Wall clock time and date at job start Sat Apr 11 2020 06:30:48
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 C 1.52994 * 1
3 3 N 1.46500 * 109.47009 * 2 1
4 4 C 1.46504 * 120.00194 * 274.99800 * 3 2 1
5 5 C 1.50700 * 109.47229 * 275.00307 * 4 3 2
6 6 H 1.08003 * 119.99565 * 359.97438 * 5 4 3
7 7 C 1.37872 * 120.00538 * 180.02562 * 5 4 3
8 8 N 1.31520 * 119.99738 * 359.97438 * 7 5 4
9 9 Si 1.86793 * 120.00516 * 179.97438 * 7 5 4
10 10 H 1.48497 * 109.47526 * 59.99203 * 9 7 5
11 11 H 1.48497 * 109.47413 * 179.97438 * 9 7 5
12 12 H 1.48506 * 109.47012 * 299.99744 * 9 7 5
13 13 S 1.65603 * 120.00408 * 94.99749 * 3 2 1
14 14 O 1.42105 * 106.39911 * 336.46095 * 13 3 2
15 15 O 1.42099 * 106.40509 * 203.54428 * 13 3 2
16 16 N 1.65602 * 107.21768 * 89.99874 * 13 3 2
17 17 C 1.46716 * 126.59628 * 90.02994 * 16 13 3
18 18 C 1.50609 * 107.68745 * 179.73591 * 17 16 13
19 19 N 1.32596 * 132.04136 * 179.97438 * 18 17 16
20 20 C 1.31772 * 120.84849 * 179.97438 * 19 18 17
21 21 C 1.50703 * 119.04371 * 180.02562 * 20 19 18
22 22 N 1.31798 * 121.91442 * 0.04124 * 20 19 18
23 23 C 1.32865 * 120.67458 * 359.97438 * 22 20 19
24 24 O 1.35519 * 120.60096 * 179.97438 * 23 22 20
25 25 C 1.37879 * 108.83363 * 359.97438 * 18 17 16
26 26 C 1.46734 * 126.59447 * 269.71239 * 16 13 3
27 27 H 1.09002 * 109.47054 * 179.97438 * 1 2 3
28 28 H 1.08999 * 109.47408 * 300.00136 * 1 2 3
29 29 H 1.09010 * 109.47185 * 60.00480 * 1 2 3
30 30 H 1.08999 * 109.47408 * 239.99864 * 2 1 3
31 31 H 1.09001 * 109.46988 * 119.99331 * 2 1 3
32 32 H 1.09002 * 109.46697 * 34.99801 * 4 3 2
33 33 H 1.08992 * 109.47372 * 154.99802 * 4 3 2
34 34 H 0.96992 * 120.00272 * 180.02562 * 8 7 5
35 35 H 1.09007 * 109.81100 * 299.27962 * 17 16 13
36 36 H 1.08998 * 109.81386 * 60.18966 * 17 16 13
37 37 H 1.09001 * 109.47149 * 269.99606 * 21 20 19
38 38 H 1.08996 * 109.47426 * 29.99521 * 21 20 19
39 39 H 1.09003 * 109.47223 * 149.99993 * 21 20 19
40 40 H 0.96696 * 114.00147 * 270.02522 * 24 23 22
41 41 H 1.08995 * 109.82581 * 299.78597 * 26 16 13
42 42 H 1.09004 * 109.82703 * 60.74205 * 26 16 13
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 7 2.0182 1.3812 0.0000
4 6 2.1582 2.1087 -1.2639
5 6 3.4947 1.7889 -1.8823
6 1 4.1723 1.1117 -1.3835
7 6 3.8530 2.3614 -3.0843
8 7 3.0281 3.1864 -3.6915
9 14 5.5099 1.9654 -3.8505
10 1 5.6005 0.5057 -4.1073
11 1 5.6518 2.7027 -5.1316
12 1 6.5948 2.3727 -2.9217
13 16 2.4121 2.1203 1.4287
14 8 1.6867 1.4416 2.4448
15 8 2.3054 3.5187 1.1998
16 7 4.0143 1.8139 1.7138
17 6 5.1522 2.6311 1.2781
18 6 6.4096 1.9652 1.7719
19 7 7.6904 2.2870 1.6528
20 6 8.6294 1.5301 2.1836
21 6 10.0723 1.9346 2.0240
