Wall clock time and date at job start Mon Mar 30 2020 04:14:09
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
*******************************************************************************
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 1.53006 * 1
3 3 H 1.08998 * 109.47210 * 2 1
4 4 C 1.53000 * 109.46966 * 239.99829 * 2 1 3
5 5 C 1.50706 * 109.46910 * 175.00073 * 4 2 1
6 6 H 1.07995 * 120.00169 * 0.02562 * 5 4 2
7 7 C 1.37875 * 119.99936 * 180.02562 * 5 4 2
8 8 N 1.31515 * 120.00188 * 359.97438 * 7 5 4
9 9 Si 1.86795 * 120.00058 * 180.02562 * 7 5 4
10 10 H 1.48504 * 109.47272 * 0.02562 * 9 7 5
11 11 H 1.48508 * 109.47408 * 119.99863 * 9 7 5
12 12 H 1.48498 * 109.47120 * 239.99990 * 9 7 5
13 13 N 1.46905 * 109.46689 * 120.00128 * 2 1 3
14 14 C 1.47843 * 111.00101 * 38.65866 * 13 2 1
15 15 C 1.54908 * 104.79242 * 213.63513 * 14 13 2
16 16 C 1.55139 * 101.65331 * 37.06908 * 15 14 13
17 17 H 1.09000 * 110.85672 * 82.80190 * 16 15 14
18 18 O 1.42904 * 110.70410 * 205.96230 * 16 15 14
19 19 C 1.47440 * 111.00075 * 277.81082 * 13 2 1
20 20 C 1.52998 * 109.89229 * 242.67003 * 19 13 2
21 21 C 1.53007 * 109.88717 * 3.85673 * 19 13 2
22 22 H 1.08998 * 109.47229 * 161.52806 * 1 2 3
23 23 H 1.09004 * 109.46737 * 41.52900 * 1 2 3
24 24 H 1.08994 * 109.47113 * 281.53059 * 1 2 3
25 25 H 1.09003 * 109.47275 * 295.00219 * 4 2 1
26 26 H 1.09001 * 109.47019 * 55.00664 * 4 2 1
27 27 H 0.96997 * 120.00620 * 179.97438 * 8 7 5
28 28 H 1.08993 * 110.37501 * 332.46346 * 14 13 2
29 29 H 1.08994 * 110.37284 * 94.80734 * 14 13 2
30 30 H 1.09001 * 110.99156 * 278.97848 * 15 14 13
31 31 H 1.09005 * 111.01970 * 155.17698 * 15 14 13
32 32 H 0.96699 * 114.00200 * 293.60122 * 18 16 15
33 33 H 1.08997 * 109.47397 * 59.99414 * 20 19 13
34 34 H 1.08999 * 109.47436 * 180.02562 * 20 19 13
35 35 H 1.09004 * 109.46704 * 299.99958 * 20 19 13
36 36 H 1.08994 * 109.47215 * 60.81230 * 21 19 13
37 37 H 1.08996 * 109.47003 * 180.81606 * 21 19 13
38 38 H 1.09001 * 109.47032 * 300.81508 * 21 19 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 1.5301 0.0000 0.0000
3 1 1.8934 1.0276 0.0000
4 6 2.0400 -0.7213 -1.2492
5 6 3.5420 -0.6150 -1.3127
6 1 4.0791 -0.0862 -0.5392
7 6 4.2304 -1.1927 -2.3583
8 7 3.5764 -1.8370 -3.3000
9 14 6.0921 -1.0615 -2.4366
10 1 6.5840 -0.2931 -1.2649
11 1 6.6855 -2.4228 -2.4196
12 1 6.4871 -0.3650 -3.6872
13 7 2.0196 -0.6926 1.1995
14 6 1.1800 -1.8686 1.5121
15 6 1.1838 -1.9575 3.0586
16 6 1.1567 -0.4588 3.4586
17 1 0.1387 -0.0697 3.4368
18 8 1.7403 -0.2698 4.7493
19 6 2.0194 0.2081 2.3668
20 6 3.4490 0.3991 2.8773
21 6 1.4163 1.5603 1.9807
22 1 -0.3633 -0.9747 -0.3256
23 1 -0.3633 0.7694 -0.6814
24 1 -0.3633 0.2054 1.0069
25 1 1.7516 -1.7716 -1.2056
26 1 1.6055 -0.2617 -2.1370
27 1 4.0607 -2.2432 -4.0358
28 1 0.1654 -1.7194 1.1430
29 1 1.6135 -2.7701 1.0791
30 1 2.0912 -2.4416 3.4197
31 1 0.2962 -2.4750 3.4226
32 1 1.2366 -0.6701 5.4712
33 1 4.0617 0.8340 2.0877
34 1 3.4408 1.0653 3.7400
35 1 3.8628 -0.5664 3.1682
36 1 0.3872 1.4183 1.6509
37 1 1.4327 2.2253 2.8442
38 1 1.9995 2.0006 1.1719
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)
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
