Wall clock time and date at job start Mon Mar 30 2020 03:10:20
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
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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 1.52994 * 1
3 3 C 1.53009 * 109.46811 * 2 1
4 4 H 1.08997 * 109.47431 * 305.51432 * 3 2 1
5 5 C 1.50700 * 109.46988 * 185.51034 * 3 2 1
6 6 H 1.07994 * 120.00194 * 244.59219 * 5 3 2
7 7 C 1.37880 * 119.99758 * 64.60051 * 5 3 2
8 8 N 1.31513 * 119.99847 * 9.00056 * 7 5 3
9 9 Si 1.86804 * 119.99878 * 189.00661 * 7 5 3
10 10 H 1.48504 * 109.47009 * 179.97438 * 9 7 5
11 11 H 1.48496 * 109.46818 * 299.99745 * 9 7 5
12 12 H 1.48492 * 109.47012 * 59.99650 * 9 7 5
13 13 N 1.46905 * 109.46902 * 65.51673 * 3 2 1
14 14 C 1.46954 * 111.00257 * 83.41092 * 13 3 2
15 15 H 1.09001 * 109.48652 * 63.22306 * 14 13 3
16 16 C 1.52997 * 109.48887 * 303.15745 * 14 13 3
17 17 C 1.53049 * 109.36108 * 183.18787 * 14 13 3
18 18 N 1.46953 * 109.36593 * 301.59782 * 17 14 13
19 19 C 1.46954 * 110.88062 * 59.32372 * 18 17 14
20 20 C 1.46959 * 110.99727 * 207.21627 * 13 3 2
21 21 H 1.09008 * 109.48242 * 296.79729 * 20 13 3
22 22 C 1.52998 * 109.49110 * 56.83603 * 20 13 3
23 23 H 1.09000 * 109.47409 * 299.99476 * 1 2 3
24 24 H 1.08995 * 109.47623 * 59.99900 * 1 2 3
25 25 H 1.09007 * 109.46667 * 180.02562 * 1 2 3
26 26 H 1.09000 * 109.47409 * 240.00524 * 2 1 3
27 27 H 1.08995 * 109.47623 * 120.00100 * 2 1 3
28 28 H 0.96993 * 120.00744 * 358.96587 * 8 7 5
29 29 H 1.09000 * 109.47742 * 71.53712 * 16 14 13
30 30 H 1.08997 * 109.46949 * 191.54020 * 16 14 13
31 31 H 1.09005 * 109.47072 * 311.53790 * 16 14 13
32 32 H 1.09007 * 109.48533 * 181.63399 * 17 14 13
33 33 H 1.08998 * 109.50656 * 61.58263 * 17 14 13
34 34 H 1.00900 * 110.99989 * 183.19119 * 18 17 14
35 35 H 1.09005 * 109.48944 * 180.71223 * 19 18 17
36 36 H 1.09004 * 109.50488 * 60.65600 * 19 18 17
37 37 H 1.09000 * 109.46859 * 51.80914 * 22 20 13
38 38 H 1.09005 * 109.46855 * 171.79669 * 22 20 13
39 39 H 1.08999 * 109.47484 * 291.80425 * 22 20 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 6 2.0399 1.4426 0.0000
4 1 1.5982 1.9842 -0.8364
5 6 3.5407 1.4448 -0.1364
6 1 4.1555 1.8197 0.6684
7 6 4.1288 0.9685 -1.2889
8 7 3.3860 0.6783 -2.3347
9 14 5.9807 0.7351 -1.3648
10 1 6.3596 0.2151 -2.7032
11 1 6.6537 2.0379 -1.1307
12 1 6.4006 -0.2337 -0.3208
13 7 1.6619 2.0956 1.2605
14 6 2.6258 1.7836 2.3250
15 1 3.6038 2.1845 2.0588
16 6 2.7247 0.2664 2.4955
17 6 2.1548 2.4153 3.6371
18 7 2.0233 3.8681 3.4588
19 6 1.0594 4.1800 2.3943
20 6 1.5303 3.5483 1.0822
21 1 2.4959 3.9691 0.8015
22 6 0.5082 3.8370 -0.0191
23 1 -0.3634 0.5137 0.8900
24 1 -0.3634 0.5138 -0.8899
25 1 -0.3633 -1.0278 0.0005
26 1 1.8933 -0.5137 -0.8900
27 1 1.8933 -0.5138 0.8899
28 1 2.4230 0.7852 -2.2904
29 1 3.2474 -0.1621 1.6404
30 1 3.2742 0.0385 3.4088
31 1 1.7227 -0.1582 2.5588
32 1 2.8831 2.2097 4.4216
33 1 1.1893 1.9944 3.9177
34 1 1.7637 4.3166 4.3245
35 1 0.9890 5.2610 2.2728
36 1 0.0812 3.7794 2.6603
37 1 -0.4145 3.2958 0.1907
38 1 0.3022 4.9069 -0.0523
39 1 0.9084 3.5140 -0.9801
RHF calculation, no. of doubly occupied orbitals= 44
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
ZINC000068915348.mol2 39
