Wall clock time and date at job start Tue Mar 31 2020 03:09:19
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
*******************************************************************************
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 N 1.46498 * 1
3 3 C 1.36941 * 119.99710 * 2 1
4 4 H 1.08003 * 119.99917 * 202.35035 * 3 2 1
5 5 C 1.38815 * 119.99735 * 22.34994 * 3 2 1
6 6 N 1.31614 * 120.00193 * 11.34353 * 5 3 2
7 7 Si 1.86801 * 119.99656 * 191.34318 * 5 3 2
8 8 H 1.48505 * 109.47001 * 90.00129 * 7 5 3
9 9 H 1.48502 * 109.47025 * 209.99890 * 7 5 3
10 10 H 1.48501 * 109.47254 * 330.00165 * 7 5 3
11 11 C 1.46498 * 120.00526 * 180.02562 * 2 1 3
12 12 C 1.53002 * 109.46908 * 269.99794 * 11 2 1
13 13 C 1.52997 * 109.46781 * 179.97438 * 12 11 2
14 14 N 1.46501 * 109.47187 * 179.97438 * 13 12 11
15 15 C 1.34776 * 120.00577 * 179.97438 * 14 13 12
16 16 O 1.21279 * 119.99794 * 0.02562 * 15 14 13
17 17 C 1.50698 * 120.00132 * 179.97438 * 15 14 13
18 18 N 1.46497 * 109.46901 * 180.02562 * 17 15 14
19 19 C 1.34775 * 119.99932 * 180.02562 * 18 17 15
20 20 O 1.21283 * 120.00128 * 0.02562 * 19 18 17
21 21 C 1.50700 * 120.00093 * 180.02562 * 19 18 17
22 22 C 1.53004 * 117.49676 * 248.61941 * 21 19 18
23 23 C 1.52998 * 59.99867 * 252.50759 * 22 21 19
24 24 H 1.09011 * 109.46914 * 274.20627 * 1 2 3
25 25 H 1.08999 * 109.47909 * 34.20746 * 1 2 3
26 26 H 1.09001 * 109.47011 * 154.21219 * 1 2 3
27 27 H 0.97004 * 119.99895 * 180.02562 * 6 5 3
28 28 H 1.08996 * 109.47418 * 149.99463 * 11 2 1
29 29 H 1.08999 * 109.46632 * 29.99149 * 11 2 1
30 30 H 1.09004 * 109.47219 * 59.99856 * 12 11 2
31 31 H 1.08996 * 109.46847 * 299.99916 * 12 11 2
32 32 H 1.08996 * 109.47333 * 59.99797 * 13 12 11
33 33 H 1.09003 * 109.47328 * 299.99374 * 13 12 11
34 34 H 0.97003 * 119.99744 * 0.02562 * 14 13 12
35 35 H 1.09004 * 109.47096 * 60.00371 * 17 15 14
36 36 H 1.08992 * 109.47280 * 299.99977 * 17 15 14
37 37 H 0.96997 * 120.00224 * 0.02562 * 18 17 15
38 38 H 1.09000 * 115.55112 * 34.32344 * 21 19 18
39 39 H 1.08998 * 117.49988 * 359.97438 * 22 21 19
40 40 H 1.09005 * 117.49693 * 145.02030 * 22 21 19
41 41 H 1.09003 * 117.49919 * 252.50598 * 23 22 21
42 42 H 1.08999 * 117.51613 * 107.48500 * 23 22 21
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 7 1.4650 0.0000 0.0000
3 6 2.1496 1.1860 0.0000
4 1 3.1688 1.2211 -0.3557
5 6 1.5337 2.3429 0.4572
6 7 0.3840 2.2690 1.0937
7 14 2.3365 4.0048 0.1689
8 1 1.8676 4.5633 -1.1248
9 1 1.9679 4.9303 1.2702
10 1 3.8121 3.8420 0.1320
11 6 2.1976 -1.2686 -0.0006
12 6 2.4527 -1.7109 1.4418
13 6 3.2172 -3.0361 1.4411
14 7 3.4620 -3.4593 2.8222
15 6 4.1238 -4.6074 3.0680
