Wall clock time and date at job start Tue Mar 31 2020 14:39:09
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
* 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
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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 1.30829 * 1
3 3 Si 1.86799 * 120.00248 * 2 1
4 4 H 1.48508 * 109.46885 * 270.00079 * 3 2 1
5 5 H 1.48500 * 109.47099 * 29.99739 * 3 2 1
6 6 H 1.48500 * 109.47430 * 150.00174 * 3 2 1
7 7 C 1.39936 * 119.99965 * 179.97438 * 2 1 3
8 8 H 1.08001 * 119.99898 * 189.47689 * 7 2 1
9 9 C 1.41409 * 120.00094 * 9.47963 * 7 2 1
10 10 C 1.40785 * 120.20699 * 209.32852 * 9 7 2
11 11 C 1.37658 * 119.89428 * 180.02562 * 10 9 7
12 12 C 1.38509 * 120.33126 * 0.02562 * 11 10 9
13 13 C 1.39319 * 120.41737 * 359.97438 * 12 11 10
14 14 N 1.39711 * 119.94784 * 180.27894 * 13 12 11
15 15 C 1.39854 * 120.00164 * 317.53069 * 14 13 12
16 16 C 1.38908 * 120.05158 * 352.19006 * 15 14 13
17 17 C 1.38084 * 119.95076 * 179.97438 * 16 15 14
18 18 C 1.38501 * 120.05028 * 0.02562 * 17 16 15
19 19 F 1.35103 * 119.94689 * 179.97438 * 18 17 16
20 20 C 1.38444 * 120.09973 * 359.96371 * 18 17 16
21 21 C 1.38138 * 120.05140 * 359.77846 * 20 18 17
22 22 C 1.50697 * 120.02554 * 180.23666 * 21 20 18
23 23 F 1.39902 * 109.47072 * 0.25956 * 22 21 20
24 24 F 1.39900 * 109.46909 * 120.25421 * 22 21 20
25 25 F 1.39902 * 109.47457 * 240.25572 * 22 21 20
26 26 C 1.38332 * 120.09445 * 0.02562 * 13 12 11
27 27 H 0.97000 * 120.00009 * 359.97438 * 1 2 3
28 28 H 1.07995 * 120.05717 * 359.97438 * 10 9 7
29 29 H 1.07997 * 119.83343 * 179.97438 * 11 10 9
30 30 H 1.08001 * 119.79116 * 180.02562 * 12 11 10
31 31 H 0.97004 * 120.00020 * 137.53437 * 14 13 12
32 32 H 1.08004 * 120.02411 * 0.02562 * 16 15 14
33 33 H 1.08001 * 119.97860 * 180.02562 * 17 16 15
34 34 H 1.08004 * 119.97639 * 180.02562 * 20 18 17
35 35 H 1.08008 * 120.16137 * 179.97438 * 26 13 12
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 1.3083 0.0000 0.0000
3 14 2.2424 1.6177 0.0000
4 1 2.4898 2.0463 -1.4002
5 1 1.4398 2.6527 0.7000
6 1 3.5399 1.4401 0.7000
7 6 2.0080 -1.2119 0.0005
8 1 3.0769 -1.2182 0.1545
9 6 1.3154 -2.4283 -0.2006
10 6 1.7959 -3.6203 0.3741
11 6 1.1169 -4.8009 0.1736
12 6 -0.0374 -4.8227 -0.5916
13 6 -0.5248 -3.6510 -1.1665
14 7 -1.6933 -3.6832 -1.9318
15 6 -1.9042 -4.7233 -2.8427
16 6 -0.8884 -5.6332 -3.1070
17 6 -1.0991 -6.6596 -4.0063
18 6 -2.3219 -6.7819 -4.6451
19 9 -2.5256 -7.7867 -5.5250
20 6 -3.3358 -5.8764 -4.3830
21 6 -3.1313 -4.8512 -3.4801
22 6 -4.2372 -3.8690 -3.1913
23 9 -5.3662 -4.2024 -3.9472
24 9 -4.5573 -3.9142 -1.8302
25 9 -3.8147 -2.5786 -3.5284
26 6 0.1436 -2.4549 -0.9764
27 1 -0.4850 0.8400 0.0004
28 1 2.6961 -3.6088 0.9705
29 1 1.4865 -5.7148 0.6146
30 1 -0.5635 -5.7538 -0.7428
31 1 -2.3583 -2.9842 -1.8313
32 1 0.0652 -5.5383 -2.6088
33 1 -0.3098 -7.3675 -4.2119
34 1 -4.2887 -5.9740 -4.8820
35 1 -0.2330 -1.5460 -1.4220
RHF calculation, no. of doubly occupied orbitals= 58
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)
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).