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 03:10:20
Heat of formation + Delta-G solvation = 14.413122 kcal
Electronic energy + Delta-G solvation = -17618.642646 eV
Core-core repulsion = 15175.417101 eV
Total energy + Delta-G solvation = -2443.225545 eV
No. of doubly occupied orbitals = 44
Molecular weight
(most abundant/longest-lived isotopes) = 226.174 amu
Computer time = 0.30 seconds
Orbital eigenvalues (eV)
-39.15622 -35.44595 -33.04345 -32.35012 -31.05882 -28.08096 -26.22255 -25.91617
-23.69649 -22.36769 -20.51200 -19.76105 -18.97566 -16.54433 -15.90220 -15.19194
-14.70965 -14.15787 -13.69378 -13.53927 -13.22255 -12.74166 -12.54796 -12.26937
-11.90431 -11.63389 -11.35821 -11.23552 -11.02094 -10.85652 -10.74897 -10.51801
-10.25839 -10.10694 -10.06361 -9.81078 -9.60129 -9.07998 -8.81655 -8.18042
-8.11225 -6.95930 -6.29610 -4.02816 3.44480 3.45080 3.63487 4.54514
4.56456 4.87956 5.37772 5.42404 5.59208 5.64552 5.83847 5.93975
5.96237 6.09035 6.14755 6.19765 6.26433 6.29720 6.33885 6.37617
6.48378 6.63337 6.70168 6.80866 6.95645 7.00074 7.06471 7.12664
7.24129 7.32991 7.49454 7.58634 7.65870 8.00026 8.21683 8.44707
8.63175 8.88901 9.68426 11.04675
Molecular weight = 226.17amu
Principal moments of inertia in cm(-1)
A = 0.024645 B = 0.011279 C = 0.010403
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1135.839947 B = 2481.856970 C = 2690.852710
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.138 4.138
2 C -0.133 4.133
3 C 0.197 3.803
4 H 0.034 0.966
5 C -0.623 4.623
6 H 0.059 0.941
7 C 0.027 3.973
8 N -0.909 5.909
9 Si 1.058 2.942
10 H -0.284 1.284
11 H -0.290 1.290
12 H -0.288 1.288
13 N -0.521 5.521
14 C 0.092 3.908
15 H 0.061 0.939
16 C -0.143 4.143
17 C 0.062 3.938
18 N -0.692 5.692
19 C 0.067 3.933
20 C 0.087 3.913
21 H 0.046 0.954
22 C -0.140 4.140
23 H 0.051 0.949
24 H 0.035 0.965
25 H 0.027 0.973
26 H 0.058 0.942
27 H 0.070 0.930
28 H 0.272 0.728
29 H 0.088 0.912
30 H 0.035 0.965
31 H 0.052 0.948
32 H 0.066 0.934
33 H 0.028 0.972
34 H 0.332 0.668
35 H 0.066 0.934
36 H 0.030 0.970
37 H 0.054 0.946
38 H 0.046 0.954
39 H 0.063 0.937
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -4.316 3.086 8.729 10.215
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 -0.196 4.196
2 C -0.172 4.172
3 C 0.090 3.910
4 H 0.051 0.949
5 C -0.662 4.662
6 H 0.077 0.923
7 C -0.178 4.178
8 N -0.544 5.544
9 Si 0.887 3.113
10 H -0.210 1.210
11 H -0.217 1.217
12 H -0.215 1.215
13 N -0.246 5.246
14 C -0.017 4.017
15 H 0.079 0.921
16 C -0.200 4.200
17 C -0.067 4.067
18 N -0.321 5.321
19 C -0.062 4.062
20 C -0.022 4.022
21 H 0.064 0.936
22 C -0.198 4.198
23 H 0.070 0.930
24 H 0.054 0.946
25 H 0.046 0.954
26 H 0.077 0.923
27 H 0.088 0.912
28 H 0.083 0.917
29 H 0.107 0.893
30 H 0.054 0.946
31 H 0.071 0.929
32 H 0.084 0.916
33 H 0.046 0.954
34 H 0.148 0.852
35 H 0.084 0.916
36 H 0.048 0.952
37 H 0.073 0.927
38 H 0.065 0.935
39 H 0.082 0.918
Dipole moment (debyes) X Y Z Total
from point charges -2.995 2.471 7.449 8.401
hybrid contribution -1.288 0.632 1.200 1.870
sum -4.283 3.103 8.649 10.138
Atomic orbital electron populations
1.21700 0.98699 0.98603 1.00587 1.22163 0.92828 0.99945 1.02229
1.19433 0.94286 0.90693 0.86566 0.94860 1.22587 0.92473 1.46346
