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 N
2 2 C 1.31513 * 1
3 3 Si 1.86802 * 120.00425 * 2 1
4 4 H 1.48505 * 109.46809 * 270.00513 * 3 2 1
5 5 H 1.48497 * 109.46802 * 29.99793 * 3 2 1
6 6 H 1.48490 * 109.47397 * 150.00270 * 3 2 1
7 7 C 1.37887 * 119.99751 * 180.02562 * 2 1 3
8 8 H 1.07998 * 120.00130 * 0.02562 * 7 2 1
9 9 C 1.50703 * 119.99743 * 179.97438 * 7 2 1
10 10 C 1.52998 * 109.46962 * 180.02562 * 9 7 2
11 11 C 1.52994 * 109.47095 * 179.97438 * 10 9 7
12 12 N 1.46506 * 109.47113 * 179.97438 * 11 10 9
13 13 S 1.65598 * 119.99836 * 165.00286 * 12 11 10
14 14 O 1.42105 * 104.27847 * 308.92659 * 13 12 11
15 15 O 1.42103 * 104.27538 * 181.07116 * 13 12 11
16 16 C 1.81397 * 104.45365 * 64.99857 * 13 12 11
17 17 C 1.53002 * 109.47290 * 179.97438 * 16 13 12
18 18 C 1.50700 * 109.46835 * 180.02562 * 17 16 13
19 19 C 1.38256 * 119.99693 * 97.31776 * 18 17 16
20 20 C 1.38219 * 119.99704 * 179.72185 * 19 18 17
21 21 C 1.38259 * 119.99729 * 0.27745 * 20 19 18
22 22 C 1.38206 * 120.00459 * 359.97091 * 21 20 19
23 23 C 1.38214 * 119.99999 * 277.50371 * 18 17 16
24 24 N 1.48017 * 120.00039 * 0.04239 * 23 18 17
25 25 O 1.21804 * 119.99570 * 186.24778 * 24 23 18
26 26 O 1.21799 * 120.00050 * 6.25535 * 24 23 18
27 27 H 0.96996 * 119.99374 * 359.97438 * 1 2 3
28 28 H 1.08999 * 109.47190 * 60.00263 * 9 7 2
29 29 H 1.09001 * 109.47208 * 300.00237 * 9 7 2
30 30 H 1.08999 * 109.47218 * 59.99955 * 10 9 7
31 31 H 1.09001 * 109.47087 * 299.99986 * 10 9 7
32 32 H 1.08999 * 109.47091 * 59.99918 * 11 10 9
33 33 H 1.08993 * 109.47460 * 299.99971 * 11 10 9
34 34 H 0.96996 * 119.99980 * 344.99511 * 12 11 10
35 35 H 1.09004 * 109.47113 * 60.00039 * 16 13 12
36 36 H 1.09003 * 109.47225 * 300.00149 * 16 13 12
37 37 H 1.09004 * 109.46788 * 60.00113 * 17 16 13
38 38 H 1.08997 * 109.46961 * 300.00154 * 17 16 13
39 39 H 1.07997 * 120.00392 * 359.97438 * 19 18 17
40 40 H 1.07999 * 119.99803 * 180.24851 * 20 19 18
41 41 H 1.08002 * 119.99562 * 179.97438 * 21 20 19
42 42 H 1.08000 * 120.00541 * 179.97438 * 22 21 20
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 1.3151 0.0000 0.0000
3 14 2.2493 1.6177 0.0000
4 1 2.4967 2.0464 -1.4001
5 1 1.4467 2.6526 0.7000
6 1 3.5468 1.4401 0.6999
7 6 2.0045 -1.1942 -0.0005
8 1 1.4645 -2.1294 -0.0014
9 6 3.5115 -1.1942 -0.0011
10 6 4.0215 -2.6367 -0.0023
11 6 5.5514 -2.6367 -0.0035
12 7 6.0398 -4.0180 -0.0040
13 16 7.6215 -4.3368 -0.3764
14 8 7.8382 -3.6508 -1.6019
15 8 7.7206 -5.7524 -0.3019
16 6 8.5673 -3.5611 0.9631
17 6 10.0622 -3.7894 0.7305
18 6 10.8478 -3.1454 1.8437
19 6 11.2810 -3.9062 2.9137
20 6 12.0065 -3.3168 3.9319
