287 -15.48563 -15.11019 -14.93889 -14.69308 -14.41986
-14.02152 -13.96686 -13.82991 -13.72033 -13.41064 -13.34534 -13.18076 -12.97600
-12.88621 -12.87651 -12.54528 -12.40899 -12.35618 -12.28088 -12.03878 -11.86485
-11.67698 -10.56135 -10.09680 -9.96330 -9.74510 -9.64367 -8.13724 -6.27867
-0.37096 0.19380 0.26078 1.47374 1.48190 1.58912 1.98862 2.44948
2.50856 2.73460 3.18126 3.25580 3.40389 3.71132 3.76385 3.97181
4.12828 4.17154 4.26540 4.38208 4.51162 4.64247 4.71445 4.80150
4.82693 4.92848 4.98446 5.06085 5.12293 5.15027 5.20272 5.27225
5.37063 5.46075 5.54964 5.62147 5.77979 5.95582 5.98548 6.12534
6.84395 7.42389 8.94838
Molecular weight = 316.10amu
Principal moments of inertia in cm(-1)
A = 0.020430 B = 0.004323 C = 0.003879
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1370.187280 B = 6475.362986 C = 7217.255508
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.098 3.902
2 N -1.004 6.004
3 C 0.255 3.745
4 C -0.538 4.538
5 H 0.077 0.923
6 C 0.009 3.991
7 N -0.931 5.931
8 Si 0.962 3.038
9 H -0.278 1.278
10 H -0.289 1.289
11 H -0.252 1.252
12 S 2.792 3.208
13 O -0.999 6.999
14 O -1.018 7.018
15 N -0.996 5.996
16 C 0.088 3.912
17 C 0.159 3.841
18 C -0.089 4.089
19 C -0.110 4.110
20 C -0.089 4.089
21 C -0.152 4.152
22 C 0.066 3.934
23 F -0.154 7.154
24 C -0.158 4.158
25 H 0.053 0.947
26 H 0.076 0.924
27 H 0.079 0.921
28 H 0.016 0.984
29 H 0.017 0.983
30 H 0.265 0.735
31 H 0.060 0.940
32 H 0.054 0.946
33 H 0.105 0.895
34 H 0.123 0.877
35 H 0.091 0.909
36 H 0.158 0.842
37 H 0.169 0.831
38 H 0.155 0.845
39 H 0.128 0.872
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -4.231 -16.471 -9.586 19.521
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 -0.048 4.048
2 N -0.845 5.845
3 C 0.132 3.868
4 C -0.577 4.577
5 H 0.095 0.905
6 C -0.190 4.190
7 N -0.571 5.571
8 Si 0.787 3.213
9 H -0.204 1.204
10 H -0.215 1.215
11 H -0.176 1.176
12 S 2.801 3.199
13 O -0.982 6.982
14 O -1.002 7.002
15 N -0.836 5.836
16 C -0.057 4.057
17 C 0.034 3.966
18 C -0.091 4.091
19 C -0.129 4.129
20 C -0.107 4.107
21 C -0.171 4.171
22 C 0.047 3.953
23 F -0.132 7.132
24 C -0.178 4.178
25 H 0.071 0.929
26 H 0.095 0.905
27 H 0.098 0.902
28 H 0.034 0.966
29 H 0.035 0.965
30 H 0.074 0.926
31 H 0.079 0.921
32 H 0.073 0.927
33 H 0.123 0.877
34 H 0.141 0.859
35 H 0.109 0.891
36 H 0.176 0.824
37 H 0.186 0.814
38 H 0.172 0.828
39 H 0.146 0.854
Dipole moment (debyes) X Y Z Total
from point charges -3.841 -16.787 -8.729 19.306
hybrid contribution -0.022 0.879 -0.068 0.882
sum -3.863 -15.908 -8.797 18.584
Atomic orbital electron populations
1.21475 0.77985 1.03508 1.01801 1.57614 1.15653 1.22083 1.89140
1.18800 0.90762 0.80132 0.97135 1.21806 1.31764 1.10414 0.93681
0.90473 1.25870 0.94493 0.97315 1.01305 1.70097 1.31754 1.20686
1.34565 0.85476 0.77077 0.78967 0.79757 1.20406 1.21536 1.17567
1.01416 0.72242 0.72339 0.73862 1.93508 1.68324 1.60698 1.75707
1.93511 1.41434 1.85574 1.79716 1.57648 1.34734 1.59830 1.31354
1.21633 0.86573 1.00655 0.96824 1.20415 0.90102 0.83979 1.02107
1.20278 0.98307 0.95944 0.94604 1.21526 0.95952 0.96579 0.98811
1.21430 0.98665 0.92851 0.97707 1.21493 0.98624 1.02669 0.94295
1.18045 1.00368 0.89016 0.87834 1.91459 1.90548 1.72410 1.58831
1.21382 1.03026 0.92933 1.00457 0.92880 0.90514 0.90226 0.96595
0.96456 0.92641 0.92123 0.92697 0.87677 0.85851 0.89058 0.82422
0.81376 0.82767 0.85393
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 18.
