Wall clock time and date at job start Mon Mar 30 2020 03:25:05
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 1.31517 * 1
3 3 Si 1.86806 * 119.99702 * 2 1
4 4 H 1.48502 * 109.46880 * 269.99819 * 3 2 1
5 5 H 1.48499 * 109.47200 * 30.00019 * 3 2 1
6 6 H 1.48502 * 109.46838 * 149.99718 * 3 2 1
7 7 C 1.37870 * 120.00216 * 179.97438 * 2 1 3
8 8 H 1.07996 * 120.00046 * 180.02562 * 7 2 1
9 9 C 1.50701 * 119.99901 * 359.97438 * 7 2 1
10 10 N 1.46501 * 109.47121 * 180.02562 * 9 7 2
11 11 C 1.38314 * 119.99812 * 90.00015 * 10 9 7
12 12 N 1.31641 * 127.50680 * 354.78032 * 11 10 9
13 13 C 1.31285 * 116.79506 * 179.97438 * 12 11 10
14 14 N 1.30123 * 117.87378 * 359.97438 * 13 12 11
15 15 S 1.69946 * 105.76840 * 0.02562 * 14 13 12
16 16 C 1.46502 * 120.00203 * 270.00199 * 10 9 7
17 17 C 1.52996 * 117.49628 * 13.61841 * 16 10 9
18 18 C 1.52991 * 117.49632 * 304.99726 * 16 10 9
19 19 H 0.97006 * 120.00091 * 0.02562 * 1 2 3
20 20 H 1.08995 * 109.47223 * 60.00045 * 9 7 2
21 21 H 1.08997 * 109.47304 * 299.99797 * 9 7 2
22 22 H 1.07998 * 121.06264 * 180.02562 * 13 12 11
23 23 H 1.09004 * 115.54910 * 159.32691 * 16 10 9
24 24 H 1.08998 * 117.50067 * 359.97438 * 17 16 10
25 25 H 1.09001 * 117.49864 * 145.02197 * 17 16 10
26 26 H 1.09008 * 117.49833 * 214.97640 * 18 16 10
27 27 H 1.08997 * 117.50426 * 359.97438 * 18 16 10
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 2.2491 1.6178 0.0000
4 1 2.4966 2.0465 -1.4001
5 1 1.4465 2.6527 0.7000
6 1 3.5466 1.4403 0.7001
7 6 2.0046 -1.1940 0.0005
8 1 3.0845 -1.1939 0.0010
9 6 1.2511 -2.4991 0.0017
10 7 2.2031 -3.6126 0.0027
11 6 2.6525 -4.1371 1.2010
12 7 2.3998 -3.6943 2.4147
13 6 2.9384 -4.3584 3.4110
14 7 3.6732 -5.3936 3.1255
15 16 3.6641 -5.5130 1.4302
16 6 2.6792 -4.1705 -1.2655
17 6 2.4093 -3.3642 -2.5375
18 6 1.6257 -4.6499 -2.2660
19 1 -0.4850 0.8401 -0.0004
20 1 0.6241 -2.5575 -0.8880
21 1 0.6248 -2.5563 0.8919
22 1 2.7761 -4.0555 4.4349
23 1 3.6137 -4.7291 -1.2120
24 1 1.8773 -2.4189 -2.4308
25 1 3.1664 -3.3922 -3.3212
26 1 1.8673 -5.5238 -2.8712
27 1 0.5785 -4.5507 -1.9806
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)
Si: (AM1): M.J.S.DEWAR, C. JIE, ORGANOMETALLICS, 6, 1486-1490 (1987).
S: (AM1): M.J.S. DEWAR, Y.-C. YUAN, INORGANIC CHEM., 29, 589 (1990)
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
ZINC000083651350.mol2 27
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 03:25:05
Heat of formation + Delta-G solvation = 70.251129 kcal
Electronic energy + Delta-G solvation = -13243.512193 eV
Core-core repulsion = 10935.680216 eV
Total energy + Delta-G solvation = -2307.831978 eV
No. of doubly occupied orbitals = 38
Molecular weight
(most abundant/longest-lived isotopes) = 225.063 amu
Computer time = 0.22 seconds
Orbital eigenvalues (eV)
-40.86542 -39.38040 -35.60947 -34.59074 -31.98937 -29.61719 -26.17041 -25.20253
-23.22489 -22.31045 -20.87742 -19.57769 -18.64554 -18.06113 -16.83531 -16.24822
-15.94567 -15.89894 -15.25224 -14.59369 -13.82372 -13.46018 -13.22169 -12.84514
-12.76107 -12.63877 -12.43121 -12.26484 -12.03495 -11.53684 -11.39912 -11.33009
-10.63996 -10.40581 -10.30951 -8.75540 -8.18085 -6.36160 -0.13421 0.08489
0.97306 1.37848 1.40337 1.49924 1.84328 1.94988 2.38244 2.95291
3.08062 3.51264 3.79090 3.97369 4.09126 4.50398 4.66441 4.81969
4.94870 4.98595 5.09969 5.21330 5.35903 5.59971 5.87927 6.00681
6.13440 6.70973 7.00717 7.32817 8.83567
Molecular weight = 225.06amu
Principal moments of inertia in cm(-1)
A = 0.025745 B = 0.010235 C = 0.008133
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1087.336072 B = 2735.047368 C = 3441.839395
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.924 5.924
2 C 0.018 3.982
3 Si 0.960 3.040
4 H -0.266 1.266
5 H -0.282 1.282
6 H -0.277 1.277
7 C -0.530 4.530
8 H 0.048 0.952
9 C 0.272 3.728
10 N -0.511 5.511
11 C 0.347 3.653
12 N -0.622 5.622
13 C 0.287 3.713
14 N -0.539 5.539
15 S 0.170 5.830