21 6 12.2939 -1.9653 3.8831
22 6 11.8564 -1.2037 2.8160
23 6 11.1318 -1.7936 1.7968
24 7 10.6635 -0.9781 0.6537
25 8 11.0089 0.1856 0.5540
26 8 9.9328 -1.4708 -0.1870
27 1 -0.4849 0.8401 0.0004
28 1 3.8752 -0.6806 0.8888
29 1 3.8746 -0.6801 -0.8911
30 1 3.6578 -3.1499 -0.8924
31 1 3.6585 -3.1511 0.8875
32 1 5.9155 -2.1233 0.8864
33 1 5.9141 -2.1224 -0.8935
34 1 5.4366 -4.7457 0.2139
35 1 8.2766 -4.0030 1.9162
36 1 8.3612 -2.4909 0.9809
37 1 10.3531 -3.3478 -0.2227
38 1 10.2679 -4.8596 0.7130
39 1 11.0562 -4.9618 2.9520
40 1 12.3484 -3.9118 4.7658
41 1 12.8604 -1.5046 4.6789
42 1 12.0805 -0.1479 2.7781
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
ZINC000179546142.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 = -56.321616 kcal
Electronic energy + Delta-G solvation = -27419.083335 eV
Core-core repulsion = 23301.620897 eV
Total energy + Delta-G solvation = -4117.462438 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 342.113 amu
Computer time = 0.81 seconds
Orbital eigenvalues (eV)
-42.56897 -40.07412 -37.12839 -37.03740 -36.12850 -35.88074 -34.91242 -33.19781
-32.46773 -31.15578 -30.70060 -26.97042 -26.79023 -25.00941 -23.18774 -22.80076
-22.20660 -20.45249 -19.45773 -19.21184 -18.83287 -17.92052 -17.61388 -17.00975
-16.70349 -16.56396 -16.35382 -15.91678 -15.35505 -14.94516 -14.70662 -14.27190
-14.18879 -14.04878 -13.96295 -12.97008 -12.92098 -12.89030 -12.44747 -12.31642
-12.29888 -12.17595 -12.05810 -11.93349 -11.69009 -11.67173 -11.36505 -11.10936
-11.04028 -10.91914 -10.77061 -10.19520 -10.07709 -9.85253 -9.77229 -9.68604
-9.27720 -9.18874 -8.53463 -6.04227 -4.02757 -0.57954 0.15658 0.35410
0.93929 1.07092 2.63771 2.76098 3.33358 3.40554 3.43579 3.61045
3.74805 3.76855 4.04877 4.09922 4.24532 4.29670 4.32141 4.46103
4.55604 4.58000 4.88948 4.97078 5.09300 5.23165 5.24984 5.29784
5.36123 5.43323 5.45982 5.55778 5.71462 5.79624 5.97626 6.14865
6.44355 6.60519 6.79689 7.09152 7.25771 7.36337 7.38637 7.78123
8.52916 9.00264 9.58008 11.09120
Molecular weight = 342.11amu
Principal moments of inertia in cm(-1)
A = 0.011459 B = 0.002941 C = 0.002582
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2442.908893 B = 9518.862110 C =10839.929522
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.904 5.904
2 C 0.066 3.934
3 Si 0.880 3.120
4 H -0.275 1.275
5 H -0.288 1.288
6 H -0.265 1.265
7 C -0.521 4.521
8 H 0.072 0.928
9 C -0.015 4.015
10 C -0.107 4.107
11 C 0.107 3.893
12 N -1.115 6.115
13 S 2.616 3.384
14 O -0.938 6.938
15 O -0.965 6.965
16 C -0.627 4.627
17 C -0.089 4.089
18 C -0.006 4.006
19 C -0.118 4.118
20 C -0.064 4.064
