Wall clock time and date at job start Mon Mar 30 2020 03:11:22
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 1.52991 * 1
3 3 C 1.53000 * 109.47628 * 2 1
4 4 H 1.08992 * 109.47738 * 180.76719 * 3 2 1
5 5 C 1.50702 * 109.46933 * 300.77083 * 3 2 1
6 6 H 1.08002 * 119.99913 * 119.99640 * 5 3 2
7 7 C 1.37879 * 119.99815 * 299.99319 * 5 3 2
8 8 N 1.31514 * 120.00278 * 0.02562 * 7 5 3
9 9 Si 1.86807 * 119.99649 * 180.02562 * 7 5 3
10 10 H 1.48492 * 109.47395 * 60.00252 * 9 7 5
11 11 H 1.48498 * 109.46656 * 180.02562 * 9 7 5
12 12 H 1.48498 * 109.47003 * 299.99698 * 9 7 5
13 13 N 1.46904 * 109.46750 * 60.76387 * 3 2 1
14 14 C 1.46902 * 110.99663 * 85.87520 * 13 3 2
15 15 C 1.52996 * 109.47151 * 175.67617 * 14 13 3
16 16 H 1.09006 * 112.95760 * 287.14524 * 15 14 13
17 17 C 1.53936 * 113.76204 * 155.49444 * 15 14 13
18 18 C 1.53936 * 86.34181 * 221.96533 * 17 15 14
19 19 N 1.47958 * 86.18339 * 23.71939 * 18 17 15
20 20 C 1.46904 * 111.00186 * 222.41985 * 19 18 17
21 21 C 1.52994 * 109.46911 * 269.35672 * 20 19 18
22 22 H 1.08997 * 109.47560 * 65.16659 * 1 2 3
23 23 H 1.08998 * 109.47461 * 185.17103 * 1 2 3
24 24 H 1.09001 * 109.46882 * 305.16707 * 1 2 3
25 25 H 1.09006 * 109.46831 * 240.00043 * 2 1 3
26 26 H 1.09003 * 109.47426 * 120.00312 * 2 1 3
27 27 H 0.96996 * 120.00014 * 179.97438 * 8 7 5
28 28 H 1.00902 * 110.99971 * 209.82706 * 13 3 2
29 29 H 1.08995 * 109.47129 * 295.67765 * 14 13 3
30 30 H 1.08998 * 109.47034 * 55.68114 * 14 13 3
31 31 H 1.08999 * 113.72818 * 336.32136 * 17 15 14
32 32 H 1.09000 * 113.73057 * 107.50084 * 17 15 14
33 33 H 1.08996 * 113.76239 * 138.03789 * 18 17 15
34 34 H 1.09003 * 113.75455 * 269.40222 * 18 17 15
35 35 H 1.09004 * 109.47110 * 29.35833 * 20 19 18
36 36 H 1.08998 * 109.46935 * 149.35685 * 20 19 18
37 37 H 1.08997 * 109.47363 * 179.97438 * 21 20 19
38 38 H 1.08994 * 109.47425 * 299.99923 * 21 20 19
39 39 H 1.09006 * 109.47151 * 60.00040 * 21 20 19
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 2.0400 1.4425 0.0000
4 1 3.1299 1.4425 -0.0138
5 6 1.5222 2.1584 -1.2208
6 1 0.9026 3.0360 -1.1099
7 6 1.8395 1.6929 -2.4793
8 7 2.5935 0.6240 -2.6143
9 14 1.1981 2.5808 -3.9926
10 1 1.6936 3.9806 -3.9924
11 1 1.6772 1.8858 -5.2143
12 1 -0.2868 2.5813 -3.9740
13 7 1.5655 2.1296 1.2086
14 6 2.4747 1.8955 2.3385
15 6 2.0082 2.7110 3.5460
16 1 2.1975 3.7789 3.4365
17 6 2.4667 2.1352 4.8979
18 6 1.0503 2.4610 5.4052
19 7 0.6331 2.3891 3.9875
20 6 -0.2949 3.4786 3.6559
21 6 -1.7328 3.0144 3.8961
22 1 -0.3634 0.4316 -0.9326
23 1 -0.3634 -1.0234 0.0926
24 1 -0.3633 0.5919 0.8401
25 1 1.8932 -0.5139 -0.8900
26 1 1.8933 -0.5139 0.8900
27 1 2.8164 0.2963 -3.4997
28 1 1.4456 3.1171 1.0396
29 1 2.4724 0.8357 2.5931
30 1 3.4839 2.2006 2.0620
31 1 2.6874 1.0682 4.8681
32 1 3.2518 2.7183 5.3794
33 1 0.6174 1.6802 6.0305
34 1 0.9578 3.4561 5.8403
35 1 -0.0817 4.3420 4.2862
36 1 -0.1722 3.7542 2.6085
37 1 -2.4214 3.8229 3.6505
38 1 -1.9460 2.1511 3.2658
39 1 -1.8555 2.7388 4.9436
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
ZINC000712527910.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 03:11:22
Heat of formation + Delta-G solvation = 24.273949 kcal