22 7 8.3434 0.4295 2.8499
23 6 7.0825 0.0426 3.0104
24 8 6.7901 -1.0896 3.6953
25 6 6.0662 0.8217 2.4616
26 6 4.5687 0.6761 2.4563
27 1 -0.3633 -1.0277 -0.0005
28 1 -0.3634 0.5138 0.8899
29 1 -0.3634 0.5138 -0.8901
30 1 1.8933 -0.5138 -0.8899
31 1 1.8933 -0.5137 0.8901
32 1 1.3617 1.8097 -1.9453
33 1 2.0921 3.1802 -1.0756
34 1 3.2799 3.5889 -4.5372
35 1 5.1688 2.6911 0.1898
36 1 5.0726 3.6317 1.7030
37 1 10.4758 1.4899 1.1143
38 1 10.1402 3.0205 1.9586
39 1 10.6447 1.5858 2.8836
40 1 6.7531 -1.8837 3.1449
41 1 4.1932 0.6842 3.4795
42 1 4.2894 -0.2566 1.9662
RHF calculation, no. of doubly occupied orbitals= 61
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
ZINC001364956014.mol2 42
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Sat Apr 11 2020 06:30:48
Heat of formation + Delta-G solvation = -50.588140 kcal
Electronic energy + Delta-G solvation = -29062.395123 eV
Core-core repulsion = 24977.474058 eV
Total energy + Delta-G solvation = -4084.921065 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 342.119 amu
Computer time = 0.61 seconds
Orbital eigenvalues (eV)
-41.70558 -38.04621 -37.66829 -36.85651 -36.14142 -35.39653 -33.13409 -32.80525
-32.17256 -30.04478 -29.49064 -28.03725 -26.70682 -24.85611 -23.22708 -22.35941
-22.22296 -21.75070 -19.20739 -18.75102 -17.99458 -17.21494 -16.76571 -16.41061
-16.26610 -16.06282 -15.29755 -15.16831 -14.62149 -14.46368 -14.16364 -14.00613
-13.49454 -13.41003 -13.03977 -12.94801 -12.74249 -12.52528 -12.44796 -12.17749
-12.16790 -12.09495 -11.82187 -11.78847 -11.64194 -11.47663 -11.12627 -11.04498
-10.82837 -10.62763 -10.56833 -10.49134 -10.15713 -9.88686 -9.64945 -9.43048
-8.64563 -8.56742 -8.19654 -6.19361 -4.27048 0.62345 0.78263 0.95472
3.03248 3.18010 3.20506 3.26904 3.28632 3.42630 3.52209 3.92416
4.07375 4.23568 4.29131 4.57671 4.84409 4.90881 5.14624 5.19349
5.26015 5.35875 5.39741 5.43848 5.54030 5.64386 5.68802 5.69675
5.71148 5.85781 5.99550 6.10138 6.12551 6.22591 6.28943 6.57682
6.61689 6.74507 7.12072 7.25674 7.32859 7.53739 7.76631 7.90162
8.05489 8.77347 9.39719 10.88418
Molecular weight = 342.12amu
Principal moments of inertia in cm(-1)
A = 0.009450 B = 0.005421 C = 0.003991
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2962.313493 B = 5163.767812 C = 7014.890914
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.170 4.170
2 C 0.129 3.871
3 N -0.987 5.987
4 C 0.244 3.756
5 C -0.545 4.545
6 H 0.060 0.940
7 C 0.068 3.932
8 N -0.886 5.886
9 Si 0.889 3.111
10 H -0.278 1.278
11 H -0.285 1.285
12 H -0.273 1.273
13 S 2.804 3.196
14 O -0.984 6.984
15 O -0.964 6.964
16 N -1.015 6.015
17 C 0.170 3.830
18 C 0.198 3.802