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
ZINC001175103086.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 14:39:09
Heat of formation + Delta-G solvation = -149.904224 kcal
Electronic energy + Delta-G solvation = -27019.126302 eV
Core-core repulsion = 22480.952924 eV
Total energy + Delta-G solvation = -4538.173378 eV
No. of doubly occupied orbitals = 58
Molecular weight
(most abundant/longest-lived isotopes) = 325.078 amu
Computer time = 0.60 seconds
Orbital eigenvalues (eV)
-50.13204 -48.72311 -47.65933 -47.54526 -39.81685 -37.75035 -35.08370 -33.53170
-32.05688 -29.90006 -29.71648 -27.55392 -25.99285 -25.42309 -22.83934 -22.11981
-21.09330 -20.38823 -18.65544 -18.52377 -18.41777 -17.70155 -17.00822 -16.24190
-16.16091 -15.57207 -15.45698 -14.91628 -14.83489 -14.50126 -14.44103 -14.06174
-14.01579 -13.79101 -13.72144 -13.69555 -13.17343 -12.96578 -12.90695 -12.65831
-12.50451 -12.30017 -11.79764 -11.38988 -11.24006 -11.03750 -10.96746 -10.67527
-10.20372 -9.92567 -9.71820 -9.35640 -9.32150 -8.12456 -7.55198 -6.98526
-6.70590 -4.55811 0.90859 1.27286 2.58867 2.70270 2.78736 3.01330
3.03903 3.08093 3.47682 3.54663 3.77284 3.84593 4.01009 4.45302
4.47975 4.51848 4.76276 4.91913 5.30065 5.38694 5.47137 5.67701
5.94814 6.02509 6.12540 6.22922 6.31296 6.54568 6.70266 6.87110
6.88265 7.04063 7.11460 7.42467 7.59898 7.70593 7.88644 8.00629
8.14674 8.47703 8.73236 8.75742 10.09092
Molecular weight = 325.08amu
Principal moments of inertia in cm(-1)
A = 0.014901 B = 0.003966 C = 0.003410
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1878.591092 B = 7058.211275 C = 8208.586443
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.800 5.800
2 C 0.073 3.927
3 Si 0.913 3.087
4 H -0.268 1.268
5 H -0.277 1.277
6 H -0.262 1.262
7 C -0.460 4.460
8 H 0.080 0.920
9 C 0.124 3.876
10 C -0.225 4.225
11 C -0.079 4.079
12 C -0.259 4.259
13 C 0.146 3.854
14 N -0.663 5.663
15 C 0.265 3.735
16 C -0.159 4.159
17 C -0.076 4.076
18 C 0.025 3.975
19 F -0.144 7.144
20 C -0.063 4.063
21 C -0.252 4.252
22 C 0.515 3.485
23 F -0.179 7.179
24 F -0.175 7.175
25 F -0.176 7.176
26 C -0.171 4.171
27 H 0.281 0.719
28 H 0.096 0.904
29 H 0.095 0.905
30 H 0.097 0.903
31 H 0.406 0.594
32 H 0.162 0.838
33 H 0.141 0.859
34 H 0.144 0.856
35 H 0.126 0.874
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -5.498 -7.337 -6.635 11.318
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 -0.426 5.426
2 C -0.144 4.144
3 Si 0.738 3.262
4 H -0.193 1.193
5 H -0.202 1.202
6 H -0.186 1.186
7 C -0.490 4.490
8 H 0.098 0.902
9 C 0.120 3.880
10 C -0.245 4.245
11 C -0.098 4.098
12 C -0.280 4.280
13 C 0.054 3.946
14 N -0.281 5.281
15 C 0.156 3.844
16 C -0.181 4.181
17 C -0.096 4.096
18 C 0.003 3.997
19 F -0.123 7.123
20 C -0.083 4.083
21 C -0.259 4.259
22 C 0.460 3.540
23 F -0.160 7.160
24 F -0.156 7.156
25 F -0.158 7.158
26 C -0.192 4.192
27 H 0.092 0.908
28 H 0.114 0.886
29 H 0.113 0.887
30 H 0.115 0.885
31 H 0.243 0.757
32 H 0.179 0.821
33 H 0.159 0.841
34 H 0.162 0.838
35 H 0.144 0.856
Dipole moment (debyes) X Y Z Total
from point charges -5.593 -7.137 -6.525 11.171
hybrid contribution -0.320 1.109 0.025 1.155
sum -5.913 -6.028 -6.500 10.656
Atomic orbital electron populations
1.69758 1.07490 1.29293 1.36078 1.25912 0.94876 1.01394 0.92200
0.86224 0.80336 0.80341 0.79327 1.19281 1.20228 1.18571 1.19604
0.95800 0.90237 1.43321 0.90174 1.17432 0.90743 0.92281 0.87495
1.21108 1.03149 0.93422 1.06771 1.20397 0.95079 0.96712 0.97629
1.20304 1.02049 0.96136 1.09471 1.17579 0.86977 0.95414 0.94660
1.42579 1.21746 1.24961 1.38780 1.17587 0.91188 0.88547 0.87045
1.21160 1.00348 0.95356 1.01209 1.21139 0.95706 0.98116 0.94658
1.17150 0.95590 0.90372 0.96540 1.91466 1.95574 1.58414 1.66856
1.20507 0.99326 0.92335 0.96086 1.19075 0.93890 1.02757 1.10211
1.18107 0.81484 0.80046 0.74326 1.93138 1.54267 1.92302 1.76304
1.93239 1.93461 1.96394 1.32531 1.93229 1.89771 1.40671 1.92098
1.21283 0.98592 0.95642 1.03692 0.90778 0.88576 0.88708 0.88470
0.75725 0.82070 0.84142 0.83848 0.85582
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 16.