Electronic energy + Delta-G solvation = -16517.344005 eV
Core-core repulsion = 14074.546058 eV
Total energy + Delta-G solvation = -2442.797947 eV
No. of doubly occupied orbitals = 44
Molecular weight
(most abundant/longest-lived isotopes) = 226.174 amu
Computer time = 0.25 seconds
Orbital eigenvalues (eV)
-39.75992 -35.98159 -32.83334 -32.17776 -30.58465 -27.59992 -26.92363 -25.37737
-23.05786 -22.30721 -21.56591 -19.37332 -18.88674 -16.37480 -15.96368 -15.18924
-14.73480 -14.60379 -13.92896 -13.51330 -13.21841 -12.90369 -12.64185 -12.20612
-11.91483 -11.86777 -11.83571 -11.28307 -10.99114 -10.86367 -10.85240 -10.56104
-10.42044 -10.31644 -10.24202 -9.93705 -9.56783 -9.21991 -8.69879 -8.42775
-8.40437 -7.06612 -5.96348 -4.01564 3.33014 3.37853 3.40411 4.09503
4.43969 4.68947 4.90408 5.19520 5.33703 5.35500 5.41671 5.52792
5.63781 5.72866 5.80739 5.84129 5.93396 6.02033 6.14982 6.25839
6.34921 6.46207 6.57817 6.66090 6.78584 6.85263 6.98559 7.38042
7.40271 7.44234 7.60810 7.84467 7.86370 7.94961 8.35949 8.49703
8.77569 9.08779 9.62891 11.09479
Molecular weight = 226.17amu
Principal moments of inertia in cm(-1)
A = 0.033320 B = 0.006927 C = 0.006554
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 840.145342 B = 4041.189179 C = 4271.339505
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.117 4.117
2 C -0.099 4.099
3 C 0.216 3.784
4 H -0.003 1.003
5 C -0.511 4.511
6 H 0.056 0.944
7 C 0.063 3.937
8 N -0.890 5.890
9 Si 0.892 3.108
10 H -0.279 1.279
11 H -0.288 1.288
12 H -0.277 1.277
13 N -0.673 5.673
14 C 0.081 3.919
15 C 0.035 3.965
16 H 0.068 0.932
17 C -0.141 4.141
18 C -0.006 4.006
19 N -0.450 5.450
20 C 0.021 3.979
21 C -0.138 4.138
22 H 0.048 0.952
23 H 0.010 0.990
24 H 0.051 0.949
25 H 0.082 0.918
26 H 0.009 0.991
27 H 0.260 0.740
28 H 0.323 0.677
29 H 0.068 0.932
30 H 0.019 0.981
31 H 0.090 0.910
32 H 0.065 0.935
33 H 0.082 0.918
34 H 0.061 0.939
35 H 0.029 0.971
36 H 0.081 0.919
37 H 0.050 0.950
38 H 0.066 0.934
39 H 0.045 0.955
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -2.237 4.073 12.880 13.692
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 -0.175 4.175
2 C -0.137 4.137
3 C 0.109 3.891
4 H 0.014 0.986
5 C -0.549 4.549
6 H 0.075 0.925
7 C -0.138 4.138
8 N -0.528 5.528
9 Si 0.720 3.280
10 H -0.205 1.205
11 H -0.214 1.214
12 H -0.203 1.203
13 N -0.303 5.303
14 C -0.049 4.049
15 C -0.074 4.074
16 H 0.086 0.914
17 C -0.180 4.180
18 C -0.135 4.135
19 N -0.173 5.173
20 C -0.107 4.107
21 C -0.196 4.196
22 H 0.067 0.933
23 H 0.029 0.971
24 H 0.070 0.930
25 H 0.101 0.899
26 H 0.028 0.972
27 H 0.070 0.930
28 H 0.139 0.861
29 H 0.086 0.914
30 H 0.037 0.963
31 H 0.109 0.891
32 H 0.084 0.916
33 H 0.101 0.899
34 H 0.079 0.921
35 H 0.047 0.953
36 H 0.099 0.901
37 H 0.069 0.931
38 H 0.085 0.915
39 H 0.064 0.936
Dipole moment (debyes) X Y Z Total
from point charges -2.937 2.864 12.633 13.283
hybrid contribution 0.734 1.833 -0.880 2.161
sum -2.203 4.697 11.754 12.847
Atomic orbital electron populations
1.21416 0.97511 0.97031 1.01521 1.21379 0.95082 0.98179 0.99104
1.19117 0.92786 0.91664 0.85548 0.98552 1.21165 1.31481 1.11848
