Wall clock time and date at job start Wed Apr 1 2020 04:35:32
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
* DEV - DEVELOPER OPTIONS ARE ALLOWED
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS USER-SPECIFIED
* DIELEC - THE SOLVENT DIELECTRIC CONSTANT IS 2.06
* IOFR - THE SOLVENT INDEX OF REFRACTION IS 1.4345
* ALPHA - THE SOLVENT ALPHA IS 0.00
* BETA - THE SOLVENT BETA IS 0.00
* GAMMA - THE SOLVENT MACROSCOPIC SURFACE TENSION IS
* 38.93 CAL MOL^-1 ANGSTROM^-2
* FACARB - THE FRACTION OF AROMATIC CARBONS IS 0.00
* FEHALO - THE FRACTION OF ELECTRONEGATIVE HALOGENS IS 0.00
*******************************************************************************
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 O 1.42905 * 1
3 3 C 1.42891 * 114.00279 * 2 1
4 4 C 1.52997 * 109.47221 * 179.97438 * 3 2 1
5 5 N 1.46506 * 109.47289 * 64.99848 * 4 3 2
6 6 C 1.46502 * 119.99937 * 85.00032 * 5 4 3
7 7 C 1.50698 * 109.46865 * 85.00033 * 6 5 4
8 8 H 1.07995 * 120.00536 * 0.02562 * 7 6 5
9 9 C 1.37882 * 119.99364 * 179.97438 * 7 6 5
10 10 N 1.31515 * 119.99252 * 180.02562 * 9 7 6
11 11 Si 1.86796 * 120.00489 * 0.02562 * 9 7 6
12 12 H 1.48496 * 109.47087 * 89.99792 * 11 9 7
13 13 H 1.48500 * 109.47388 * 210.00066 * 11 9 7
14 14 H 1.48497 * 109.46999 * 330.00022 * 11 9 7
15 15 S 1.65596 * 119.99829 * 265.00303 * 5 4 3
16 16 O 1.42102 * 106.39988 * 203.53886 * 15 5 4
17 17 O 1.42093 * 106.40335 * 336.45537 * 15 5 4
18 18 C 1.76205 * 107.21728 * 89.99913 * 15 5 4
19 19 C 1.34155 * 125.42604 * 89.99902 * 18 15 5
20 20 C 1.47065 * 105.94525 * 179.97438 * 19 18 15
21 21 C 1.47234 * 127.19896 * 179.97438 * 20 19 18
22 22 O 1.21537 * 119.99981 * 0.02562 * 21 20 19
23 23 O 1.34768 * 119.99918 * 180.02562 * 21 20 19
24 24 C 1.45205 * 116.99878 * 180.02562 * 23 21 20
25 25 C 1.36490 * 105.59690 * 359.97438 * 20 19 18
26 26 O 1.33625 * 108.38796 * 359.75759 * 25 20 19
27 27 H 1.08993 * 109.47152 * 179.97438 * 1 2 3
28 28 H 1.08999 * 109.46848 * 300.00631 * 1 2 3
29 29 H 1.09004 * 109.46489 * 59.99914 * 1 2 3
30 30 H 1.09004 * 109.47587 * 59.99890 * 3 2 1
31 31 H 1.09002 * 109.47037 * 300.00040 * 3 2 1
32 32 H 1.09001 * 109.47289 * 304.99720 * 4 3 2
33 33 H 1.09004 * 109.47261 * 184.99976 * 4 3 2
34 34 H 1.08999 * 109.46889 * 205.00670 * 6 5 4
35 35 H 1.09003 * 109.46675 * 325.00051 * 6 5 4
36 36 H 0.97010 * 119.99262 * 179.97438 * 10 9 7
37 37 H 1.07997 * 127.03009 * 0.02562 * 19 18 15
38 38 H 1.08999 * 109.46818 * 299.99381 * 24 23 21
39 39 H 1.08993 * 109.47513 * 59.99618 * 24 23 21
40 40 H 1.09003 * 109.46703 * 180.02562 * 24 23 21
41 41 H 1.08003 * 125.80573 * 179.97438 * 25 20 19
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 8 1.4291 0.0000 0.0000
3 6 2.0103 1.3053 0.0000
4 6 3.5355 1.1845 0.0006