ZINC000695885767.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 04:14:09
Heat of formation + Delta-G solvation = -55.749159 kcal
Electronic energy + Delta-G solvation = -17293.397698 eV
Core-core repulsion = 14749.411027 eV
Total energy + Delta-G solvation = -2543.986672 eV
No. of doubly occupied orbitals = 44
Molecular weight
(most abundant/longest-lived isotopes) = 227.163 amu
Computer time = 0.37 seconds
Orbital eigenvalues (eV)
-41.37608 -37.54640 -35.29692 -33.72400 -33.33232 -29.65230 -29.34665 -27.77349
-25.79053 -25.04597 -23.10363 -21.04221 -19.18676 -18.36272 -18.24991 -16.96474
-16.60780 -16.15046 -15.73345 -15.16047 -14.72047 -14.40541 -14.15906 -13.60886
-13.52184 -13.37565 -13.15763 -13.03847 -12.81467 -12.70959 -12.55134 -12.41262
-12.20755 -11.87799 -11.81707 -11.48226 -11.22888 -11.02501 -10.82463 -10.74223
-10.47204 -8.86254 -8.09787 -6.13780 1.38871 1.40115 1.53275 2.46820
3.07040 3.25754 3.31998 3.69348 3.81644 4.07825 4.23121 4.29459
4.34010 4.44799 4.51336 4.57991 4.66743 4.75267 4.86727 4.93140
5.03396 5.05225 5.13016 5.15035 5.22557 5.26446 5.28172 5.40239
5.50041 5.59306 5.75367 5.91078 6.35173 6.46715 6.59530 6.98433
7.00403 7.51637 9.02560
Molecular weight = 227.16amu
Principal moments of inertia in cm(-1)
A = 0.031512 B = 0.008526 C = 0.007834
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 888.337881 B = 3283.115854 C = 3573.462827
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.173 4.173
2 C 0.080 3.920
3 H 0.077 0.923
4 C 0.041 3.959
5 C -0.494 4.494
6 H 0.054 0.946
7 C -0.007 4.007
8 N -0.941 5.941
9 Si 0.954 3.046
10 H -0.267 1.267
11 H -0.284 1.284
12 H -0.280 1.280
13 N -0.518 5.518
14 C 0.032 3.968
15 C -0.150 4.150
16 C 0.103 3.897
17 H 0.080 0.920
18 O -0.566 6.566
19 C 0.093 3.907
20 C -0.104 4.104
21 C -0.168 4.168
22 H 0.049 0.951
23 H 0.061 0.939
24 H 0.076 0.924
25 H -0.013 1.013
26 H -0.009 1.009
27 H 0.258 0.742
28 H 0.067 0.933
29 H 0.050 0.950
30 H 0.068 0.932
31 H 0.100 0.900
32 H 0.393 0.607
33 H 0.031 0.969
34 H 0.067 0.933
35 H 0.039 0.961
36 H 0.077 0.923
37 H 0.069 0.931
38 H 0.055 0.945
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -7.914 3.528 15.097 17.407
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 -0.231 4.231
2 C -0.029 4.029
3 H 0.095 0.905
4 C 0.004 3.996
5 C -0.532 4.532
6 H 0.072 0.928
7 C -0.203 4.203
8 N -0.583 5.583
9 Si 0.780 3.220
10 H -0.192 1.192
11 H -0.210 1.210
12 H -0.206 1.206
13 N -0.243 5.243
14 C -0.095 4.095
15 C -0.188 4.188
16 C 0.043 3.957
17 H 0.098 0.902
18 O -0.373 6.373
19 C 0.004 3.996
20 C -0.162 4.162
21 C -0.225 4.225
22 H 0.068 0.932
23 H 0.080 0.920
24 H 0.094 0.906
25 H 0.006 0.994
26 H 0.009 0.991
27 H 0.067 0.933
28 H 0.085 0.915
29 H 0.068 0.932
30 H 0.087 0.913
31 H 0.118 0.882
32 H 0.243 0.757
33 H 0.050 0.950
34 H 0.085 0.915
35 H 0.059 0.941
36 H 0.095 0.905
37 H 0.088 0.912
38 H 0.074 0.926
Dipole moment (debyes) X Y Z Total
from point charges -6.916 3.603 14.501 16.465
hybrid contribution -0.024 -0.432 -0.349 0.556
sum -6.940 3.170 14.152 16.078
Atomic orbital electron populations
1.22609 0.96782 1.01646 1.02078 1.21993 0.92406 0.98023 0.90432
