Wall clock time and date at job start Mon Mar 30 2020 03:26:18
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 1.31515 * 1
3 3 Si 1.86804 * 120.00010 * 2 1
4 4 H 1.48502 * 109.46868 * 240.00345 * 3 2 1
5 5 H 1.48502 * 109.47158 * 0.02562 * 3 2 1
6 6 H 1.48497 * 109.46843 * 120.00324 * 3 2 1
7 7 C 1.37874 * 119.99956 * 179.97438 * 2 1 3
8 8 H 1.08002 * 120.00089 * 179.97438 * 7 2 1
9 9 C 1.50706 * 119.99911 * 359.97438 * 7 2 1
10 10 H 1.08997 * 109.46305 * 305.41959 * 9 7 2
11 11 C 1.53041 * 109.45248 * 65.39049 * 9 7 2
12 12 C 1.53118 * 109.27619 * 179.18648 * 11 9 7
13 13 C 1.53113 * 109.16259 * 302.34718 * 12 11 9
14 14 C 1.53030 * 109.28081 * 57.65485 * 13 12 11
15 15 N 1.46846 * 109.46120 * 185.43792 * 9 7 2
16 16 C 1.46895 * 111.00120 * 54.15267 * 15 9 7
17 17 C 1.54892 * 110.59999 * 183.53812 * 16 15 9
18 18 C 1.54884 * 102.74859 * 203.32701 * 17 16 15
19 19 C 1.54273 * 104.19810 * 37.94343 * 18 17 16
20 20 C 1.53869 * 106.59518 * 336.39156 * 19 18 17
21 21 H 0.97002 * 120.00145 * 359.97438 * 1 2 3
22 22 H 1.09000 * 109.50175 * 299.12855 * 11 9 7
23 23 H 1.09005 * 109.50335 * 59.24607 * 11 9 7
24 24 H 1.09006 * 109.51843 * 62.25300 * 12 11 9
25 25 H 1.09000 * 109.51856 * 182.43618 * 12 11 9
26 26 H 1.09006 * 109.49967 * 177.59406 * 13 12 11
27 27 H 1.09001 * 109.50207 * 297.67298 * 13 12 11
28 28 H 1.08997 * 109.46724 * 180.80438 * 14 13 12
29 29 H 1.08998 * 109.46620 * 60.83363 * 14 13 12
30 30 H 1.08996 * 110.43843 * 306.15981 * 16 15 9
31 31 H 1.08997 * 110.75287 * 85.01041 * 17 16 15
32 32 H 1.08995 * 110.75575 * 321.64549 * 17 16 15
33 33 H 1.09002 * 110.49097 * 279.26374 * 18 17 16
34 34 H 1.09004 * 110.48725 * 156.61845 * 18 17 16
35 35 H 1.09003 * 110.02630 * 95.67458 * 19 18 17
36 36 H 1.09000 * 110.03296 * 217.10293 * 19 18 17
37 37 H 1.09000 * 110.03462 * 119.28662 * 20 19 18
38 38 H 1.09003 * 110.03294 * 240.66199 * 20 19 18
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 2.2492 1.6178 0.0000
4 1 3.1028 1.6964 -1.2126
5 1 1.2842 2.7465 0.0006
6 1 3.1029 1.6963 1.2125
7 6 2.0045 -1.1940 0.0005
8 1 3.0845 -1.1941 0.0001
9 6 1.2509 -2.4992 0.0017
10 1 0.5539 -2.5153 0.8395
11 6 0.4752 -2.6409 -1.3099
12 6 -0.2725 -3.9771 -1.3130
13 6 0.7333 -5.1163 -1.1260
14 6 1.5015 -4.9028 0.1801
15 7 2.2000 -3.6120 0.1333
16 6 3.0588 -3.4349 1.3118
17 6 4.1138 -4.5661 1.3924
18 6 4.4793 -4.5861 2.8973
19 6 3.1395 -4.3237 3.6157
20 6 2.2364 -3.5918 2.6076
21 1 -0.4850 0.8400 0.0004
22 1 -0.2401 -1.8234 -1.3998
23 1 1.1704 -2.6109 -2.1489
24 1 -0.9954 -3.9919 -0.4973
25 1 -0.7917 -4.1017 -2.2633
26 1 0.2023 -6.0674 -1.0846
27 1 1.4320 -5.1258 -1.9625
28 1 2.2285 -5.7046 0.3092
29 1 0.8033 -4.9077 1.0171
30 1 3.5459 -2.4602 1.2849
31 1 4.9866 -4.3242 0.7860
32 1 3.6821 -5.5193 1.0869
33 1 5.1959 -3.7973 3.1264
34 1 4.8792 -5.5600 3.1799
35 1 2.6821 -5.2685 3.9095
36 1 3.3027 -3.6984 4.4935
37 1 1.3405 -4.1813 2.4122
38 1 1.9604 -2.6116 2.9965
RHF calculation, no. of doubly occupied orbitals= 43
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)
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
ZINC000259168630.mol2 38
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 03:26:18
Heat of formation + Delta-G solvation = -14.668957 kcal
Electronic energy + Delta-G solvation = -16554.116410 eV
Core-core repulsion = 14202.367161 eV
Total energy + Delta-G solvation = -2351.749249 eV
No. of doubly occupied orbitals = 43
Molecular weight