16 C 0.048 3.952
17 C -0.169 4.169
18 C -0.169 4.169
19 H 0.268 0.732
20 H 0.036 0.964
21 H 0.011 0.989
22 H 0.239 0.761
23 H 0.146 0.854
24 H 0.085 0.915
25 H 0.132 0.868
26 H 0.140 0.860
27 H 0.082 0.918
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 5.255 -8.587 -3.507 10.661
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 -0.563 5.563
2 C -0.181 4.181
3 Si 0.786 3.214
4 H -0.191 1.191
5 H -0.207 1.207
6 H -0.202 1.202
7 C -0.569 4.569
8 H 0.067 0.933
9 C 0.150 3.850
10 N -0.222 5.222
11 C -0.030 4.030
12 N -0.360 5.360
13 C -0.023 4.023
14 N -0.374 5.374
15 S 0.302 5.698
16 C -0.056 4.056
17 C -0.207 4.207
18 C -0.208 4.208
19 H 0.077 0.923
20 H 0.053 0.947
21 H 0.029 0.971
22 H 0.255 0.745
23 H 0.163 0.837
24 H 0.104 0.896
25 H 0.150 0.850
26 H 0.158 0.842
27 H 0.101 0.899
Dipole moment (debyes) X Y Z Total
from point charges 5.750 -9.378 -3.495 11.542
hybrid contribution -0.546 2.021 0.611 2.181
sum 5.204 -7.357 -2.884 9.461
Atomic orbital electron populations
1.70020 1.07288 1.28166 1.50866 1.25657 0.95607 1.02390 0.94482
0.85522 0.78279 0.79004 0.78641 1.19094 1.20741 1.20192 1.21474
0.92890 0.91306 1.51226 0.93331 1.19017 0.86862 0.82334 0.96811
1.46197 1.43260 1.32909 0.99874 1.25464 0.93584 0.94032 0.89912
1.67572 1.34886 1.35841 0.97652 1.25255 0.89048 0.87040 1.00942
1.77533 1.31330 1.25573 1.02969 1.84235 1.50321 1.28638 1.06610
1.22104 1.00050 1.04046 0.79405 1.23420 1.03959 0.96368 0.96912
1.23525 0.96910 0.99287 1.01094 0.92346 0.94652 0.97087 0.74515
0.83699 0.89622 0.84972 0.84222 0.89925
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 15.
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 -0.92 -52.81 13.29 21.45 0.28 -52.53 15
2 C 0.02 1.00 5.46 84.65 0.46 1.46 15
3 Si 0.96 43.26 29.54 68.60 2.03 45.29 15
4 H -0.27 -11.33 7.11 99.48 0.71 -10.62 15
5 H -0.28 -12.50 7.11 99.48 0.71 -11.80 15
6 H -0.28 -12.52 7.11 99.48 0.71 -11.81 15
7 C -0.53 -28.61 8.92 25.60 0.23 -28.38 15
8 H 0.05 2.68 7.81 -2.91 -0.02 2.65 15
9 C 0.27 13.56 4.57 85.63 0.39 13.96 15
10 N -0.51 -21.08 2.90 -688.44 -2.00 -23.07 15
11 C 0.35 14.22 7.93 178.86 1.42 15.64 15
12 N -0.62 -26.98 10.16 -212.86 -2.16 -29.14 15
13 C 0.29 10.26 12.33 181.53 2.24 12.50 15
14 N -0.54 -19.17 12.20 -70.99 -0.87 -20.03 15
15 S 0.17 5.67 22.72 -56.49 -1.28 4.39 15
16 C 0.05 1.49 6.32 44.99 0.28 1.78 15
17 C -0.17 -4.92 9.72 30.59 0.30 -4.63 15
18 C -0.17 -4.36 10.02 30.59 0.31 -4.05 15
19 H 0.27 14.45 8.31 -92.70 -0.77 13.68 15
20 H 0.04 1.80 6.25 -2.39 -0.01 1.78 15
21 H 0.01 0.63 7.79 -2.39 -0.02 0.61 15
22 H 0.24 6.48 8.06 -2.91 -0.02 6.45 15
23 H 0.15 3.76 7.44 -2.39 -0.02 3.74 15
24 H 0.09 3.22 6.29 -2.39 -0.02 3.20 15
25 H 0.13 2.91 8.14 -2.39 -0.02 2.90 15
26 H 0.14 2.48 8.14 -2.38 -0.02 2.46 15
27 H 0.08 2.44 7.83 -2.39 -0.02 2.42 15
Total: -1.00 -63.96 253.45 2.81 -61.15
By element:
Atomic # 1 Polarization: 4.49 SS G_CDS: 1.18 Total: 5.67 kcal
Atomic # 6 Polarization: 2.65 SS G_CDS: 5.63 Total: 8.28 kcal
Atomic # 7 Polarization: -120.03 SS G_CDS: -4.74 Total: -124.77 kcal
Atomic # 14 Polarization: 43.26 SS G_CDS: 2.03 Total: 45.29 kcal
Atomic # 16 Polarization: 5.67 SS G_CDS: -1.28 Total: 4.39 kcal
Total: -63.96 2.81 -61.15 kcal
The number of atoms in the molecule is 27
The average number of expansion shells was 15.00
The maximum number of expansion shells was 15
The minimum number of expansion shells was 15
**** 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.
ZINC000083651350.mol2 27
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 131.404 kcal
(2) G-P(sol) polarization free energy of solvation -63.962 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 67.442 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.809 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.152 kcal
(6) G-S(sol) free energy of system = (1) + (5) 70.251 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.22 seconds