5 7 3.9768 0.5637 -1.2509
6 6 4.1830 1.3879 -2.4444
7 6 5.5702 1.9758 -2.4153
8 1 6.2323 1.7571 -1.5906
9 6 5.9946 2.7921 -3.4423
10 7 7.2054 3.3047 -3.4172
11 14 4.8498 3.1698 -4.8692
12 1 4.0588 4.3880 -4.5601
13 1 5.6502 3.3982 -6.0990
14 1 3.9303 2.0236 -5.0829
15 16 4.2424 -1.0695 -1.3164
16 8 5.1448 -1.2864 -2.3924
17 8 4.5071 -1.4867 0.0159
18 6 2.7212 -1.8270 -1.7822
19 6 2.3288 -2.0737 -3.0411
20 6 1.0070 -2.7097 -2.9350
21 6 0.1512 -3.1736 -4.0396
22 8 0.5214 -3.0457 -5.1901
23 8 -1.0427 -3.7399 -3.7748
24 6 -1.8332 -4.1742 -4.9128
25 6 0.7398 -2.7799 -1.5984
26 8 1.7735 -2.2553 -0.9337
27 1 -0.3633 -1.0276 -0.0005
28 1 -0.3633 0.5139 0.8899
29 1 -0.3632 0.5139 -0.8900
30 1 1.6887 1.8464 0.8900
31 1 1.6887 1.8463 -0.8900
32 1 3.8508 0.5684 0.8427
33 1 3.9786 2.1764 0.0902
34 1 4.0681 0.7713 -3.3359
35 1 3.4476 2.1924 -2.4619
36 1 7.5041 3.8787 -4.1399
37 1 2.8728 -1.8516 -3.9473
38 1 -2.0503 -3.3185 -5.5521
39 1 -1.2750 -4.9191 -5.4799
40 1 -2.7679 -4.6105 -4.5606
41 1 -0.1536 -3.1927 -1.1535
RHF calculation, no. of doubly occupied orbitals= 62
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC000611082360.mol2 41
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 04:35:32
Heat of formation + Delta-G solvation = -166.713761 kcal
Electronic energy + Delta-G solvation = -30117.155000 eV
Core-core repulsion = 25706.730885 eV
Total energy + Delta-G solvation = -4410.424115 eV
No. of doubly occupied orbitals = 62
Molecular weight
(most abundant/longest-lived isotopes) = 347.101 amu
Computer time = 0.83 seconds
Orbital eigenvalues (eV)
-42.65247 -40.32935 -38.05118 -36.82820 -36.61878 -35.73726 -35.39806 -33.16177
-32.54617 -30.57227 -29.90477 -28.01376 -27.32321 -26.09592 -24.17728 -22.89186
-22.38129 -21.51626 -20.98116 -19.38361 -18.01196 -17.35236 -17.25059 -16.93922
-16.71786 -16.49563 -16.26720 -16.20058 -15.80438 -15.54634 -15.25571 -14.83779
-14.25183 -13.90675 -13.84087 -13.52358 -13.29168 -13.10061 -12.82686 -12.57700
-12.38733 -12.33558 -12.11891 -11.79988 -11.64172 -11.51325 -11.30668 -11.26162
-11.22014 -11.10585 -10.85927 -10.63394 -10.54733 -10.25257 -10.09765 -9.65083
-9.59852 -9.30483 -8.64498 -8.29807 -6.13089 -4.13486 0.63080 0.93524
1.40814 2.29194 2.81214 2.86406 3.22772 3.31592 3.32974 3.46110
3.82795 4.15918 4.34003 4.34396 4.51716 4.79403 4.82191 4.87871
4.94630 5.13699 5.14976 5.22639 5.24809 5.30107 5.36601 5.41557
5.44275 5.50819 5.58373 5.68724 5.91094 6.05529 6.21320 6.25421
6.59940 6.63905 6.92811 7.13456 7.27313 7.49759 7.51412 8.42232
8.91578 9.45397 11.00008
Molecular weight = 347.10amu
Principal moments of inertia in cm(-1)
A = 0.011037 B = 0.004465 C = 0.003848
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2536.260419 B = 6270.000704 C = 7274.455017