16 8 4.5172 -5.2899 2.1459
17 6 4.3761 -5.0423 4.4886
18 7 5.1081 -6.3113 4.4881
19 6 5.4454 -6.8952 5.6550
20 8 5.1426 -6.3703 6.7056
21 6 6.1989 -8.2003 5.6545
22 6 5.4577 -9.4441 6.1492
23 6 6.5526 -8.8124 7.0113
24 1 -0.3633 0.0754 1.0250
25 1 -0.3635 0.8498 -0.5777
26 1 -0.3633 -0.9253 -0.4471
27 1 -0.0465 3.0775 1.4128
28 1 3.1499 -1.1381 -0.5144
29 1 1.6085 -2.0281 -0.5146
30 1 1.5002 -1.8415 1.9556
31 1 3.0417 -0.9514 1.9558
32 1 4.1695 -2.9060 0.9272
33 1 2.6277 -3.7955 0.9272
34 1 3.1471 -2.9136 3.5597
35 1 3.4241 -5.1718 5.0035
36 1 4.9663 -4.2831 5.0017
37 1 5.3500 -6.7313 3.6479
38 1 6.9139 -8.3301 4.8421
39 1 4.4254 -9.3183 6.4755
40 1 5.6851 -10.3924 5.6622
41 1 7.5001 -9.3452 7.0915
42 1 6.2407 -8.2710 7.9044
RHF calculation, no. of doubly occupied orbitals= 54
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
ZINC001234391058.mol2 42
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 03:09:19
Heat of formation + Delta-G solvation = -32.332017 kcal
Electronic energy + Delta-G solvation = -21259.902405 eV
Core-core repulsion = 17855.407263 eV
Total energy + Delta-G solvation = -3404.495142 eV
No. of doubly occupied orbitals = 54
Molecular weight
(most abundant/longest-lived isotopes) = 283.168 amu
Computer time = 0.68 seconds
Orbital eigenvalues (eV)
-40.49307 -39.52108 -36.62387 -36.29261 -34.98051 -34.55361 -32.10900 -30.29750
-28.52284 -25.97193 -25.34218 -23.95650 -22.81199 -21.93775 -20.90413 -20.53602
-20.01107 -18.14539 -16.91658 -16.69075 -16.51580 -16.18053 -15.52778 -15.39438
-14.95138 -14.76828 -14.31867 -14.15617 -13.56361 -13.30407 -13.13345 -12.87448
-12.78274 -12.60786 -11.94962 -11.68083 -11.36575 -11.11995 -11.03158 -10.92494
-10.86426 -10.78103 -10.49960 -10.23410 -10.16693 -10.08604 -9.90545 -9.79457
-9.48172 -9.08494 -8.57626 -6.80108 -5.75245 -3.21327 2.16333 2.41808
2.55935 3.26786 3.36553 3.42849 3.43836 3.47949 4.30193 4.39479
4.47517 4.48879 4.54549 4.76298 5.04060 5.08852 5.20199 5.21019
5.37841 5.42210 5.45365 5.54468 5.73087 5.77021 5.87933 5.99815
6.07184 6.13496 6.39048 6.47934 6.73298 6.77893 6.96208 7.18547
7.35863 7.38519 7.70450 7.78778 7.89859 8.01548 8.37589 9.21515
9.84669 10.33275 11.29812
Molecular weight = 283.17amu
Principal moments of inertia in cm(-1)
A = 0.035298 B = 0.002271 C = 0.002219
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 793.059761 B =12328.515546 C =12616.776542
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.163 3.837
2 N -0.603 5.603
3 C -0.254 4.254
4 H 0.069 0.931
5 C 0.000 4.000
6 N -0.909 5.909
7 Si 0.905 3.095
8 H -0.288 1.288
9 H -0.291 1.291
10 H -0.280 1.280
