Wall clock time and date at job start Tue Mar 31 2020 03:56:05
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.
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* 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 1.31622 * 1
3 3 Si 1.86799 * 120.00179 * 2 1
4 4 H 1.48508 * 109.47064 * 179.97438 * 3 2 1
5 5 H 1.48502 * 109.47003 * 299.99850 * 3 2 1
6 6 H 1.48501 * 109.47044 * 59.99923 * 3 2 1
7 7 C 1.38810 * 119.99893 * 179.97438 * 2 1 3
8 8 H 1.07998 * 120.00379 * 180.02562 * 7 2 1
9 9 N 1.36945 * 120.00064 * 359.97438 * 7 2 1
10 10 C 1.47423 * 125.64368 * 359.97438 * 9 7 2
11 11 C 1.54914 * 104.83031 * 204.14604 * 10 9 7
12 12 H 1.09002 * 111.00586 * 204.91807 * 11 10 9
13 13 O 1.42901 * 111.03638 * 81.08079 * 11 10 9
14 14 C 1.55154 * 101.58036 * 322.99171 * 11 10 9
15 15 H 1.09004 * 110.72216 * 276.95712 * 14 11 10
16 16 C 1.53001 * 110.71910 * 153.86533 * 14 11 10
17 17 N 1.46502 * 109.47467 * 175.00233 * 16 14 11
18 18 C 1.34775 * 120.00173 * 179.97438 * 17 16 14
19 19 O 1.21612 * 120.00297 * 359.97438 * 18 17 16
20 20 C 1.47170 * 119.99809 * 179.97438 * 18 17 16
21 21 C 1.38248 * 128.47510 * 180.02562 * 20 18 17
22 22 N 1.31242 * 111.88610 * 180.02562 * 21 20 18
23 23 N 1.27336 * 120.04042 * 359.97438 * 22 21 20
24 24 S 1.56637 * 109.74107 * 359.70304 * 23 22 21
25 25 C 1.47018 * 125.64951 * 179.97438 * 9 7 2
26 26 H 0.97005 * 119.99656 * 0.02562 * 1 2 3
27 27 H 1.08998 * 110.36740 * 85.31492 * 10 9 7
28 28 H 1.08994 * 110.37022 * 322.98640 * 10 9 7
29 29 H 0.96698 * 113.99847 * 64.60362 * 13 11 10
30 30 H 1.09005 * 109.47406 * 294.99942 * 16 14 11
31 31 H 1.08999 * 109.47808 * 54.99877 * 16 14 11
32 32 H 0.97002 * 119.99332 * 359.97438 * 17 16 14
33 33 H 1.07995 * 124.05755 * 0.02562 * 21 20 18
34 34 H 1.08992 * 109.88436 * 59.50397 * 25 9 7
35 35 H 1.08999 * 109.88221 * 298.33557 * 25 9 7
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 1.3162 0.0000 0.0000
3 14 2.2503 1.6177 0.0000
4 1 3.7103 1.3463 0.0006
5 1 1.8915 2.3964 -1.2125
6 1 1.8915 2.3964 1.2125
7 6 2.0103 -1.2021 0.0005
8 1 3.0902 -1.2022 0.0010
9 7 1.3255 -2.3881 0.0016
10 6 -0.1416 -2.5331 0.0028
11 6 -0.4013 -3.9317 0.6162
12 1 -1.3589 -4.3324 0.2838
13 8 -0.3357 -3.8863 2.0430
14 6 0.7782 -4.7524 0.0311
15 1 0.5437 -5.1016 -0.9745
16 6 1.1236 -5.9304 0.9442
17 7 2.1568 -6.7532 0.3103
18 6 2.6208 -7.8528 0.9364
19 8 2.1822 -8.1619 2.0278
20 6 3.6583 -8.6796 0.2993
21 6 4.2541 -9.8317 0.7778
22 7 5.1448 -10.3065 -0.0610
23 7 5.3657 -9.7076 -1.1628
24 16 4.4441 -8.4459 -1.2732
25 6 1.9317 -3.7275 0.0017
26 1 -0.4850 0.8401 -0.0004
27 1 -0.5281 -2.4878 -1.0153
28 1 -0.5989 -1.7582 0.6179
29 1 -1.0244 -3.3440 2.4513
30 1 1.4932 -5.5545 1.8983
31 1 0.2314 -6.5336 1.1125
32 1 2.5069 -6.5065 -0.5600
33 1 4.0152 -10.2865 1.7278
34 1 2.5591 -3.8504 0.8845
35 1 2.5271 -3.8650 -0.9009
RHF calculation, no. of doubly occupied orbitals= 52
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
ZINC000957901364.mol2 35
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 03:56:05
Heat of formation + Delta-G solvation = -4.796166 kcal