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.034 3.966
2 O -0.385 6.385
3 C 0.034 3.966
4 C 0.123 3.877
5 N -0.962 5.962
6 C 0.222 3.778
7 C -0.535 4.535
8 H 0.082 0.918
9 C 0.077 3.923
10 N -0.891 5.891
11 Si 0.868 3.132
12 H -0.274 1.274
13 H -0.282 1.282
14 H -0.263 1.263
15 S 2.709 3.291
16 O -0.919 6.919
17 O -0.948 6.948
18 C -0.539 4.539
19 C -0.050 4.050
20 C -0.251 4.251
21 C 0.539 3.461
22 O -0.500 6.500
23 O -0.360 6.360
24 C 0.038 3.962
25 C 0.080 3.920
26 O -0.088 6.088
27 H 0.077 0.923
28 H 0.040 0.960
29 H 0.037 0.963
30 H 0.059 0.941
31 H 0.056 0.944
32 H 0.095 0.905
33 H 0.111 0.889
34 H 0.036 0.964
35 H 0.032 0.968
36 H 0.266 0.734
37 H 0.177 0.823
38 H 0.064 0.936
39 H 0.064 0.936
40 H 0.103 0.897
41 H 0.223 0.777
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -20.177 -10.206 4.960 23.149
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 -0.063 4.063
2 O -0.304 6.304
3 C -0.044 4.044
4 C -0.004 4.004
5 N -0.802 5.802
6 C 0.099 3.901
7 C -0.574 4.574
8 H 0.100 0.900
9 C -0.126 4.126
10 N -0.529 5.529
11 Si 0.695 3.305
12 H -0.200 1.200
13 H -0.207 1.207
14 H -0.188 1.188
15 S 2.789 3.211
16 O -0.909 6.909
17 O -0.938 6.938
18 C -0.664 4.664
19 C -0.071 4.071
20 C -0.254 4.254
21 C 0.384 3.616
22 O -0.389 6.389
23 O -0.277 6.277
24 C -0.055 4.055
25 C 0.004 3.996
26 O 0.022 5.978
27 H 0.095 0.905
28 H 0.059 0.941
29 H 0.055 0.945
30 H 0.077 0.923
31 H 0.074 0.926
32 H 0.113 0.887
33 H 0.129 0.871
34 H 0.054 0.946
35 H 0.050 0.950
36 H 0.076 0.924
37 H 0.194 0.806
38 H 0.083 0.917
39 H 0.083 0.917
40 H 0.121 0.879
41 H 0.240 0.760
Dipole moment (debyes) X Y Z Total
from point charges -19.090 -10.652 4.947 22.413
hybrid contribution -1.788 0.501 -1.686 2.508
sum -20.878 -10.151 3.261 23.443
Atomic orbital electron populations
1.22671 0.81865 1.01953 0.99765 1.87936 1.19108 1.27997 1.95351
1.23246 0.95478 0.84934 1.00774 1.21424 0.90773 1.01964 0.86190
1.57182 1.81680 1.23030 1.18304 1.19581 0.98233 0.90905 0.81332
1.21321 0.97560 1.29400 1.09074 0.90009 1.24830 0.94975 0.95279
0.97558 1.69886 1.17277 1.32632 1.33097 0.86979 0.81410 0.79254
0.82897 1.20013 1.20724 1.18802 1.02217 0.72174 0.72786 0.73888
1.93692 1.55765 1.84977 1.56434 1.93527 1.82676 1.81384 1.36208
1.36471 1.15402 1.18356 0.96202 1.22853 0.92454 0.94002 0.97776
1.20577 0.97875 1.14668 0.92247 1.19957 0.79521 0.74436 0.87695
1.90883 1.72856 1.52921 1.22215 1.86514 1.30161 1.71682 1.39378
1.23285 0.94346 1.00296 0.87608 1.25095 0.91513 0.92231 0.90774
1.84079 1.22324 1.56639 1.34794 0.90457 0.94106 0.94479 0.92283
0.92558 0.88665 0.87075 0.94608 0.94975 0.92401 0.80586 0.91718
0.91698 0.87892 0.76032
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 20.
