Wall clock time and date at job start Mon Mar 30 2020 02:01:05
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
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS WATER
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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 1.31519 * 1
3 3 Si 1.86800 * 120.00005 * 2 1
4 4 H 1.48499 * 109.46616 * 179.97438 * 3 2 1
5 5 H 1.48501 * 109.47104 * 299.99522 * 3 2 1
6 6 H 1.48489 * 109.47200 * 59.99802 * 3 2 1
7 7 C 1.37876 * 119.99563 * 179.97438 * 2 1 3
8 8 H 1.08001 * 119.99683 * 179.97438 * 7 2 1
9 9 C 1.50697 * 120.00428 * 0.02562 * 7 2 1
10 10 C 1.52997 * 109.47466 * 179.97438 * 9 7 2
11 11 C 1.53000 * 109.47060 * 180.02562 * 10 9 7
12 12 N 1.46901 * 109.46769 * 180.02562 * 11 10 9
13 13 C 1.47477 * 111.00075 * 74.02853 * 12 11 10
14 14 C 1.53510 * 87.93434 * 138.70391 * 13 12 11
15 15 C 1.53002 * 114.17242 * 220.33113 * 14 13 12
16 16 O 1.42900 * 109.46649 * 268.83763 * 15 14 13
17 17 C 1.47489 * 110.99919 * 169.99763 * 12 11 10
18 18 H 0.97002 * 119.99731 * 0.02562 * 1 2 3
19 19 H 1.09002 * 109.47120 * 59.99671 * 9 7 2
20 20 H 1.08998 * 109.46862 * 300.00473 * 9 7 2
21 21 H 1.09002 * 109.47153 * 59.99773 * 10 9 7
22 22 H 1.09001 * 109.46832 * 299.99964 * 10 9 7
23 23 H 1.09001 * 109.47194 * 299.99650 * 11 10 9
24 24 H 1.08992 * 109.47399 * 59.99823 * 11 10 9
25 25 H 1.09006 * 113.47280 * 253.46465 * 13 12 11
26 26 H 1.08995 * 113.48008 * 23.93226 * 13 12 11
27 27 H 1.09001 * 114.35108 * 87.63208 * 14 13 12
28 28 H 1.09000 * 109.47359 * 28.83256 * 15 14 13
29 29 H 1.09003 * 109.47481 * 148.83549 * 15 14 13
30 30 H 0.96705 * 113.99513 * 179.97438 * 16 15 14
31 31 H 1.09002 * 113.47515 * 336.06433 * 17 12 11
32 32 H 1.08999 * 113.47246 * 106.52749 * 17 12 11
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 1.3152 0.0000 0.0000
3 14 2.2492 1.6177 0.0000
4 1 3.7092 1.3463 0.0006
5 1 1.8905 2.3964 -1.2126
6 1 1.8904 2.3964 1.2124
7 6 2.0045 -1.1941 0.0005
8 1 3.0845 -1.1941 0.0001
9 6 1.2510 -2.4992 0.0005
10 6 2.2451 -3.6621 0.0005
11 6 1.4800 -4.9871 -0.0001
12 7 2.4346 -6.1037 0.0005
13 6 3.0651 -6.2593 1.3246
14 6 2.9145 -7.7777 1.1562
15 6 2.4912 -8.5105 2.4309
16 8 3.6542 -8.9278 3.1488
17 6 1.7472 -7.3866 0.2391
18 1 -0.4850 0.8401 -0.0004
19 1 0.6246 -2.5571 -0.8897
20 1 0.6240 -2.5566 0.8902
21 1 2.8718 -3.6044 0.8905
22 1 2.8718 -3.6044 -0.8895
23 1 0.8531 -5.0451 0.8897
24 1 0.8537 -5.0446 -0.8902
25 1 4.1027 -5.9265 1.3533
26 1 2.4682 -5.8516 2.1404
27 1 3.7462 -8.2573 0.6401
28 1 1.8995 -7.8412 3.0553
29 1 1.8943 -9.3836 2.1669
30 1 3.4608 -9.3999 3.9703
31 1 0.7986 -7.2796 0.7652
32 1 1.6679 -8.0089 -0.6522
RHF calculation, no. of doubly occupied orbitals= 38
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=WATER
ZINC000084988760.mol2 32
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 02:01:05
Heat of formation + Delta-G solvation = -58.208507 kcal
Electronic energy + Delta-G solvation = -12495.529063 eV
Core-core repulsion = 10262.510984 eV
Total energy + Delta-G solvation = -2233.018079 eV
No. of doubly occupied orbitals = 38