Electronic energy + Delta-G solvation = -21475.640819 eV
Core-core repulsion = 18022.462873 eV
Total energy + Delta-G solvation = -3453.177946 eV
No. of doubly occupied orbitals = 52
Molecular weight
(most abundant/longest-lived isotopes) = 298.089 amu
Computer time = 0.94 seconds
Orbital eigenvalues (eV)
-41.92426 -40.82592 -39.71645 -36.30882 -36.18326 -34.04863 -33.22276 -31.44745
-29.57648 -28.60926 -27.16076 -25.43956 -23.63578 -22.26238 -21.72825 -21.04646
-20.24815 -19.09942 -18.67571 -17.86291 -17.15848 -17.04446 -16.79321 -16.25549
-15.86270 -15.79662 -15.57665 -15.25474 -14.63034 -14.40059 -13.95951 -13.83225
-13.67315 -13.15282 -13.04207 -13.00939 -12.66038 -12.30108 -12.01566 -11.85202
-11.81006 -11.70394 -11.41901 -11.19189 -11.18707 -10.93469 -10.78961 -10.64015
-10.23403 -8.82855 -7.77295 -5.18881 -1.37175 -0.25473 0.40725 0.86939
1.47503 1.48670 1.57976 1.80716 1.86316 2.50197 2.94811 3.29937
3.37145 3.57352 3.62839 3.67015 3.92482 3.97336 4.03908 4.46482
4.57874 4.62670 4.67832 4.86610 4.93591 5.02692 5.19700 5.37240
5.43349 5.54171 5.80328 6.23546 6.31708 6.55026 6.89871 6.99092
7.13583 7.80734 8.42586 9.24794
Molecular weight = 298.09amu
Principal moments of inertia in cm(-1)
A = 0.022437 B = 0.003426 C = 0.003110
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1247.627731 B = 8170.016663 C = 9002.188480
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.946 5.946
2 C -0.064 4.064
3 Si 0.975 3.025
4 H -0.270 1.270
5 H -0.292 1.292
6 H -0.294 1.294
7 C -0.234 4.234
8 H 0.077 0.923
9 N -0.621 5.621
10 C 0.125 3.875
11 C 0.094 3.906
12 H 0.091 0.909
13 O -0.570 6.570
14 C -0.093 4.093
15 H 0.120 0.880
16 C 0.154 3.846
17 N -0.707 5.707
18 C 0.604 3.396
19 O -0.553 6.553
20 C -0.302 4.302
21 C 0.078 3.922
22 N -0.275 5.275
23 N -0.287 5.287
24 S 0.503 5.497
25 C 0.138 3.862
26 H 0.246 0.754
27 H 0.002 0.998
28 H 0.078 0.922
29 H 0.388 0.612
30 H 0.059 0.941
31 H 0.081 0.919
32 H 0.412 0.588
33 H 0.231 0.769
34 H 0.016 0.984
35 H 0.036 0.964
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 2.819 -16.509 -2.883 16.995
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 -0.597 5.597
2 C -0.257 4.257
3 Si 0.804 3.196
4 H -0.194 1.194
5 H -0.219 1.219
6 H -0.221 1.221
7 C -0.363 4.363
8 H 0.095 0.905
9 N -0.347 5.347
10 C 0.000 4.000
11 C 0.033 3.967
12 H 0.108 0.892
13 O -0.377 6.377
14 C -0.112 4.112
15 H 0.137 0.863
16 C 0.031 3.969
17 N -0.359 5.359
18 C 0.388 3.612
19 O -0.432 6.432
20 C -0.443 4.443
21 C -0.090 4.090
22 N -0.138 5.138
23 N -0.268 5.268
24 S 0.638 5.362
25 C 0.013 3.987
26 H 0.056 0.944
27 H 0.020 0.980
28 H 0.096 0.904
29 H 0.237 0.763
30 H 0.077 0.923
31 H 0.099 0.901
32 H 0.248 0.752
33 H 0.247 0.753
34 H 0.034 0.966
35 H 0.054 0.946
Dipole moment (debyes) X Y Z Total
from point charges 4.126 -17.052 -3.838 17.959
hybrid contribution -0.636 1.583 1.053 2.005
sum 3.490 -15.469 -2.785 16.100
Atomic orbital electron populations
1.69991 1.05932 1.24811 1.58930 1.25512 0.96641 1.00604 1.02945
0.85056 0.78090 0.79797 0.76666 1.19436 1.21881 1.22107 1.19448
0.90931 0.83898 1.42028 0.90482 1.44651 1.02613 1.00789 1.86647
