Wall clock time and date at job start Mon Mar 30 2020 02:58:00
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 1.31554 * 1
3 3 Si 1.86799 * 120.00252 * 2 1
4 4 H 1.48503 * 109.46935 * 270.00189 * 3 2 1
5 5 H 1.48489 * 109.47074 * 30.00066 * 3 2 1
6 6 H 1.48503 * 109.47011 * 150.00264 * 3 2 1
7 7 C 1.38656 * 119.99653 * 180.02562 * 2 1 3
8 8 H 1.08003 * 120.00224 * 179.97438 * 7 2 1
9 9 O 1.34833 * 120.00113 * 0.27562 * 7 2 1
10 10 C 1.35762 * 116.99847 * 174.64297 * 9 7 2
11 11 C 1.39008 * 120.04442 * 185.51005 * 10 9 7
12 12 C 1.38218 * 120.31216 * 180.02562 * 11 10 9
13 13 C 1.38059 * 120.17214 * 0.02562 * 12 11 10
14 14 C 1.39514 * 119.76890 * 0.02562 * 13 12 11
15 15 C 1.38729 * 120.04967 * 5.24166 * 10 9 7
16 Xx 1.57037 * 106.90461 * 179.97438 * 14 13 12
17 16 O 1.42009 * 126.47781 * 179.97438 * 16 14 13
18 17 O 1.42100 * 107.04856 * 359.97438 * 16 14 13
19 18 C 1.42654 * 108.79569 * 0.02562 * 18 16 14
20 19 H 0.97000 * 120.00040 * 359.97438 * 1 2 3
21 20 H 1.08001 * 119.84516 * 359.97438 * 11 10 9
22 21 H 1.08006 * 119.91673 * 179.97438 * 12 11 10
23 22 H 1.07996 * 120.16765 * 359.97438 * 15 10 9
24 23 H 0.96696 * 113.99787 * 180.02562 * 17 16 14
25 24 H 1.09005 * 109.49967 * 240.01324 * 19 18 16
26 25 H 1.08996 * 109.47200 * 119.96341 * 19 18 16
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 1.3155 0.0000 0.0000
3 14 2.2496 1.6177 0.0000
4 1 2.4971 2.0463 -1.4001
5 1 1.4471 2.6526 0.7000
6 1 3.5472 1.4400 0.7000
7 6 2.0087 -1.2008 -0.0005
8 1 3.0888 -1.2009 -0.0010
9 8 1.3345 -2.3685 -0.0067
10 6 2.0698 -3.5041 -0.1198
11 6 1.4352 -4.7342 -0.2481
12 6 2.1784 -5.8940 -0.3631
13 6 3.5578 -5.8382 -0.3508
14 6 4.2002 -4.6066 -0.2212
15 6 3.4555 -3.4381 -0.1131
16 8 6.7826 -3.9292 -0.1388
17 8 5.9060 -6.2969 -0.3849
18 6 4.6166 -6.9034 -0.4540
19 1 -0.4850 0.8400 0.0004
20 1 0.3564 -4.7841 -0.2572
21 1 1.6787 -6.8463 -0.4621
22 1 3.9529 -2.4842 -0.0184
23 1 7.6727 -4.3054 -0.1730
24 1 4.5026 -7.6104 0.3678
25 1 4.5128 -7.4291 -1.4032
There are 37 doubly filled levels
RHF calculation, no. of doubly occupied orbitals= 37
No. of singly occupied orbitals= 1
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
ZINC000205712948.mol2 26
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 02:58:00
Heat of formation + Delta-G solvation = 53.078086 kcal
Electronic energy + Delta-G solvation = -12777.000872 eV
Core-core repulsion = 10227.997862 eV
Total energy + Delta-G solvation = -2549.003010 eV
No. of doubly occupied orbitals = 37
and no. of open levels = 1
Molecular weight
(most abundant/longest-lived isotopes) = 209.065 amu
Computer time = 0.25 seconds
Orbital eigenvalues (eV)
-42.25155 -39.63321 -36.18766 -34.75536 -32.32513 -31.13187 -30.80863 -29.00757
-25.94665 -24.15858 -22.59795 -21.03263 -19.79625 -17.59595 -17.09952 -16.97892
-16.55902 -15.75137 -15.41745 -15.34405 -14.38038 -14.11852 -13.71035 -13.66338
-13.39199 -13.22806 -12.98902 -12.59399 -12.25609 -11.62713 -10.66331 -10.08519
-9.99865 -9.27493 -9.17913 -9.10873 -8.67246 -4.66054 -2.16444 -0.37311
-0.27559 0.86875 1.12954 1.44179 1.74260 1.88121 2.00502 2.15036
3.01302 3.24137 3.33598 3.55539 3.66185 4.09706 4.17572 4.30536
4.67497 4.74308 4.83785 4.88852 4.97808 5.20292 5.26587 5.90141
6.88708 6.95449 7.73896
Molecular weight = 209.06amu
Principal moments of inertia in cm(-1)
A = 0.037704 B = 0.008467 C = 0.006946
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 742.458231 B = 3306.206826 C = 4030.409979
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.633 5.633
2 C -0.063 4.063
3 Si 1.028 2.972
4 H -0.246 1.246
5 H -0.231 1.231
6 H -0.254 1.254
7 C -0.028 4.028
8 H 0.162 0.838
9 O -0.141 6.141
10 C 0.120 3.880
