Wall clock time and date at job start Mon Mar 30 2020 04:52:01
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 C
2 2 C 1.53005 * 1
3 3 N 1.46498 * 109.47520 * 2 1
4 4 C 1.36639 * 119.99819 * 85.88797 * 3 2 1
5 5 H 1.07999 * 119.99651 * 167.23494 * 4 3 2
6 6 C 1.39186 * 120.00131 * 347.23570 * 4 3 2
7 7 N 1.31277 * 119.99798 * 1.85628 * 6 4 3
8 8 Si 1.86796 * 119.99985 * 181.85584 * 6 4 3
9 9 H 1.48500 * 109.47258 * 89.99868 * 8 6 4
10 10 H 1.48494 * 109.47235 * 210.00253 * 8 6 4
11 11 H 1.48503 * 109.46925 * 330.00130 * 8 6 4
12 12 C 1.34774 * 119.99868 * 265.89634 * 3 2 1
13 13 O 1.21739 * 119.99679 * 185.20357 * 12 3 2
14 14 C 1.46419 * 120.00494 * 5.19456 * 12 3 2
15 15 C 1.50694 * 119.99935 * 101.09966 * 14 12 3
16 16 C 1.34842 * 120.00047 * 281.10803 * 14 12 3
17 17 C 1.47307 * 120.00109 * 352.87250 * 16 14 12
18 18 C 1.40201 * 120.95062 * 325.84106 * 17 16 14
19 19 C 1.37965 * 118.95878 * 179.72873 * 18 17 16
20 20 N 1.31903 * 120.93079 * 0.25002 * 19 18 17
21 21 C 1.31902 * 122.12447 * 359.97438 * 20 19 18
22 22 C 1.37965 * 120.92775 * 0.02562 * 21 20 19
23 23 H 1.08994 * 109.47473 * 180.02562 * 1 2 3
24 24 H 1.08996 * 109.46859 * 300.00297 * 1 2 3
25 25 H 1.09006 * 109.46609 * 59.99988 * 1 2 3
26 26 H 1.09004 * 109.46555 * 239.99794 * 2 1 3
27 27 H 1.08999 * 109.46578 * 120.00424 * 2 1 3
28 28 H 0.97001 * 119.99801 * 179.97438 * 7 6 4
29 29 H 1.09000 * 109.47422 * 264.93801 * 15 14 12
30 30 H 1.09004 * 109.47126 * 24.93491 * 15 14 12
31 31 H 1.08998 * 109.47322 * 144.93663 * 15 14 12
32 32 H 1.08001 * 119.99846 * 172.87337 * 16 14 12
33 33 H 1.08000 * 120.52176 * 0.02562 * 18 17 16
34 34 H 1.08004 * 119.53739 * 180.22918 * 19 18 17
35 35 H 1.08004 * 119.53418 * 180.02562 * 21 20 19
36 36 H 1.08004 * 120.51567 * 180.02562 * 22 21 20
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 1.5300 0.0000 0.0000
3 7 2.0185 1.3812 0.0000
4 6 2.1662 2.0535 1.1803
5 1 2.7132 2.9844 1.2066
6 6 1.6119 1.5387 2.3486
7 7 0.9784 0.3892 2.3235
8 14 1.7693 2.4836 3.9523
9 1 0.6113 3.4011 4.1020
10 1 1.7944 1.5286 5.0891
11 1 3.0275 3.2723 3.9406
12 6 2.3219 1.9886 -1.1642
13 8 2.8166 3.1009 -1.1595
14 6 2.0567 1.3107 -2.4346
15 6 0.8421 1.6800 -3.2466
16 6 2.8993 0.3559 -2.8780
17 6 4.1654 0.1035 -2.1686
18 6 4.8707 1.1500 -1.5579
19 6 6.0495 0.8662 -0.8995
20 7 6.5156 -0.3665 -0.8446
21 6 5.8872 -1.3797 -1.4086
22 6 4.7017 -1.1893 -2.0882
23 1 -0.3634 -1.0276 0.0005
24 1 -0.3633 0.5139 0.8899
25 1 -0.3633 0.5139 -0.8901
26 1 1.8933 -0.5139 -0.8900
27 1 1.8933 -0.5139 0.8900
28 1 0.5924 0.0303 3.1378
29 1 0.0263 0.9964 -3.0115
30 1 0.5416 2.7001 -3.0074
31 1 1.0798 1.6106 -4.3081
32 1 2.6459 -0.2238 -3.7533
33 1 4.4948 2.1617 -1.5981
34 1 6.5985 1.6647 -0.4226
35 1 6.3065 -2.3725 -1.3375
36 1 4.1924 -2.0238 -2.5472
RHF calculation, no. of doubly occupied orbitals= 48
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).