0.90468 1.18979 0.95013 0.93940 0.91687 1.21509 0.93481 1.32014
1.06241 0.92806 1.25840 1.02744 0.95803 0.95868 1.70095 1.36894
1.38249 1.13095 0.85558 0.80908 0.77622 0.77901 1.19173 1.21008
1.20569 1.63556 1.51768 1.06809 1.02124 1.23085 0.96792 0.94001
0.95646 1.23335 1.03229 0.97516 0.94747 1.22961 0.95514 0.93743
0.83456 0.90200 1.86511 1.54352 1.80313 1.16136 1.21752 0.96026
0.92340 0.89512 1.21392 0.94976 1.00742 0.99130 1.22626 1.01693
0.96382 1.01842 0.93203 0.91983 0.90550 0.99438 0.99072 0.93337
0.91463 0.93198 0.91324 0.88189 0.75738 0.94991 0.91459 0.94137
0.90451 0.91199 0.92627
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 -0.17 -5.54 6.95 71.98 0.50 -5.04 16
2 C 0.08 3.24 1.79 44.92 0.08 3.32 16
3 H 0.08 3.19 5.20 -2.39 -0.01 3.18 16
4 C 0.04 2.19 4.47 29.85 0.13 2.33 16
5 C -0.49 -28.91 8.84 25.60 0.23 -28.68 16
6 H 0.05 3.15 7.74 -2.91 -0.02 3.12 16
7 C -0.01 -0.42 5.46 84.65 0.46 0.05 16
8 N -0.94 -59.06 13.29 21.45 0.28 -58.77 16
9 Si 0.95 46.91 29.54 68.60 2.03 48.94 16
10 H -0.27 -12.77 7.11 99.48 0.71 -12.07 16
11 H -0.28 -13.74 7.11 99.48 0.71 -13.03 16
12 H -0.28 -13.32 7.11 99.48 0.71 -12.61 16
13 N -0.52 -19.80 4.39 -811.66 -3.56 -23.36 16
14 C 0.03 1.07 5.96 86.77 0.52 1.59 16
15 C -0.15 -3.75 6.80 31.98 0.22 -3.53 16
16 C 0.10 2.48 3.71 31.77 0.12 2.60 16
17 H 0.08 1.61 7.83 -2.39 -0.02 1.59 16
18 O -0.57 -12.29 11.82 -148.98 -1.76 -14.05 16
19 C 0.09 2.91 0.94 3.87 0.00 2.91 16
20 C -0.10 -3.52 8.07 71.98 0.58 -2.94 16
21 C -0.17 -4.66 7.05 71.98 0.51 -4.16 16
22 H 0.05 1.65 6.89 -2.39 -0.02 1.64 16
23 H 0.06 1.87 8.14 -2.38 -0.02 1.85 16
24 H 0.08 2.00 5.40 -2.39 -0.01 1.99 16
25 H -0.01 -0.74 7.85 -2.39 -0.02 -0.76 16
26 H -0.01 -0.51 8.14 -2.39 -0.02 -0.53 16
27 H 0.26 15.30 8.31 -92.71 -0.77 14.53 16
28 H 0.07 2.06 4.85 -2.39 -0.01 2.04 16
29 H 0.05 1.93 8.14 -2.39 -0.02 1.91 16
30 H 0.07 1.89 8.14 -2.39 -0.02 1.87 16
31 H 0.10 1.84 8.14 -2.38 -0.02 1.82 16
32 H 0.39 4.62 9.12 -74.06 -0.68 3.95 16
33 H 0.03 1.18 8.14 -2.39 -0.02 1.16 16
34 H 0.07 2.01 7.59 -2.39 -0.02 1.99 16
35 H 0.04 1.43 8.14 -2.38 -0.02 1.41 16
36 H 0.08 1.94 4.74 -2.39 -0.01 1.92 16
37 H 0.07 1.68 8.14 -2.39 -0.02 1.66 16
38 H 0.05 1.74 6.13 -2.39 -0.01 1.73 16
Total: -1.00 -69.14 287.18 0.69 -68.45
By element:
Atomic # 1 Polarization: 9.99 SS G_CDS: 0.36 Total: 10.35 kcal
Atomic # 6 Polarization: -34.90 SS G_CDS: 3.35 Total: -31.55 kcal
Atomic # 7 Polarization: -78.86 SS G_CDS: -3.28 Total: -82.14 kcal
Atomic # 8 Polarization: -12.29 SS G_CDS: -1.76 Total: -14.05 kcal
Atomic # 14 Polarization: 46.91 SS G_CDS: 2.03 Total: 48.94 kcal
Total: -69.14 0.69 -68.45 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.
ZINC000695885767.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 12.700 kcal
(2) G-P(sol) polarization free energy of solvation -69.144 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -56.444 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.695 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.449 kcal
(6) G-S(sol) free energy of system = (1) + (5) -55.749 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.37 seconds