11 C 0.156 3.844
12 C -0.151 4.151
13 C 0.119 3.881
14 N -0.718 5.718
15 C 0.506 3.494
16 O -0.545 6.545
17 C 0.098 3.902
18 N -0.713 5.713
19 C 0.545 3.455
20 O -0.542 6.542
21 C -0.195 4.195
22 C -0.152 4.152
23 C -0.147 4.147
24 H 0.027 0.973
25 H 0.044 0.956
26 H -0.004 1.004
27 H 0.252 0.748
28 H 0.046 0.954
29 H 0.039 0.961
30 H 0.061 0.939
31 H 0.069 0.931
32 H 0.066 0.934
33 H 0.064 0.936
34 H 0.405 0.595
35 H 0.099 0.901
36 H 0.100 0.900
37 H 0.413 0.587
38 H 0.126 0.874
39 H 0.100 0.900
40 H 0.105 0.895
41 H 0.103 0.897
42 H 0.108 0.892
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 8.847 -20.386 8.081 23.646
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 0.019 3.981
2 N -0.325 5.325
3 C -0.384 4.384
4 H 0.087 0.913
5 C -0.198 4.198
6 N -0.554 5.554
7 Si 0.736 3.264
8 H -0.215 1.215
9 H -0.217 1.217
10 H -0.205 1.205
11 C 0.028 3.972
12 C -0.192 4.192
13 C -0.004 4.004
14 N -0.369 5.369
15 C 0.291 3.709
16 O -0.423 6.423
17 C -0.030 4.030
18 N -0.368 5.368
19 C 0.331 3.669
20 O -0.420 6.420
21 C -0.216 4.216
22 C -0.190 4.190
23 C -0.185 4.185
24 H 0.046 0.954
25 H 0.063 0.937
26 H 0.015 0.985
27 H 0.062 0.938
28 H 0.064 0.936
29 H 0.057 0.943
30 H 0.079 0.921
31 H 0.088 0.912
32 H 0.084 0.916
33 H 0.083 0.917
34 H 0.239 0.761
35 H 0.117 0.883
36 H 0.118 0.882
37 H 0.251 0.749
38 H 0.144 0.856
39 H 0.118 0.882
40 H 0.124 0.876
41 H 0.122 0.878
42 H 0.127 0.873
Dipole moment (debyes) X Y Z Total
from point charges 8.768 -20.304 8.181 23.581
hybrid contribution 0.293 1.201 -0.125 1.242
sum 9.061 -19.103 8.056 22.626
Atomic orbital electron populations
1.20806 0.82482 0.95601 0.99239 1.43983 1.01974 1.00693 1.85852
1.19236 0.97987 0.85430 1.35721 0.91336 1.25044 0.97733 0.98581
0.98453 1.70065 1.17875 1.27069 1.40425 0.86239 0.78805 0.84035
0.77359 1.21486 1.21745 1.20501 1.20712 0.95999 0.88278 0.92192
1.22577 0.99655 0.93856 1.03112 1.21576 1.00482 0.97311 0.81031
1.46100 1.57078 1.23187 1.10509 1.20455 0.78188 0.81518 0.90774
1.90687 1.51614 1.54077 1.45927 1.21098 0.99277 0.87782 0.94799
1.45627 1.58095 1.23304 1.09778 1.19668 0.78729 0.85325 0.83158
1.90711 1.54973 1.64890 1.31400 1.22160 1.04792 0.92807 1.01840
1.22960 0.98332 0.94885 1.02789 1.22970 0.99972 1.01918 0.93605
0.95423 0.93675 0.98510 0.93752 0.93611 0.94266 0.92063 0.91183
0.91564 0.91723 0.76052 0.88263 0.88203 0.74868 0.85611 0.88164
0.87635 0.87815 0.87326
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 C 0.16 3.97 9.01 59.85 0.54 4.51 16
2 N -0.60 -14.83 2.93 -181.11 -0.53 -15.36 16
3 C -0.25 -6.86 9.67 -15.06 -0.15 -7.00 16
4 H 0.07 1.81 7.84 -52.48 -0.41 1.40 16