11 C -0.085 4.085
12 C -0.038 4.038
13 C -0.129 4.129
14 C 0.299 3.701
15 C -0.220 4.220
16 O -1.121 7.121
17 O -0.767 6.767
18 C 0.108 3.892
19 H 0.346 0.654
20 H 0.213 0.787
21 H 0.220 0.780
22 H 0.167 0.833
23 H 0.232 0.768
24 H 0.029 0.971
25 H 0.030 0.970
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -23.904 10.227 0.209 26.000
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 -0.278 5.278
2 C -0.276 4.276
3 Si 0.840 3.160
4 H -0.169 1.169
5 H -0.153 1.153
6 H -0.178 1.178
7 C -0.095 4.095
8 H 0.179 0.821
9 O -0.043 6.043
10 C 0.074 3.926
11 C -0.102 4.102
12 C -0.055 4.055
13 C -0.130 4.130
14 C 0.286 3.714
15 C -0.238 4.238
16 O -0.943 6.943
17 O -0.709 6.709
18 C 0.026 3.974
19 H 0.162 0.838
20 H 0.230 0.770
21 H 0.237 0.763
22 H 0.184 0.816
23 H 0.058 0.942
24 H 0.047 0.953
25 H 0.047 0.953
Dipole moment (debyes) X Y Z Total
from point charges -24.753 10.563 0.265 26.913
hybrid contribution 2.543 0.242 0.016 2.555
sum -22.209 10.805 0.282 24.700
Atomic orbital electron populations
1.69911 1.08128 1.37285 1.12483 1.27594 0.97875 1.02966 0.99189
0.84336 0.78538 0.71294 0.81797 1.16919 1.15287 1.17775 1.25622
0.97864 0.82263 1.03788 0.82088 1.84329 1.34710 1.12191 1.73033
1.18678 0.83726 0.88281 1.01909 1.21332 1.04043 0.86064 0.98761
1.21349 0.86493 1.01993 0.95640 1.23940 0.96531 0.91979 1.00532
1.29086 0.42566 0.94947 1.04774 1.21510 0.92091 0.99925 1.10265
1.93486 1.23444 1.77632 1.99769 1.95311 1.22047 1.58052 1.95510
1.20027 0.88664 0.91869 0.96825 0.83843 0.76994 0.76331 0.81645
0.94241 0.95329 0.95303
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 18.
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 -0.63 -13.03 13.67 21.61 0.30 -12.73 15
2 C -0.06 -1.24 5.49 84.83 0.47 -0.78 15
3 Si 1.03 15.25 29.55 68.60 2.03 17.28 15
4 H -0.25 -3.84 7.11 99.48 0.71 -3.13 15
5 H -0.23 -2.87 7.11 99.48 0.71 -2.16 15
6 H -0.25 -4.62 7.11 99.48 0.71 -3.91 15
7 C -0.03 -0.65 9.49 67.92 0.64 -0.01 15
8 H 0.16 3.74 5.20 -2.91 -0.02 3.72 15
9 O -0.14 -3.47 9.76 -22.91 -0.22 -3.70 15
10 C 0.12 3.26 6.65 22.57 0.15 3.41 15
11 C -0.08 -1.67 9.98 22.45 0.22 -1.44 15
12 C -0.04 -0.90 10.03 22.22 0.22 -0.68 15
13 C -0.13 -5.50 6.31 -19.65 -0.12 -5.62 15
14 C 0.30 15.95 10.27 22.76 0.23 16.18 15
15 C -0.22 -8.59 9.21 22.57 0.21 -8.39 15
16 O -1.12 -103.94 18.54 -128.58 -2.38 -106.32 15
17 O -0.77 -60.55 15.05 -128.58 -1.94 -62.49 15
18 C 0.11 5.95 7.74 71.19 0.55 6.50 15
19 H 0.35 5.23 8.31 -92.71 -0.77 4.46 15
20 H 0.21 1.95 8.06 -2.91 -0.02 1.92 15
21 H 0.22 2.79 8.06 -2.91 -0.02 2.77 15
22 H 0.17 6.37 5.64 -2.91 -0.02 6.35 15
23 H 0.23 21.71 9.30 -74.06 -0.69 21.03 15
24 H 0.03 1.46 8.14 -2.38 -0.02 1.44 15
25 H 0.03 1.47 8.14 -2.39 -0.02 1.45 15
Total: -1.00 -125.73 243.92 0.90 -124.83
By element:
Atomic # 1 Polarization: 33.40 SS G_CDS: 0.54 Total: 33.94 kcal
Atomic # 6 Polarization: 6.61 SS G_CDS: 2.58 Total: 9.19 kcal
Atomic # 7 Polarization: -13.03 SS G_CDS: 0.30 Total: -12.73 kcal
Atomic # 8 Polarization: -167.96 SS G_CDS: -4.54 Total: -172.51 kcal
Atomic # 14 Polarization: 15.25 SS G_CDS: 2.03 Total: 17.28 kcal
Total: -125.73 0.90 -124.83 kcal
The number of atoms in the molecule is 25
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.
ZINC000205712948.mol2 26
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 177.907 kcal
(2) G-P(sol) polarization free energy of solvation -125.729 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 52.178 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.900 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -124.829 kcal
(6) G-S(sol) free energy of system = (1) + (5) 53.078 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.25 seconds