(most abundant/longest-lived isotopes) = 223.163 amu
Computer time = 0.27 seconds
Orbital eigenvalues (eV)
-39.00626 -36.14331 -32.85905 -31.77960 -29.50666 -28.18336 -26.55546 -25.04724
-22.82260 -21.28578 -20.01244 -19.33629 -18.01467 -16.26364 -15.72528 -14.91804
-14.70592 -13.85654 -13.42837 -13.33179 -13.08869 -12.72620 -12.38706 -12.09621
-11.71445 -11.07863 -10.89113 -10.79465 -10.74273 -10.58775 -10.54311 -10.51075
-10.23901 -10.08248 -9.89052 -9.65674 -9.56880 -9.06874 -8.69778 -8.34737
-7.00399 -5.98492 -4.01383 3.33642 3.38077 3.41040 4.43680 4.91599
5.16980 5.19919 5.32743 5.43268 5.65533 5.76883 5.85010 5.93991
6.04745 6.08783 6.11412 6.17378 6.28370 6.30724 6.41540 6.43068
6.45742 6.57393 6.63292 6.71388 6.83774 6.90433 6.92168 7.10998
7.19633 7.34988 7.62250 7.79051 7.88534 8.26158 8.39969 8.70400
9.06779 9.63182 11.09353
Molecular weight = 223.16amu
Principal moments of inertia in cm(-1)
A = 0.021802 B = 0.012005 C = 0.008655
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1283.991964 B = 2331.794443 C = 3234.478333
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.893 5.893
2 C 0.061 3.939
3 Si 0.892 3.108
4 H -0.277 1.277
5 H -0.289 1.289
6 H -0.278 1.278
7 C -0.503 4.503
8 H 0.061 0.939
9 C 0.220 3.780
10 H 0.004 0.996
11 C -0.102 4.102
12 C -0.123 4.123
13 C -0.111 4.111
14 C 0.051 3.949
15 N -0.527 5.527
16 C 0.095 3.905
17 C -0.123 4.123
18 C -0.123 4.123
19 C -0.120 4.120
20 C -0.156 4.156
21 H 0.260 0.740
22 H 0.083 0.917
23 H 0.043 0.957
24 H 0.047 0.953
25 H 0.043 0.957
26 H 0.047 0.953
27 H 0.061 0.939
28 H 0.060 0.940
29 H 0.024 0.976
30 H 0.097 0.903
31 H 0.062 0.938
32 H 0.065 0.935
33 H 0.062 0.938
34 H 0.056 0.944
35 H 0.052 0.948
36 H 0.055 0.945
37 H 0.061 0.939
38 H 0.064 0.936
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 3.795 -8.500 2.840 9.733
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 -0.532 5.532
2 C -0.141 4.141
3 Si 0.720 3.280
4 H -0.202 1.202
5 H -0.214 1.214
6 H -0.204 1.204
7 C -0.542 4.542
8 H 0.079 0.921
9 C 0.114 3.886
10 H 0.022 0.978
11 C -0.140 4.140
12 C -0.160 4.160
13 C -0.149 4.149
14 C -0.078 4.078
15 N -0.250 5.250
16 C -0.014 4.014
17 C -0.161 4.161
18 C -0.161 4.161
19 C -0.158 4.158
20 C -0.195 4.195
21 H 0.070 0.930
22 H 0.101 0.899
23 H 0.062 0.938
24 H 0.066 0.934
25 H 0.061 0.939
26 H 0.065 0.935
27 H 0.080 0.920
28 H 0.078 0.922
29 H 0.042 0.958
30 H 0.115 0.885
31 H 0.081 0.919
32 H 0.084 0.916
33 H 0.080 0.920
34 H 0.075 0.925
35 H 0.071 0.929
36 H 0.074 0.926
37 H 0.080 0.920
38 H 0.083 0.917
Dipole moment (debyes) X Y Z Total
from point charges 3.917 -8.354 2.404 9.534
hybrid contribution -0.213 0.948 0.761 1.234
sum 3.704 -7.406 3.165 8.864
Atomic orbital electron populations
1.69915 1.05845 1.26545 1.50878 1.24920 0.94823 0.98972 0.95353
0.86658 0.79550 0.83180 0.78606 1.20244 1.21440 1.20385 1.21118
0.93163 0.89828 1.50084 0.92054 1.19162 0.89214 0.87165 0.93082
0.97815 1.21602 0.98778 0.94544 0.99124 1.21681 0.97546 0.97211
0.99591 1.21539 0.97938 0.97296 0.98130 1.22086 0.96023 0.93539
0.96106 1.62126 1.23516 1.01996 1.37398 1.22443 0.92970 0.98824
0.87208 1.22667 0.99038 0.99474 0.94902 1.22325 0.97173 1.00491
0.96131 1.22065 0.95918 0.99550 0.98233 1.22783 0.99081 1.00477
0.97189 0.93015 0.89902 0.93837 0.93445 0.93855 0.93461 0.91986
0.92162 0.95848 0.88491 0.91880 0.91611 0.91966 0.92543 0.92873
0.92628 0.92043 0.91744
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 12.