19 N -0.508 5.508
20 C 0.344 3.656
21 C -0.083 4.083
22 N -0.538 5.538
23 C 0.385 3.615
24 O -0.473 6.473
25 C -0.235 4.235
26 C 0.186 3.814
27 H 0.059 0.941
28 H 0.055 0.945
29 H 0.061 0.939
30 H 0.081 0.919
31 H 0.062 0.938
32 H 0.041 0.959
33 H 0.052 0.948
34 H 0.266 0.734
35 H 0.121 0.879
36 H 0.101 0.899
37 H 0.089 0.911
38 H 0.090 0.910
39 H 0.087 0.913
40 H 0.408 0.592
41 H 0.089 0.911
42 H 0.082 0.918
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 6.722 -7.145 10.152 14.117
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 -0.229 4.229
2 C 0.002 3.998
3 N -0.829 5.829
4 C 0.122 3.878
5 C -0.584 4.584
6 H 0.079 0.921
7 C -0.136 4.136
8 N -0.523 5.523
9 Si 0.717 3.283
10 H -0.203 1.203
11 H -0.210 1.210
12 H -0.199 1.199
13 S 2.813 3.187
14 O -0.969 6.969
15 O -0.948 6.948
16 N -0.851 5.851
17 C 0.043 3.957
18 C 0.051 3.949
19 N -0.224 5.224
20 C 0.078 3.922
21 C -0.141 4.141
22 N -0.263 5.263
23 C 0.197 3.803
24 O -0.281 6.281
25 C -0.242 4.242
26 C 0.059 3.941
27 H 0.078 0.922
28 H 0.074 0.926
29 H 0.081 0.919
30 H 0.099 0.901
31 H 0.080 0.920
32 H 0.059 0.941
33 H 0.070 0.930
34 H 0.076 0.924
35 H 0.139 0.861
36 H 0.119 0.881
37 H 0.107 0.893
38 H 0.109 0.891
39 H 0.106 0.894
40 H 0.268 0.732
41 H 0.107 0.893
42 H 0.100 0.900
Dipole moment (debyes) X Y Z Total
from point charges 6.876 -5.910 10.912 14.187
hybrid contribution 0.414 -1.206 -1.102 1.686
sum 7.290 -7.116 9.810 14.143
Atomic orbital electron populations
1.22203 0.96652 1.01544 1.02515 1.21020 0.93884 0.82717 1.02150
1.57827 1.77516 1.23212 1.24315 1.19247 0.97448 0.92283 0.78835
1.21469 1.02251 1.28381 1.06326 0.92147 1.24925 0.97129 0.94703
0.96803 1.69910 1.35932 1.29404 1.17077 0.86697 0.84263 0.78455
0.78906 1.20329 1.21020 1.19854 1.01422 0.70919 0.73491 0.72883
1.93561 1.68995 1.76554 1.57752 1.93599 1.84924 1.30345 1.85956
1.59236 1.23297 1.34271 1.68330 1.19940 0.79312 0.93736 1.02679
1.21895 0.92313 0.91157 0.89526 1.67520 0.99732 1.32996 1.22177
1.23069 0.96793 0.84865 0.87521 1.20597 0.86434 1.03206 1.03897
1.67910 1.20781 1.18852 1.18780 1.18711 0.86387 0.88089 0.87070
1.84703 1.90730 1.16369 1.36291 1.22071 0.98204 1.00669 1.03231
1.19604 0.87105 0.89921 0.97497 0.92215 0.92569 0.91950 0.90074
0.91970 0.94067 0.92987 0.92386 0.86121 0.88093 0.89256 0.89116
0.89437 0.73234 0.89313 0.89990
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 -0.17 -2.52 10.24 37.15 0.38 -2.13 16
2 C 0.13 2.08 6.06 -4.04 -0.02 2.06 16
3 N -0.99 -19.17 2.83 -115.67 -0.33 -19.50 16
4 C 0.24 5.72 5.44 -5.19 -0.03 5.69 16
5 C -0.55 -13.52 9.00 -34.44 -0.31 -13.83 16
6 H 0.06 1.45 7.81 -52.48 -0.41 1.04 16