Molecular weight
(most abundant/longest-lived isotopes) = 199.131 amu
Computer time = 0.18 seconds
Orbital eigenvalues (eV)
-41.25511 -37.52452 -36.09641 -34.05393 -31.16748 -28.29560 -26.97226 -25.74013
-23.22801 -21.68521 -20.71793 -18.51460 -18.22134 -16.87588 -16.72679 -16.34665
-16.27649 -15.23987 -14.90451 -14.41449 -14.00485 -13.71917 -13.53810 -13.18498
-12.79436 -12.62020 -12.30475 -12.02303 -11.92840 -11.70342 -11.44411 -11.34982
-11.05035 -10.80611 -10.58066 -9.87275 -8.22597 -6.33831 1.38719 1.39080
1.52948 2.39530 3.01920 3.10414 3.14711 3.55757 4.00919 4.10757
4.21732 4.29959 4.40853 4.46776 4.56368 4.64394 4.68568 4.74115
4.81973 4.89389 5.06569 5.15840 5.28953 5.39531 5.49276 5.70309
5.82153 6.06878 6.24669 6.82366 6.93935 7.35562 8.89598
Molecular weight = 199.13amu
Principal moments of inertia in cm(-1)
A = 0.069149 B = 0.005602 C = 0.005427
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 404.827263 B = 4997.345090 C = 5157.741238
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.933 5.933
2 C 0.000 4.000
3 Si 0.967 3.033
4 H -0.264 1.264
5 H -0.276 1.276
6 H -0.275 1.275
7 C -0.545 4.545
8 H 0.056 0.944
9 C 0.026 3.974
10 C -0.089 4.089
11 C 0.033 3.967
12 N -0.492 5.492
13 C 0.000 4.000
14 C -0.106 4.106
15 C 0.089 3.911
16 O -0.593 6.593
17 C 0.008 3.992
18 H 0.265 0.735
19 H -0.007 1.007
20 H -0.007 1.007
21 H 0.045 0.955
22 H 0.047 0.953
23 H 0.040 0.960
24 H 0.070 0.930
25 H 0.073 0.927
26 H 0.068 0.932
27 H 0.103 0.897
28 H 0.051 0.949
29 H 0.071 0.929
30 H 0.398 0.602
31 H 0.080 0.920
32 H 0.098 0.902
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 3.269 -16.695 4.939 17.714
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 -0.573 5.573
2 C -0.197 4.197
3 Si 0.791 3.209
4 H -0.188 1.188
5 H -0.201 1.201
6 H -0.201 1.201
7 C -0.583 4.583
8 H 0.074 0.926
9 C -0.012 4.012
10 C -0.127 4.127
11 C -0.096 4.096
12 N -0.214 5.214
13 C -0.129 4.129
14 C -0.124 4.124
15 C 0.011 3.989
16 O -0.401 6.401
17 C -0.120 4.120
18 H 0.073 0.927
19 H 0.011 0.989
20 H 0.011 0.989
21 H 0.064 0.936
22 H 0.066 0.934
23 H 0.058 0.942
24 H 0.088 0.912
25 H 0.092 0.908
26 H 0.086 0.914
27 H 0.121 0.879
28 H 0.070 0.930
29 H 0.089 0.911
30 H 0.248 0.752
31 H 0.098 0.902
32 H 0.116 0.884
Dipole moment (debyes) X Y Z Total
from point charges 3.806 -16.165 3.818 17.040
hybrid contribution -0.750 0.901 1.043 1.569
sum 3.056 -15.263 4.861 16.307
Atomic orbital electron populations
1.70100 1.07762 1.27792 1.51662 1.25984 0.95812 1.03366 0.94576
0.85376 0.78957 0.78623 0.77965 1.18820 1.20138 1.20096 1.21705
0.93436 0.92495 1.50658 0.92563 1.18976 0.94330 0.92976 0.94879
1.21321 0.97999 0.93114 1.00301 1.22577 0.94519 0.91706 1.00751
1.68932 1.21542 1.02213 1.28685 1.23905 1.01049 0.96430 0.91493
1.22660 0.99408 0.94185 0.96196 1.22145 0.87123 0.98126 0.91539
1.86451 1.33480 1.79000 1.41210 1.23856 0.96457 0.91827 0.99874
0.92668 0.98852 0.98874 0.93636 0.93403 0.94194 0.91185 0.90839
0.91359 0.87893 0.93047 0.91096 0.75243 0.90218 0.88373
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 14.