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 0.10 3.15 10.31 127.77 1.32 4.47 16
2 N -1.00 -41.21 3.23 -543.24 -1.75 -42.97 16
3 C 0.26 12.92 5.41 85.63 0.46 13.38 16
4 C -0.54 -27.17 9.19 25.60 0.24 -26.93 16
5 H 0.08 3.61 7.69 -2.91 -0.02 3.59 16
6 C 0.01 0.50 5.45 84.66 0.46 0.96 16
7 N -0.93 -53.58 13.29 21.45 0.29 -53.29 16
8 Si 0.96 40.36 29.54 68.60 2.03 42.39 16
9 H -0.28 -11.49 7.11 99.48 0.71 -10.79 16
10 H -0.29 -12.24 7.11 99.48 0.71 -11.53 16
11 H -0.25 -9.64 7.11 99.48 0.71 -8.93 16
12 S 2.79 111.66 6.02 -56.49 -0.34 111.32 16
13 O -1.00 -39.43 15.09 -128.00 -1.93 -41.36 16
14 O -1.02 -49.83 15.30 -128.00 -1.96 -51.79 16
15 N -1.00 -30.81 3.23 -543.22 -1.75 -32.56 16
16 C 0.09 2.59 10.68 127.77 1.36 3.96 16
17 C 0.16 3.68 5.50 85.64 0.47 4.15 16
18 C -0.09 -2.07 5.44 -19.87 -0.11 -2.17 16
19 C -0.11 -1.90 9.18 22.27 0.20 -1.70 16
20 C -0.09 -1.35 10.04 22.26 0.22 -1.12 16
21 C -0.15 -2.88 10.03 22.31 0.22 -2.65 16
22 C 0.07 1.71 7.30 22.37 0.16 1.87 16
23 F -0.15 -4.33 17.27 44.97 0.78 -3.55 16
24 C -0.16 -4.34 9.49 22.31 0.21 -4.13 16
25 H 0.05 1.61 8.14 -2.39 -0.02 1.59 16
26 H 0.08 2.42 8.07 -2.39 -0.02 2.40 16
27 H 0.08 2.08 7.63 -2.39 -0.02 2.07 16
28 H 0.02 0.85 8.11 -2.39 -0.02 0.83 16
29 H 0.02 1.01 6.88 -2.39 -0.02 0.99 16
30 H 0.26 14.40 8.31 -92.71 -0.77 13.63 16
31 H 0.06 1.91 7.82 -2.38 -0.02 1.89 16
32 H 0.05 1.90 7.04 -2.39 -0.02 1.89 16
33 H 0.10 2.12 6.84 -2.39 -0.02 2.10 16
34 H 0.12 2.04 8.10 -2.39 -0.02 2.03 16
35 H 0.09 2.08 7.14 -2.39 -0.02 2.07 16
36 H 0.16 1.83 7.41 -2.91 -0.02 1.81 16
37 H 0.17 1.33 8.06 -2.91 -0.02 1.30 16
38 H 0.15 2.15 8.06 -2.91 -0.02 2.13 16
39 H 0.13 3.92 7.18 -2.91 -0.02 3.90 16
Total: -1.00 -70.45 344.80 1.64 -68.81
By element:
Atomic # 1 Polarization: 11.87 SS G_CDS: 1.06 Total: 12.93 kcal
Atomic # 6 Polarization: -15.15 SS G_CDS: 5.23 Total: -9.92 kcal
Atomic # 7 Polarization: -125.60 SS G_CDS: -3.22 Total: -128.82 kcal
Atomic # 8 Polarization: -89.27 SS G_CDS: -3.89 Total: -93.16 kcal
Atomic # 9 Polarization: -4.33 SS G_CDS: 0.78 Total: -3.55 kcal
Atomic # 14 Polarization: 40.36 SS G_CDS: 2.03 Total: 42.39 kcal
Atomic # 16 Polarization: 111.66 SS G_CDS: -0.34 Total: 111.32 kcal
Total: -70.45 1.64 -68.81 kcal
The number of atoms in the molecule is 39
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.
ZINC000044648990.mol2 39
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 -42.390 kcal
(2) G-P(sol) polarization free energy of solvation -70.446 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -112.836 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.640 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.806 kcal
(6) G-S(sol) free energy of system = (1) + (5) -111.196 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.79 seconds