7 C 0.07 1.78 5.46 -17.82 -0.10 1.68 16
8 N -0.89 -24.43 13.29 55.43 0.74 -23.70 16
9 Si 0.89 20.17 29.54 -169.99 -5.02 15.15 16
10 H -0.28 -6.23 7.11 56.52 0.40 -5.82 16
11 H -0.28 -6.47 7.11 56.52 0.40 -6.07 16
12 H -0.27 -6.15 7.11 56.52 0.40 -5.74 16
13 S 2.80 53.37 6.34 -107.50 -0.68 52.69 16
14 O -0.98 -18.89 16.74 -57.17 -0.96 -19.85 16
15 O -0.96 -21.36 16.32 -57.17 -0.93 -22.30 16
16 N -1.01 -16.84 3.78 -116.78 -0.44 -17.28 16
17 C 0.17 2.83 7.03 -5.12 -0.04 2.79 16
18 C 0.20 3.13 7.45 -82.44 -0.61 2.52 16
19 N -0.51 -7.93 10.34 -7.14 -0.07 -8.00 16
20 C 0.34 4.71 7.64 -157.21 -1.20 3.51 16
21 C -0.08 -0.78 10.32 36.01 0.37 -0.40 16
22 N -0.54 -7.48 10.36 -10.78 -0.11 -7.59 16
23 C 0.39 5.13 7.84 -16.70 -0.13 5.00 16
24 O -0.47 -4.98 13.58 -18.25 -0.25 -5.22 16
25 C -0.23 -3.35 6.24 -104.47 -0.65 -4.00 16
26 C 0.19 2.56 7.03 -5.18 -0.04 2.53 16
27 H 0.06 0.72 8.14 -51.93 -0.42 0.30 16
28 H 0.06 0.86 8.14 -51.93 -0.42 0.44 16
29 H 0.06 0.96 8.14 -51.92 -0.42 0.54 16
30 H 0.08 1.31 8.11 -51.93 -0.42 0.89 16
31 H 0.06 0.88 7.61 -51.93 -0.40 0.48 16
32 H 0.04 1.01 8.11 -51.93 -0.42 0.59 16
33 H 0.05 1.35 6.91 -51.93 -0.36 0.99 16
34 H 0.27 7.01 8.31 -40.82 -0.34 6.67 16
35 H 0.12 2.23 7.75 -51.93 -0.40 1.83 16
36 H 0.10 1.58 8.14 -51.93 -0.42 1.15 16
37 H 0.09 0.73 8.14 -51.93 -0.42 0.31 16
38 H 0.09 0.77 8.14 -51.93 -0.42 0.35 16
39 H 0.09 0.69 8.14 -51.93 -0.42 0.27 16
40 H 0.41 2.20 9.06 45.56 0.41 2.61 16
41 H 0.09 1.14 8.14 -51.93 -0.42 0.72 16
42 H 0.08 0.98 8.14 -51.93 -0.42 0.56 16
LS Contribution 371.12 15.07 5.59 5.59
Total: -1.00 -32.73 371.12 -9.78 -42.51
By element:
Atomic # 1 Polarization: 7.02 SS G_CDS: -4.94 Total: 2.08 kcal
Atomic # 6 Polarization: 7.79 SS G_CDS: -2.38 Total: 5.41 kcal
Atomic # 7 Polarization: -75.85 SS G_CDS: -0.22 Total: -76.07 kcal
Atomic # 8 Polarization: -45.23 SS G_CDS: -2.14 Total: -47.37 kcal
Atomic # 14 Polarization: 20.17 SS G_CDS: -5.02 Total: 15.15 kcal
Atomic # 16 Polarization: 53.37 SS G_CDS: -0.68 Total: 52.69 kcal
Total LS contribution 5.59 Total: 5.59 kcal
Total: -32.73 -9.78 -42.51 kcal
The number of atoms in the molecule is 42
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.
ZINC001364956014.mol2 42
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 -8.078 kcal
(2) G-P(sol) polarization free energy of solvation -32.730 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -40.809 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -9.780 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -42.510 kcal
(6) G-S(sol) free energy of system = (1) + (5) -50.588 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.61 seconds