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
ZINC000846839118.mol2 36
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Mon Mar 30 2020 04:52:01
Heat of formation + Delta-G solvation = 37.541521 kcal
Electronic energy + Delta-G solvation = -20092.753511 eV
Core-core repulsion = 17157.330852 eV
Total energy + Delta-G solvation = -2935.422660 eV
No. of doubly occupied orbitals = 48
Molecular weight
(most abundant/longest-lived isotopes) = 260.127 amu
Computer time = 0.35 seconds
Orbital eigenvalues (eV)
-39.87398 -38.62096 -35.35835 -34.53770 -31.82587 -31.39590 -30.72194 -29.44284
-26.88336 -25.36116 -23.22578 -22.53305 -22.13916 -21.06506 -18.07209 -16.99935
-16.54457 -15.85805 -15.37422 -15.25675 -14.34473 -14.16816 -14.08425 -13.41322
-13.15547 -13.00827 -12.93423 -12.76551 -12.68902 -11.82773 -11.70896 -11.53610
-11.39821 -11.10964 -10.88994 -10.70271 -10.37645 -10.15988 -10.12311 -9.74303
-9.06512 -8.86500 -8.69312 -8.57398 -7.97363 -7.73300 -6.27717 -3.89681
1.23173 1.63435 2.60254 3.11318 3.21308 3.26711 3.74785 4.07883
4.32649 4.82562 4.87104 4.95643 5.08787 5.24305 5.48797 5.50238
5.63619 5.77383 5.81482 5.88667 6.08115 6.13972 6.25818 6.34105
6.38904 6.63806 6.66997 6.74216 6.76922 6.87383 7.02719 7.19685
7.34388 7.53338 7.78482 8.02798 8.41068 8.46242 9.09903 9.36758
9.89677 10.59353
Molecular weight = 260.13amu
Principal moments of inertia in cm(-1)
A = 0.017347 B = 0.008914 C = 0.007416
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1613.740149 B = 3140.319404 C = 3774.542739
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.142 4.142
2 C 0.120 3.880
3 N -0.420 5.420
4 C -0.295 4.295
5 H 0.104 0.896
6 C 0.024 3.976
7 N -0.872 5.872
8 Si 0.931 3.069
9 H -0.277 1.277
10 H -0.283 1.283
11 H -0.269 1.269
12 C 0.467 3.533
13 O -0.597 6.597
14 C -0.085 4.085
15 C -0.108 4.108
16 C -0.137 4.137
17 C -0.006 4.006
18 C -0.157 4.157
19 C 0.099 3.901
20 N -0.494 5.494
21 C 0.087 3.913
22 C -0.169 4.169
23 H 0.033 0.967
24 H 0.094 0.906
25 H 0.015 0.985
26 H 0.031 0.969
27 H 0.111 0.889
28 H 0.266 0.734
29 H 0.074 0.926
30 H 0.071 0.929
31 H 0.067 0.933
32 H 0.127 0.873
33 H 0.162 0.838
34 H 0.151 0.849
35 H 0.148 0.852
36 H 0.129 0.871
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 1.011 -4.558 -7.428 8.773
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 -0.200 4.200
2 C -0.003 4.003
3 N -0.135 5.135
4 C -0.423 4.423
5 H 0.122 0.878
6 C -0.177 4.177
7 N -0.513 5.513
8 Si 0.758 3.242
9 H -0.203 1.203
10 H -0.209 1.209
11 H -0.194 1.194
12 C 0.256 3.744
13 O -0.486 6.486
14 C -0.088 4.088
15 C -0.165 4.165
16 C -0.156 4.156
17 C -0.014 4.014
18 C -0.176 4.176
19 C -0.057 4.057
20 N -0.204 5.204
21 C -0.070 4.070
22 C -0.189 4.189
23 H 0.052 0.948
24 H 0.113 0.887
25 H 0.034 0.966
26 H 0.049 0.951
27 H 0.129 0.871
28 H 0.077 0.923
29 H 0.092 0.908
30 H 0.090 0.910
31 H 0.086 0.914
32 H 0.145 0.855
33 H 0.179 0.821
34 H 0.168 0.832
35 H 0.166 0.834
36 H 0.147 0.853
Dipole moment (debyes) X Y Z Total
from point charges 1.934 -4.324 -6.765 8.258
hybrid contribution -0.995 0.248 0.363 1.088
sum 0.939 -4.076 -6.401 7.646
Atomic orbital electron populations
1.22272 0.96712 0.99558 1.01439 1.21680 0.94646 0.83055 1.00909
1.43674 1.53613 1.11612 1.04571 1.19785 1.31935 1.06529 0.84029
0.87827 1.25347 0.95938 0.96559 0.99870 1.70105 1.35516 1.17625
1.28102 0.85833 0.79004 0.78971 0.80407 1.20337 1.20862 1.19386
1.17709 0.86289 0.86742 0.83624 1.90620 1.49928 1.20999 1.87074
1.22225 0.96511 0.94022 0.96090 1.20746 0.95000 1.02580 0.98164
1.21744 0.93692 0.99144 1.00981 1.19354 0.93993 0.93128 0.94895
1.23246 0.95515 1.02405 0.96475 1.22581 0.93875 0.93580 0.95686
1.67509 1.34433 1.00234 1.18228 1.22476 0.92428 0.97761 0.94322
1.22184 0.97776 0.96766 1.02195 0.94786 0.88714 0.96605 0.95081
0.87128 0.92299 0.90766 0.91028 0.91437 0.85510 0.82109 0.83190
0.83445 0.85270
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 13.