5 C 0.00 0.00 5.13 -17.43 -0.09 -0.09 16
6 N -0.91 -26.14 10.58 55.49 0.59 -25.55 16
7 Si 0.91 21.64 29.57 -169.99 -5.03 16.61 16
8 H -0.29 -6.89 7.11 56.52 0.40 -6.49 16
9 H -0.29 -7.03 7.11 56.52 0.40 -6.62 16
10 H -0.28 -6.52 7.11 56.52 0.40 -6.12 16
11 C 0.16 3.05 5.71 -4.04 -0.02 3.02 16
12 C -0.15 -2.53 5.65 -26.73 -0.15 -2.68 16
13 C 0.12 1.66 5.67 -4.04 -0.02 1.64 16
14 N -0.72 -8.51 5.56 -60.30 -0.33 -8.85 16
15 C 0.51 6.11 7.90 -10.99 -0.09 6.02 16
16 O -0.54 -8.19 15.67 5.56 0.09 -8.10 16
17 C 0.10 0.97 6.15 -5.20 -0.03 0.94 16
18 N -0.71 -7.13 5.53 -61.48 -0.34 -7.47 16
19 C 0.54 5.83 7.61 -10.99 -0.08 5.75 16
20 O -0.54 -7.60 16.26 5.55 0.09 -7.51 16
21 C -0.19 -1.48 6.19 -91.77 -0.57 -2.05 16
22 C -0.15 -0.96 10.23 -26.73 -0.27 -1.23 16
23 C -0.15 -1.01 10.04 -26.73 -0.27 -1.27 16
24 H 0.03 0.72 7.42 -51.92 -0.39 0.33 16
25 H 0.04 1.19 7.19 -51.93 -0.37 0.81 16
26 H 0.00 -0.08 7.84 -51.93 -0.41 -0.48 16
27 H 0.25 7.05 8.31 -40.82 -0.34 6.71 16
28 H 0.05 0.87 8.03 -51.93 -0.42 0.46 16
29 H 0.04 0.70 7.86 -51.93 -0.41 0.29 16
30 H 0.06 1.06 8.14 -51.93 -0.42 0.64 16
31 H 0.07 1.29 8.14 -51.93 -0.42 0.87 16
32 H 0.07 0.96 8.14 -51.93 -0.42 0.54 16
33 H 0.06 0.91 8.14 -51.93 -0.42 0.49 16
34 H 0.40 4.03 8.47 -40.82 -0.35 3.68 16
35 H 0.10 0.91 8.14 -51.93 -0.42 0.48 16
36 H 0.10 0.93 8.14 -51.93 -0.42 0.51 16
37 H 0.41 3.89 7.44 -40.82 -0.30 3.58 16
38 H 0.13 0.71 8.14 -51.93 -0.42 0.29 16
39 H 0.10 0.70 8.14 -51.93 -0.42 0.28 16
40 H 0.11 0.46 8.14 -51.93 -0.42 0.04 16
41 H 0.10 0.50 8.14 -51.93 -0.42 0.08 16
42 H 0.11 0.90 7.67 -51.93 -0.40 0.50 16
LS Contribution 355.89 15.07 5.36 5.36
Total: -1.00 -32.92 355.89 -8.12 -41.04
By element:
Atomic # 1 Polarization: 9.08 SS G_CDS: -6.81 Total: 2.26 kcal
Atomic # 6 Polarization: 8.76 SS G_CDS: -1.21 Total: 7.56 kcal
Atomic # 7 Polarization: -56.61 SS G_CDS: -0.62 Total: -57.23 kcal
Atomic # 8 Polarization: -15.79 SS G_CDS: 0.18 Total: -15.61 kcal
Atomic # 14 Polarization: 21.64 SS G_CDS: -5.03 Total: 16.61 kcal
Total LS contribution 5.36 Total: 5.36 kcal
Total: -32.92 -8.12 -41.04 kcal
The number of atoms in the molecule is 42
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.
ZINC001234391058.mol2 42
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 8.710 kcal
(2) G-P(sol) polarization free energy of solvation -32.921 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -24.211 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -8.121 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -41.042 kcal
(6) G-S(sol) free energy of system = (1) + (5) -32.332 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.68 seconds