21 C -0.122 4.122
22 C -0.052 4.052
23 C -0.043 4.043
24 N 0.025 4.975
25 O -0.158 6.158
26 O -0.148 6.148
27 H 0.263 0.737
28 H 0.017 0.983
29 H 0.017 0.983
30 H 0.064 0.936
31 H 0.061 0.939
32 H 0.057 0.943
33 H 0.081 0.919
34 H 0.417 0.583
35 H 0.132 0.868
36 H 0.136 0.864
37 H 0.117 0.883
38 H 0.097 0.903
39 H 0.150 0.850
40 H 0.145 0.855
41 H 0.148 0.852
42 H 0.155 0.845
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 29.450 -8.566 10.474 32.409
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 -0.542 5.542
2 C -0.135 4.135
3 Si 0.707 3.293
4 H -0.201 1.201
5 H -0.214 1.214
6 H -0.190 1.190
7 C -0.559 4.559
8 H 0.090 0.910
9 C -0.053 4.053
10 C -0.147 4.147
11 C -0.018 4.018
12 N -0.876 5.876
13 S 2.707 3.293
14 O -0.928 6.928
15 O -0.955 6.955
16 C -0.754 4.754
17 C -0.127 4.127
18 C -0.009 4.009
19 C -0.137 4.137
20 C -0.082 4.082
21 C -0.140 4.140
22 C -0.071 4.071
23 C -0.127 4.127
24 N 0.543 4.457
25 O -0.373 6.373
26 O -0.362 6.362
27 H 0.073 0.927
28 H 0.036 0.964
29 H 0.035 0.965
30 H 0.083 0.917
31 H 0.079 0.921
32 H 0.075 0.925
33 H 0.099 0.901
34 H 0.252 0.748
35 H 0.151 0.849
36 H 0.155 0.845
37 H 0.135 0.865
38 H 0.115 0.885
39 H 0.168 0.832
40 H 0.163 0.837
41 H 0.166 0.834
42 H 0.173 0.827
Dipole moment (debyes) X Y Z Total
from point charges 29.944 -9.145 10.218 32.934
hybrid contribution -0.060 1.346 0.632 1.488
sum 29.884 -7.799 10.850 32.735
Atomic orbital electron populations
1.69915 1.06330 1.26924 1.51080 1.25038 0.94744 0.99230 0.94504
0.86779 0.80278 0.83528 0.78714 1.20093 1.21438 1.18994 1.21108
0.89342 0.94517 1.50978 0.90980 1.19562 0.97383 0.91682 0.96660
1.21656 0.90167 1.00738 1.02102 1.21637 0.98735 0.79864 1.01574
1.55542 1.27890 1.15698 1.88439 1.04817 0.74095 0.74234 0.76189
1.93640 1.84612 1.75807 1.38762 1.93588 1.85935 1.28500 1.87525
1.30666 1.07002 1.16007 1.21750 1.20710 0.90905 1.02321 0.98790
1.19644 0.94331 0.90516 0.96366 1.21251 0.98666 1.01151 0.92608
1.21667 0.93708 0.95046 0.97788 1.21265 1.00733 0.93975 0.98072
1.21126 0.92752 1.02206 0.91035 1.21057 1.08477 0.91777 0.91344
1.43618 0.99294 1.01234 1.01560 1.94555 1.60390 1.00526 1.81864
1.94557 1.31921 1.74140 1.35609 0.92718 0.96442 0.96507 0.91692
0.92068 0.92485 0.90109 0.74821 0.84926 0.84547 0.86514 0.88493
0.83216 0.83744 0.83445 0.82744
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 -0.90 -27.93 13.96 55.43 0.77 -27.16 16
2 C 0.07 1.93 5.47 -17.82 -0.10 1.83 16
3 Si 0.88 21.79 27.47 -169.99 -4.67 17.12 16
4 H -0.28 -6.74 7.11 56.52 0.40 -6.34 16
5 H -0.29 -7.07 7.11 56.52 0.40 -6.67 16
6 H -0.27 -6.27 6.54 56.52 0.37 -5.90 16