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 -0.93 -57.67 13.29 21.45 0.28 -57.39 16
2 C 0.00 0.02 5.46 84.65 0.46 0.48 16
3 Si 0.97 45.23 29.54 68.60 2.03 47.25 16
4 H -0.26 -11.90 7.11 99.48 0.71 -11.19 16
5 H -0.28 -12.50 7.11 99.48 0.71 -11.79 16
6 H -0.28 -12.44 7.11 99.48 0.71 -11.73 16
7 C -0.54 -32.25 9.11 25.60 0.23 -32.02 16
8 H 0.06 3.24 7.74 -2.91 -0.02 3.22 16
9 C 0.03 1.43 4.97 29.85 0.15 1.58 16
10 C -0.09 -3.96 5.26 30.59 0.16 -3.80 16
11 C 0.03 1.19 4.82 86.30 0.42 1.61 16
12 N -0.49 -15.30 6.41 -927.84 -5.95 -21.26 16
13 C 0.00 0.01 6.57 83.58 0.55 0.55 16
14 C -0.11 -2.33 4.34 -10.45 -0.05 -2.37 16
15 C 0.09 1.51 6.96 71.98 0.50 2.01 16
16 O -0.59 -10.84 13.66 -148.98 -2.04 -12.87 16
17 C 0.01 0.19 7.29 83.57 0.61 0.80 16
18 H 0.26 15.23 8.31 -92.71 -0.77 14.46 16
19 H -0.01 -0.41 8.14 -2.39 -0.02 -0.42 16
20 H -0.01 -0.41 8.14 -2.39 -0.02 -0.43 16
21 H 0.04 1.99 7.67 -2.39 -0.02 1.97 16
22 H 0.05 2.17 8.14 -2.39 -0.02 2.15 16
23 H 0.04 1.40 7.56 -2.39 -0.02 1.38 16
24 H 0.07 2.54 8.14 -2.39 -0.02 2.52 16
25 H 0.07 2.18 8.14 -2.38 -0.02 2.16 16
26 H 0.07 1.92 7.43 -2.39 -0.02 1.91 16
27 H 0.10 2.37 8.14 -2.39 -0.02 2.35 16
28 H 0.05 0.84 7.81 -2.39 -0.02 0.82 16
29 H 0.07 0.90 8.14 -2.39 -0.02 0.88 16
30 H 0.40 3.32 9.12 -74.05 -0.68 2.65 16
31 H 0.08 1.66 7.73 -2.39 -0.02 1.64 16
32 H 0.10 1.99 8.14 -2.39 -0.02 1.97 16
Total: -1.00 -68.68 267.51 -2.23 -70.92
By element:
Atomic # 1 Polarization: 4.10 SS G_CDS: 0.41 Total: 4.51 kcal
Atomic # 6 Polarization: -34.20 SS G_CDS: 3.03 Total: -31.17 kcal
Atomic # 7 Polarization: -72.98 SS G_CDS: -5.67 Total: -78.64 kcal
Atomic # 8 Polarization: -10.84 SS G_CDS: -2.04 Total: -12.87 kcal
Atomic # 14 Polarization: 45.23 SS G_CDS: 2.03 Total: 47.25 kcal
Total: -68.68 -2.23 -70.92 kcal
The number of atoms in the molecule is 32
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.
ZINC000084988760.mol2 32
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 12.708 kcal
(2) G-P(sol) polarization free energy of solvation -68.682 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -55.974 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.235 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -70.917 kcal
(6) G-S(sol) free energy of system = (1) + (5) -58.209 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.18 seconds