1.22468 0.84732 0.95363 0.97468 1.23107 0.97293 0.95139 0.81143
0.89186 1.86359 1.58827 1.73469 1.19052 1.22497 0.95209 0.93394
1.00094 0.86254 1.21065 0.90399 0.89954 0.95458 1.45876 1.41405
1.25434 1.23147 1.16585 0.80243 0.80197 0.84202 1.90849 1.59631
1.71634 1.21094 1.27945 1.08611 1.04150 1.03581 1.24765 0.90643
0.91957 1.01604 1.70770 1.17890 1.26760 0.98400 1.78666 1.22622
1.09030 1.16518 1.82404 1.19765 1.23393 1.10677 1.21508 0.94674
0.84622 0.97864 0.94397 0.97973 0.90368 0.76282 0.92306 0.90079
0.75165 0.75262 0.96621 0.94612
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 N -0.95 -53.74 10.09 21.65 0.22 -53.52 16
2 C -0.06 -3.53 5.49 84.86 0.47 -3.06 16
3 Si 0.97 44.49 29.55 68.60 2.03 46.52 16
4 H -0.27 -11.71 7.11 99.48 0.71 -11.00 16
5 H -0.29 -13.27 7.11 99.48 0.71 -12.56 16
6 H -0.29 -13.49 7.11 99.48 0.71 -12.78 16
7 C -0.23 -12.64 10.27 84.03 0.86 -11.78 16
8 H 0.08 4.05 7.83 -2.91 -0.02 4.02 16
9 N -0.62 -29.96 3.39 -692.01 -2.35 -32.31 16
10 C 0.13 5.56 5.62 86.86 0.49 6.05 16
11 C 0.09 3.02 4.16 31.99 0.13 3.16 16
12 H 0.09 2.35 8.14 -2.39 -0.02 2.33 16
13 O -0.57 -19.01 12.33 -148.98 -1.84 -20.85 16
14 C -0.09 -2.61 2.89 -9.61 -0.03 -2.64 16
15 H 0.12 2.66 8.14 -2.39 -0.02 2.64 16
16 C 0.15 3.98 4.50 86.38 0.39 4.37 16
17 N -0.71 -14.76 5.47 -466.63 -2.55 -17.31 16
18 C 0.60 13.98 7.80 86.59 0.68 14.66 16
19 O -0.55 -16.88 16.98 -4.07 -0.07 -16.95 16
20 C -0.30 -5.55 6.81 24.62 0.17 -5.38 16
21 C 0.08 1.42 11.55 84.78 0.98 2.40 16
22 N -0.28 -5.82 11.54 -57.87 -0.67 -6.49 16
23 N -0.29 -5.78 12.51 37.02 0.46 -5.32 16
24 S 0.50 7.17 23.05 -56.49 -1.30 5.86 16
25 C 0.14 5.11 6.75 86.73 0.59 5.70 16
26 H 0.25 13.63 8.31 -92.70 -0.77 12.86 16
27 H 0.00 0.11 8.14 -2.39 -0.02 0.09 16
28 H 0.08 4.03 5.87 -2.39 -0.01 4.01 16
29 H 0.39 10.75 9.12 -74.06 -0.68 10.07 16
30 H 0.06 1.89 7.52 -2.38 -0.02 1.87 16
31 H 0.08 2.00 8.14 -2.39 -0.02 1.98 16
32 H 0.41 6.45 7.90 -92.71 -0.73 5.72 16
33 H 0.23 3.23 8.06 -2.91 -0.02 3.20 16
34 H 0.02 0.62 7.68 -2.39 -0.02 0.60 16
35 H 0.04 1.21 8.14 -2.39 -0.02 1.19 16
Total: -1.00 -71.04 315.09 -1.60 -72.64
By element:
Atomic # 1 Polarization: 14.51 SS G_CDS: -0.25 Total: 14.26 kcal
Atomic # 6 Polarization: 8.75 SS G_CDS: 4.72 Total: 13.47 kcal
Atomic # 7 Polarization: -110.06 SS G_CDS: -4.89 Total: -114.95 kcal
Atomic # 8 Polarization: -35.89 SS G_CDS: -1.91 Total: -37.80 kcal
Atomic # 14 Polarization: 44.49 SS G_CDS: 2.03 Total: 46.52 kcal
Atomic # 16 Polarization: 7.17 SS G_CDS: -1.30 Total: 5.86 kcal
Total: -71.04 -1.60 -72.64 kcal
The number of atoms in the molecule is 35
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.
ZINC000957901364.mol2 35
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 67.842 kcal
(2) G-P(sol) polarization free energy of solvation -71.039 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -3.197 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.599 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.638 kcal
(6) G-S(sol) free energy of system = (1) + (5) -4.796 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.94 seconds