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 -0.80 -19.73 10.81 55.55 0.60 -19.13 16
2 C 0.07 1.75 5.27 -17.34 -0.09 1.66 16
3 Si 0.91 17.97 29.57 -169.99 -5.03 12.94 16
4 H -0.27 -5.23 7.11 56.52 0.40 -4.83 16
5 H -0.28 -5.38 7.11 56.52 0.40 -4.98 16
6 H -0.26 -5.08 7.11 56.52 0.40 -4.68 16
7 C -0.46 -11.47 9.06 -37.74 -0.34 -11.81 16
8 H 0.08 1.92 7.86 -52.49 -0.41 1.50 16
9 C 0.12 3.06 5.55 -106.85 -0.59 2.46 16
10 C -0.22 -5.04 9.79 -38.83 -0.38 -5.42 16
11 C -0.08 -1.60 10.01 -39.69 -0.40 -2.00 16
12 C -0.26 -5.16 7.40 -39.08 -0.29 -5.45 16
13 C 0.15 3.09 5.83 -83.83 -0.49 2.60 16
14 N -0.66 -12.29 5.19 -8.44 -0.04 -12.33 16
15 C 0.26 4.33 6.31 -83.71 -0.53 3.80 16
16 C -0.16 -2.40 8.05 -39.39 -0.32 -2.71 16
17 C -0.08 -0.98 10.02 -39.54 -0.40 -1.38 16
18 C 0.02 0.32 7.30 -39.41 -0.29 0.04 16
19 F -0.14 -1.88 17.27 2.25 0.04 -1.85 16
20 C -0.06 -0.83 9.40 -39.54 -0.37 -1.20 16
21 C -0.25 -3.72 5.39 -104.42 -0.56 -4.29 16
22 C 0.51 7.51 2.80 36.00 0.10 7.62 16
23 F -0.18 -2.39 15.97 2.25 0.04 -2.35 16
24 F -0.17 -2.71 16.41 2.25 0.04 -2.67 16
25 F -0.18 -2.72 16.10 2.25 0.04 -2.69 16
26 C -0.17 -4.09 8.57 -38.67 -0.33 -4.42 16
27 H 0.28 6.37 8.30 -40.82 -0.34 6.04 16
28 H 0.10 2.03 8.06 -52.49 -0.42 1.61 16
29 H 0.09 1.64 8.06 -52.49 -0.42 1.22 16
30 H 0.10 1.77 6.71 -52.49 -0.35 1.42 16
31 H 0.41 7.44 6.31 -40.82 -0.26 7.19 16
32 H 0.16 2.56 5.42 -52.48 -0.28 2.28 16
33 H 0.14 1.44 8.06 -52.49 -0.42 1.02 16
34 H 0.14 1.61 7.15 -52.48 -0.38 1.24 16
35 H 0.13 3.19 6.22 -52.48 -0.33 2.86 16
LS Contribution 315.54 15.07 4.76 4.76
Total: -1.00 -24.70 315.54 -7.25 -31.95
By element:
Atomic # 1 Polarization: 14.28 SS G_CDS: -2.41 Total: 11.87 kcal
Atomic # 6 Polarization: -15.23 SS G_CDS: -5.28 Total: -20.50 kcal
Atomic # 7 Polarization: -32.02 SS G_CDS: 0.56 Total: -31.46 kcal
Atomic # 9 Polarization: -9.70 SS G_CDS: 0.15 Total: -9.55 kcal
Atomic # 14 Polarization: 17.97 SS G_CDS: -5.03 Total: 12.94 kcal
Total LS contribution 4.76 Total: 4.76 kcal
Total: -24.70 -7.25 -31.95 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.
ZINC001175103086.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 -117.953 kcal
(2) G-P(sol) polarization free energy of solvation -24.698 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -142.651 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -7.253 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -31.951 kcal
(6) G-S(sol) free energy of system = (1) + (5) -149.904 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.60 seconds