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 -0.14 -3.01 9.50 37.16 0.35 -2.66 16
2 C 0.12 2.73 5.22 -4.04 -0.02 2.71 16
3 N -0.42 -10.44 2.62 -116.40 -0.30 -10.75 16
4 C -0.29 -7.93 9.49 -15.06 -0.14 -8.08 16
5 H 0.10 2.94 7.21 -52.49 -0.38 2.56 16
6 C 0.02 0.62 5.33 -17.44 -0.09 0.53 16
7 N -0.87 -21.73 7.17 55.51 0.40 -21.34 16
8 Si 0.93 20.41 29.55 -169.99 -5.02 15.38 16
9 H -0.28 -6.06 7.11 56.52 0.40 -5.66 16
10 H -0.28 -6.10 7.11 56.52 0.40 -5.70 16
11 H -0.27 -5.96 7.11 56.52 0.40 -5.56 16
12 C 0.47 11.11 4.32 -12.97 -0.06 11.06 16
13 O -0.60 -15.99 14.74 5.15 0.08 -15.92 16
14 C -0.08 -1.61 4.48 -102.54 -0.46 -2.07 16
15 C -0.11 -1.66 10.03 36.00 0.36 -1.30 16
16 C -0.14 -2.30 8.30 -37.10 -0.31 -2.61 16
17 C -0.01 -0.10 5.07 -104.74 -0.53 -0.63 16
18 C -0.16 -3.14 8.42 -38.94 -0.33 -3.47 16
19 C 0.10 1.86 11.17 -17.62 -0.20 1.66 16
20 N -0.49 -9.06 10.34 -13.36 -0.14 -9.20 16
21 C 0.09 1.39 11.17 -17.62 -0.20 1.19 16
22 C -0.17 -2.67 9.90 -38.95 -0.39 -3.05 16
23 H 0.03 0.64 8.14 -51.93 -0.42 0.22 16
24 H 0.09 2.27 5.84 -51.93 -0.30 1.96 16
25 H 0.01 0.30 7.42 -51.93 -0.39 -0.08 16
26 H 0.03 0.65 5.40 -51.93 -0.28 0.37 16
27 H 0.11 2.78 5.98 -51.93 -0.31 2.47 16
28 H 0.27 6.33 8.31 -40.82 -0.34 5.99 16
29 H 0.07 1.05 7.43 -51.93 -0.39 0.66 16
30 H 0.07 1.17 8.08 -51.93 -0.42 0.75 16
31 H 0.07 0.84 8.11 -51.93 -0.42 0.42 16
32 H 0.13 1.68 8.06 -52.49 -0.42 1.26 16
33 H 0.16 3.60 4.85 -52.49 -0.25 3.35 16
34 H 0.15 2.53 8.06 -52.48 -0.42 2.11 16
35 H 0.15 1.84 8.06 -52.48 -0.42 1.42 16
36 H 0.13 1.62 8.06 -52.48 -0.42 1.20 16
LS Contribution 297.12 15.07 4.48 4.48
Total: -1.00 -29.43 297.12 -6.91 -36.34
By element:
Atomic # 1 Polarization: 12.11 SS G_CDS: -4.39 Total: 7.72 kcal
Atomic # 6 Polarization: -4.72 SS G_CDS: -2.01 Total: -6.72 kcal
Atomic # 7 Polarization: -41.24 SS G_CDS: -0.04 Total: -41.28 kcal
Atomic # 8 Polarization: -15.99 SS G_CDS: 0.08 Total: -15.92 kcal
Atomic # 14 Polarization: 20.41 SS G_CDS: -5.02 Total: 15.38 kcal
Total LS contribution 4.48 Total: 4.48 kcal
Total: -29.43 -6.91 -36.34 kcal
The number of atoms in the molecule is 36
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.
ZINC000846839118.mol2 36
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 73.883 kcal
(2) G-P(sol) polarization free energy of solvation -29.433 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 44.450 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -6.908 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -36.341 kcal
(6) G-S(sol) free energy of system = (1) + (5) 37.542 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.36 seconds