7 C -0.52 -14.76 9.66 -34.43 -0.33 -15.10 16
8 H 0.07 2.18 7.99 -52.49 -0.42 1.76 16
9 C -0.01 -0.34 4.04 -27.88 -0.11 -0.45 16
10 C -0.11 -2.01 5.29 -26.74 -0.14 -2.15 16
11 C 0.11 1.63 6.13 -4.04 -0.02 1.60 16
12 N -1.12 -14.25 5.89 -10.61 -0.06 -14.32 16
13 S 2.62 32.45 5.46 -107.50 -0.59 31.86 16
14 O -0.94 -15.17 17.50 -57.54 -1.01 -16.18 16
15 O -0.97 -13.62 18.08 -57.54 -1.04 -14.66 16
16 C -0.63 -5.81 5.57 37.16 0.21 -5.61 16
17 C -0.09 -0.76 4.61 -27.88 -0.13 -0.89 16
18 C -0.01 -0.05 5.13 -104.62 -0.54 -0.59 16
19 C -0.12 -0.58 9.67 -39.58 -0.38 -0.96 16
20 C -0.06 -0.22 10.05 -39.58 -0.40 -0.62 16
21 C -0.12 -0.48 10.05 -39.59 -0.40 -0.88 16
22 C -0.05 -0.34 9.56 -39.58 -0.38 -0.72 16
23 C -0.04 -0.40 6.83 -79.95 -0.55 -0.95 16
24 N 0.03 0.31 4.45 33.96 0.15 0.46 16
25 O -0.16 -2.10 18.46 -29.46 -0.54 -2.64 16
26 O -0.15 -2.03 13.58 -29.46 -0.40 -2.43 16
27 H 0.26 7.61 8.31 -40.82 -0.34 7.27 16
28 H 0.02 0.40 7.20 -51.93 -0.37 0.02 16
29 H 0.02 0.39 7.57 -51.93 -0.39 -0.01 16
30 H 0.06 1.24 8.14 -51.93 -0.42 0.81 16
31 H 0.06 1.09 8.14 -51.93 -0.42 0.67 16
32 H 0.06 0.76 8.14 -51.93 -0.42 0.34 16
33 H 0.08 1.28 7.69 -51.93 -0.40 0.88 16
34 H 0.42 4.75 8.62 -34.47 -0.30 4.46 16
35 H 0.13 0.87 8.14 -51.92 -0.42 0.45 16
36 H 0.14 1.38 6.65 -51.92 -0.35 1.03 16
37 H 0.12 1.14 5.91 -51.93 -0.31 0.83 16
38 H 0.10 0.58 8.03 -51.93 -0.42 0.17 16
39 H 0.15 0.39 8.05 -52.49 -0.42 -0.03 16
40 H 0.14 0.08 8.06 -52.49 -0.42 -0.34 16
41 H 0.15 0.18 8.06 -52.49 -0.42 -0.24 16
42 H 0.15 0.86 7.62 -52.49 -0.40 0.46 16
LS Contribution 370.00 15.07 5.58 5.58
Total: -1.00 -37.64 370.00 -10.56 -48.20
By element:
Atomic # 1 Polarization: 5.11 SS G_CDS: -5.48 Total: -0.37 kcal
Atomic # 6 Polarization: -22.20 SS G_CDS: -3.27 Total: -25.47 kcal
Atomic # 7 Polarization: -41.87 SS G_CDS: 0.86 Total: -41.01 kcal
Atomic # 8 Polarization: -32.92 SS G_CDS: -2.99 Total: -35.91 kcal
Atomic # 14 Polarization: 21.79 SS G_CDS: -4.67 Total: 17.12 kcal
Atomic # 16 Polarization: 32.45 SS G_CDS: -0.59 Total: 31.86 kcal
Total LS contribution 5.58 Total: 5.58 kcal
Total: -37.64 -10.56 -48.20 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.
ZINC000179546142.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 -8.120 kcal
(2) G-P(sol) polarization free energy of solvation -37.644 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -45.764 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -10.558 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -48.202 kcal
(6) G-S(sol) free energy of system = (1) + (5) -56.322 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.81 seconds