1.04804 0.92303 1.25613 1.06282 0.93856 0.92086 1.70790 1.07808
1.46025 1.29824 0.83699 0.75172 0.76472 0.75982 1.20951 1.21692
1.21468 1.62593 1.46781 1.06820 1.08442 1.21448 0.95849 0.94966
0.89459 0.92106 1.22124 1.01032 0.95620 1.01269 1.22162 0.99133
0.87033 0.98400 1.60467 1.51303 1.10556 1.09805 1.22038 0.93041
0.98919 0.92222 1.21401 0.97858 0.90105 0.92867 0.93550 1.21830
0.99129 0.99685 0.99164 0.92996 0.94606 0.95426 0.92330 0.91214
0.91699 0.89335 0.94596 0.92932 0.91597 0.95401 0.85199 0.91570
0.95194 0.92650 0.93462 0.91792
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 -2.73 9.80 37.15 0.36 -2.37 16
2 C -0.13 -3.02 4.75 -26.73 -0.13 -3.15 16
3 C 0.20 4.66 1.08 -68.86 -0.07 4.59 16
4 H 0.03 0.87 4.79 -51.93 -0.25 0.62 16
5 C -0.62 -16.44 6.52 -34.44 -0.22 -16.66 16
6 H 0.06 1.59 5.18 -52.49 -0.27 1.32 16
7 C 0.03 0.75 5.16 -17.82 -0.09 0.65 16
8 N -0.91 -26.43 12.95 55.43 0.72 -25.71 16
9 Si 1.06 24.90 29.91 -169.99 -5.08 19.82 16
10 H -0.28 -6.77 7.11 56.52 0.40 -6.37 16
11 H -0.29 -6.67 7.11 56.52 0.40 -6.27 16
12 H -0.29 -6.51 7.11 56.52 0.40 -6.11 16
13 N -0.52 -10.80 3.74 -212.06 -0.79 -11.59 16
14 C 0.09 1.83 1.97 -67.66 -0.13 1.69 16
15 H 0.06 1.41 5.73 -51.93 -0.30 1.11 16
16 C -0.14 -2.72 7.37 37.16 0.27 -2.44 16
17 C 0.06 1.04 5.97 -3.77 -0.02 1.01 16
18 N -0.69 -10.97 6.90 -113.64 -0.78 -11.75 16
19 C 0.07 1.09 5.99 -3.77 -0.02 1.07 16
20 C 0.09 1.69 2.49 -67.66 -0.17 1.53 16
21 H 0.05 1.05 8.13 -51.92 -0.42 0.62 16
22 C -0.14 -2.50 8.74 37.16 0.32 -2.18 16
23 H 0.05 1.00 7.77 -51.93 -0.40 0.60 16
24 H 0.03 0.70 8.14 -51.93 -0.42 0.28 16
25 H 0.03 0.49 8.14 -51.93 -0.42 0.06 16
26 H 0.06 1.48 6.30 -51.93 -0.33 1.16 16
27 H 0.07 1.53 3.61 -51.93 -0.19 1.35 16
28 H 0.27 7.88 6.10 -40.82 -0.25 7.63 16
29 H 0.09 1.93 5.11 -51.93 -0.27 1.66 16
30 H 0.04 0.59 8.10 -51.93 -0.42 0.17 16
31 H 0.05 0.97 7.14 -51.93 -0.37 0.60 16
32 H 0.07 0.99 8.14 -51.93 -0.42 0.57 16
33 H 0.03 0.46 8.14 -51.93 -0.42 0.04 16
34 H 0.33 4.28 8.90 -39.29 -0.35 3.94 16
35 H 0.07 0.96 8.14 -51.93 -0.42 0.53 16
36 H 0.03 0.48 8.14 -51.93 -0.42 0.06 16
37 H 0.05 0.96 8.14 -51.93 -0.42 0.54 16
38 H 0.05 0.71 8.13 -51.93 -0.42 0.29 16
39 H 0.06 1.28 6.30 -51.93 -0.33 0.96 16
LS Contribution 282.96 15.07 4.26 4.26
Total: -1.00 -27.98 282.96 -7.90 -35.88
By element:
Atomic # 1 Polarization: 11.66 SS G_CDS: -6.32 Total: 5.34 kcal
Atomic # 6 Polarization: -16.35 SS G_CDS: 0.10 Total: -16.25 kcal
Atomic # 7 Polarization: -48.20 SS G_CDS: -0.86 Total: -49.06 kcal
Atomic # 14 Polarization: 24.90 SS G_CDS: -5.08 Total: 19.82 kcal
Total LS contribution 4.26 Total: 4.26 kcal
Total: -27.98 -7.90 -35.88 kcal
The number of atoms in the molecule is 39
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.
ZINC000068915348.mol2 39
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 50.295 kcal
(2) G-P(sol) polarization free energy of solvation -27.983 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 22.312 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -7.899 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -35.882 kcal
(6) G-S(sol) free energy of system = (1) + (5) 14.413 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.30 seconds