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 0.03 0.33 10.48 101.05 1.06 1.39 16
2 O -0.39 -5.11 7.18 -57.66 -0.41 -5.53 16
3 C 0.03 0.44 6.28 37.16 0.23 0.67 16
4 C 0.12 1.92 6.06 -4.04 -0.02 1.89 16
5 N -0.96 -18.56 2.71 -115.66 -0.31 -18.88 16
6 C 0.22 4.94 4.17 -5.19 -0.02 4.92 16
7 C -0.53 -14.45 9.94 -34.44 -0.34 -14.79 16
8 H 0.08 2.41 8.06 -52.49 -0.42 1.98 16
9 C 0.08 2.15 5.47 -17.82 -0.10 2.06 16
10 N -0.89 -26.58 13.96 55.43 0.77 -25.80 16
11 Si 0.87 20.55 27.47 -169.99 -4.67 15.88 16
12 H -0.27 -6.23 7.11 56.52 0.40 -5.82 16
13 H -0.28 -6.71 7.11 56.52 0.40 -6.31 16
14 H -0.26 -5.96 6.54 56.52 0.37 -5.59 16
15 S 2.71 53.08 5.65 -107.50 -0.61 52.47 16
16 O -0.92 -20.93 16.79 -57.17 -0.96 -21.89 16
17 O -0.95 -19.36 16.57 -57.30 -0.95 -20.31 16
18 C -0.54 -8.90 6.34 29.29 0.19 -8.71 16
19 C -0.05 -0.81 10.70 -37.44 -0.40 -1.21 16
20 C -0.25 -3.42 6.31 -103.30 -0.65 -4.07 16
21 C 0.54 7.32 7.95 34.39 0.27 7.59 16
22 O -0.50 -8.28 16.77 -19.30 -0.32 -8.60 16
23 O -0.36 -3.74 10.42 -40.68 -0.42 -4.17 16
24 C 0.04 0.28 10.57 101.05 1.07 1.35 16
25 C 0.08 0.87 10.62 30.10 0.32 1.19 16
26 O -0.09 -1.24 7.87 -14.83 -0.12 -1.36 16
27 H 0.08 0.62 6.88 -51.93 -0.36 0.27 16
28 H 0.04 0.33 8.14 -51.93 -0.42 -0.09 16
29 H 0.04 0.35 8.14 -51.93 -0.42 -0.07 16
30 H 0.06 0.61 8.14 -51.93 -0.42 0.18 16
31 H 0.06 0.73 8.08 -51.93 -0.42 0.31 16
32 H 0.10 1.45 6.91 -51.93 -0.36 1.09 16
33 H 0.11 1.67 8.11 -51.93 -0.42 1.25 16
34 H 0.04 0.81 6.67 -51.93 -0.35 0.47 16
35 H 0.03 0.66 7.48 -51.93 -0.39 0.27 16
36 H 0.27 7.42 8.31 -40.82 -0.34 7.08 16
37 H 0.18 2.84 8.06 -52.49 -0.42 2.42 16
38 H 0.06 0.49 8.14 -51.93 -0.42 0.07 16
39 H 0.06 0.49 8.14 -51.93 -0.42 0.06 16
40 H 0.10 0.43 8.14 -51.93 -0.42 0.00 16
41 H 0.22 1.31 8.06 -52.48 -0.42 0.89 16
LS Contribution 366.48 15.07 5.52 5.52
Total: -1.00 -35.79 366.48 -6.14 -41.93
By element:
Atomic # 1 Polarization: 3.71 SS G_CDS: -5.26 Total: -1.55 kcal
Atomic # 6 Polarization: -9.31 SS G_CDS: 1.60 Total: -7.71 kcal
Atomic # 7 Polarization: -45.14 SS G_CDS: 0.46 Total: -44.68 kcal
Atomic # 8 Polarization: -58.68 SS G_CDS: -3.19 Total: -61.87 kcal
Atomic # 14 Polarization: 20.55 SS G_CDS: -4.67 Total: 15.88 kcal
Atomic # 16 Polarization: 53.08 SS G_CDS: -0.61 Total: 52.47 kcal
Total LS contribution 5.52 Total: 5.52 kcal
Total: -35.79 -6.14 -41.93 kcal
The number of atoms in the molecule is 41
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.
ZINC000611082360.mol2 41
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 -124.781 kcal
(2) G-P(sol) polarization free energy of solvation -35.788 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -160.569 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -6.145 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -41.933 kcal
(6) G-S(sol) free energy of system = (1) + (5) -166.714 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.83 seconds