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 -0.89 -25.41 11.73 55.43 0.65 -24.76 16
2 C 0.06 1.67 5.33 -17.82 -0.09 1.57 16
3 Si 0.89 21.32 29.54 -169.99 -5.02 16.30 16
4 H -0.28 -6.59 7.11 56.52 0.40 -6.18 16
5 H -0.29 -6.88 7.11 56.52 0.40 -6.48 16
6 H -0.28 -6.58 7.11 56.52 0.40 -6.17 16
7 C -0.50 -13.63 7.65 -34.44 -0.26 -13.90 16
8 H 0.06 1.67 6.54 -52.49 -0.34 1.32 16
9 C 0.22 5.48 1.47 -68.87 -0.10 5.38 16
10 H 0.00 0.12 7.61 -51.93 -0.40 -0.28 16
11 C -0.10 -2.45 5.19 -26.65 -0.14 -2.58 16
12 C -0.12 -2.44 6.00 -26.61 -0.16 -2.60 16
13 C -0.11 -1.98 6.09 -26.66 -0.16 -2.14 16
14 C 0.05 0.95 4.78 -3.84 -0.02 0.93 16
15 N -0.53 -11.31 4.52 -218.17 -0.99 -12.30 16
16 C 0.09 1.86 2.64 -66.05 -0.17 1.69 16
17 C -0.12 -1.97 6.37 -24.74 -0.16 -2.13 16
18 C -0.12 -1.72 6.83 -25.07 -0.17 -1.89 16
19 C -0.12 -1.78 6.80 -25.61 -0.17 -1.96 16
20 C -0.16 -2.89 5.41 -25.61 -0.14 -3.03 16
21 H 0.26 7.12 8.31 -40.82 -0.34 6.78 16
22 H 0.08 2.20 6.53 -51.93 -0.34 1.86 16
23 H 0.04 1.06 8.14 -51.93 -0.42 0.64 16
24 H 0.05 0.96 8.14 -51.93 -0.42 0.54 16
25 H 0.04 0.78 8.14 -51.93 -0.42 0.36 16
26 H 0.05 0.72 8.14 -51.93 -0.42 0.30 16
27 H 0.06 1.11 8.14 -51.93 -0.42 0.69 16
28 H 0.06 1.02 5.78 -51.93 -0.30 0.72 16
29 H 0.02 0.46 6.06 -51.93 -0.31 0.14 16
30 H 0.10 2.13 6.10 -51.93 -0.32 1.82 16
31 H 0.06 0.99 8.14 -51.93 -0.42 0.57 16
32 H 0.07 1.03 5.73 -51.93 -0.30 0.73 16
33 H 0.06 0.84 8.14 -51.93 -0.42 0.42 16
34 H 0.06 0.69 8.14 -51.93 -0.42 0.26 16
35 H 0.05 0.73 8.14 -51.93 -0.42 0.31 16
36 H 0.05 0.78 8.14 -51.93 -0.42 0.36 16
37 H 0.06 1.17 5.54 -51.93 -0.29 0.89 16
38 H 0.06 1.31 8.14 -51.93 -0.42 0.89 16
LS Contribution 279.43 15.07 4.21 4.21
Total: -1.00 -27.48 279.43 -9.28 -36.76
By element:
Atomic # 1 Polarization: 6.83 SS G_CDS: -6.38 Total: 0.46 kcal
Atomic # 6 Polarization: -18.92 SS G_CDS: -1.75 Total: -20.67 kcal
Atomic # 7 Polarization: -36.72 SS G_CDS: -0.33 Total: -37.06 kcal
Atomic # 14 Polarization: 21.32 SS G_CDS: -5.02 Total: 16.30 kcal
Total LS contribution 4.21 Total: 4.21 kcal
Total: -27.48 -9.28 -36.76 kcal
The number of atoms in the molecule is 38
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.
ZINC000259168630.mol2 38
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 22.094 kcal
(2) G-P(sol) polarization free energy of solvation -27.485 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -5.390 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -9.279 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -36.763 kcal
(6) G-S(sol) free energy of system = (1) + (5) -14.669 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.27 seconds