0.90455 0.92534 1.24879 0.95127 0.95019 0.98811 1.69881 1.37080
1.22884 1.22995 0.86667 0.79340 0.79644 0.82372 1.20481 1.21376
1.20251 1.60645 1.48408 1.14999 1.06234 1.21791 0.93294 0.99283
0.90535 1.23510 0.90297 0.98179 0.95445 0.91357 1.23384 0.96303
1.02283 0.95992 1.23939 0.95751 1.00542 0.93255 1.68527 1.05204
1.39284 1.04278 1.22565 0.94226 0.92242 1.01709 1.21614 0.95208
1.01595 1.01178 0.93313 0.97126 0.92999 0.89921 0.97244 0.92985
0.86097 0.91370 0.96266 0.89141 0.91646 0.89940 0.92115 0.95287
0.90050 0.93112 0.91523 0.93630
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 C -0.12 -2.76 9.47 37.15 0.35 -2.41 16
2 C -0.10 -2.48 5.58 -26.74 -0.15 -2.63 16
3 C 0.22 5.46 2.30 -68.86 -0.16 5.30 16
4 H 0.00 -0.09 7.72 -51.93 -0.40 -0.49 16
5 C -0.51 -13.85 7.39 -34.44 -0.25 -14.11 16
6 H 0.06 1.52 7.60 -52.49 -0.40 1.12 16
7 C 0.06 1.75 5.30 -17.82 -0.09 1.65 16
8 N -0.89 -25.52 11.33 55.43 0.63 -24.89 16
9 Si 0.89 21.39 29.54 -169.99 -5.02 16.37 16
10 H -0.28 -6.61 7.11 56.52 0.40 -6.21 16
11 H -0.29 -6.88 7.11 56.52 0.40 -6.48 16
12 H -0.28 -6.61 7.11 56.52 0.40 -6.21 16
13 N -0.67 -14.22 5.45 -107.95 -0.59 -14.81 16
14 C 0.08 1.48 5.66 -3.82 -0.02 1.46 16
15 C 0.04 0.52 3.44 -66.65 -0.23 0.29 16
16 H 0.07 0.97 7.93 -51.93 -0.41 0.56 16
17 C -0.14 -1.72 7.84 -25.80 -0.20 -1.93 16
18 C -0.01 -0.07 7.96 -2.77 -0.02 -0.09 16
19 N -0.45 -6.70 5.90 -230.67 -1.36 -8.06 16
20 C 0.02 0.30 5.52 -3.83 -0.02 0.28 16
21 C -0.14 -1.80 10.22 37.15 0.38 -1.42 16
22 H 0.05 1.22 7.39 -51.93 -0.38 0.83 16
23 H 0.01 0.21 8.14 -51.93 -0.42 -0.21 16
24 H 0.05 1.20 7.47 -51.93 -0.39 0.81 16
25 H 0.08 2.29 6.09 -51.93 -0.32 1.97 16
26 H 0.01 0.21 7.58 -51.93 -0.39 -0.18 16
27 H 0.26 7.16 8.31 -40.82 -0.34 6.82 16
28 H 0.32 6.74 7.93 -39.29 -0.31 6.43 16
29 H 0.07 1.32 7.35 -51.93 -0.38 0.93 16
30 H 0.02 0.36 7.95 -51.93 -0.41 -0.05 16
31 H 0.09 1.13 7.94 -51.93 -0.41 0.72 16
32 H 0.06 0.68 8.14 -51.93 -0.42 0.26 16
33 H 0.08 0.94 8.14 -51.93 -0.42 0.51 16
34 H 0.06 0.65 7.48 -51.93 -0.39 0.27 16
35 H 0.03 0.36 7.38 -51.93 -0.38 -0.02 16
36 H 0.08 1.27 7.86 -51.93 -0.41 0.86 16
37 H 0.05 0.58 8.14 -51.93 -0.42 0.16 16
38 H 0.07 0.98 8.14 -51.93 -0.42 0.56 16
39 H 0.04 0.55 8.14 -51.93 -0.42 0.12 16
LS Contribution 307.04 15.07 4.63 4.63
Total: -1.00 -28.08 307.04 -9.20 -37.28
By element:
Atomic # 1 Polarization: 10.15 SS G_CDS: -7.06 Total: 3.09 kcal
Atomic # 6 Polarization: -13.17 SS G_CDS: -0.42 Total: -13.59 kcal
Atomic # 7 Polarization: -46.44 SS G_CDS: -1.32 Total: -47.76 kcal
Atomic # 14 Polarization: 21.39 SS G_CDS: -5.02 Total: 16.37 kcal
Total LS contribution 4.63 Total: 4.63 kcal
Total: -28.08 -9.20 -37.28 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.
ZINC000712527910.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 61.549 kcal
(2) G-P(sol) polarization free energy of solvation -28.076 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 33.473 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -9.199 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -37.275 kcal
(6) G-S(sol) free energy of system = (1) + (5) 24.274 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.25 seconds