Wall clock time and date at job start Mon Mar 30 2020 05:35:45
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 C
2 2 S 1.81405 * 1
3 3 O 1.42094 * 110.54442 * 2 1
4 4 O 1.42108 * 110.53980 * 223.24746 * 2 1 3
5 5 C 1.76203 * 104.44937 * 111.62691 * 2 1 3
6 6 C 1.38814 * 119.84836 * 114.97864 * 5 2 1
7 7 C 1.38773 * 120.59365 * 180.02562 * 6 5 2
8 8 C 1.36522 * 120.30256 * 359.77929 * 7 6 5
9 9 C 1.41258 * 119.68894 * 0.47211 * 8 7 6
10 10 C 1.40352 * 120.28711 * 179.79035 * 9 8 7
11 11 H 1.07998 * 119.99730 * 154.60506 * 10 9 8
12 12 C 1.46539 * 120.00183 * 334.31755 * 10 9 8
13 13 N 1.29504 * 120.00068 * 161.50450 * 12 10 9
14 14 Si 1.86806 * 120.00097 * 341.51266 * 12 10 9
15 15 H 1.48497 * 109.46826 * 94.19389 * 14 12 10
16 16 H 1.48494 * 109.47035 * 214.19422 * 14 12 10
17 17 H 1.48497 * 109.46840 * 334.19406 * 14 12 10
18 18 C 1.36478 * 119.84634 * 294.99680 * 5 2 1
19 19 N 1.48012 * 120.15920 * 359.96193 * 18 5 2
20 20 O 1.31699 * 119.99697 * 270.02069 * 19 18 5
21 21 O 1.31695 * 120.00494 * 90.01822 * 19 18 5
22 22 H 1.08998 * 109.46726 * 308.37287 * 1 2 3
23 23 H 1.08998 * 109.46764 * 68.37337 * 1 2 3
24 24 H 1.09001 * 109.46758 * 188.37189 * 1 2 3
25 25 H 1.07995 * 119.70597 * 0.02562 * 6 5 2
26 26 H 1.08003 * 119.84671 * 180.02562 * 7 6 5
27 27 H 1.08006 * 120.15573 * 180.26190 * 8 7 6
28 28 H 0.96998 * 119.99716 * 180.02562 * 13 12 10
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 16 1.8141 0.0000 0.0000
3 8 2.3127 1.3306 0.0000
4 8 2.3127 -0.9693 -0.9118
5 6 2.2537 -0.6289 1.5862
6 6 2.9185 -1.8433 1.6879
7 6 3.2716 -2.3533 2.9293
8 6 2.9725 -1.6625 4.0683
9 6 2.2916 -0.4281 3.9794
10 6 1.9740 0.2904 5.1425
11 1 1.8431 1.3615 5.0967
12 6 1.8137 -0.4134 6.4177
13 7 1.8786 0.2429 7.5322
14 14 1.5159 -2.2575 6.4358
15 1 2.8112 -2.9665 6.5936
16 1 0.6211 -2.6033 7.5693
17 1 0.8789 -2.6685 5.1590
18 6 1.9388 0.0801 2.7091
19 7 1.2304 1.3748 2.5968
20 8 1.9166 2.4933 2.4847
21 8 -0.0861 1.4084 2.6089
22 1 -0.3633 0.6380 0.8057
23 1 -0.3633 0.3788 -0.9553
24 1 -0.3633 -1.0167 0.1496
25 1 3.1630 -2.3961 0.7931
26 1 3.7890 -3.2991 2.9944
27 1 3.2523 -2.0596 5.0329
28 1 1.7729 -0.2231 8.3763
RHF calculation, no. of doubly occupied orbitals= 46
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).
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
ZINC000138093775.mol2 28
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 05:35:45
Heat of formation + Delta-G solvation = -38.581298 kcal
Electronic energy + Delta-G solvation = -19194.198750 eV
Core-core repulsion = 15920.619595 eV
Total energy + Delta-G solvation = -3273.579154 eV
No. of doubly occupied orbitals = 46
Molecular weight
(most abundant/longest-lived isotopes) = 271.039 amu
Computer time = 0.29 seconds
Orbital eigenvalues (eV)
-40.85993 -39.17414 -38.23329 -37.19211 -36.02901 -35.43926 -33.16808 -32.84311
-30.47445 -28.38955 -26.65206 -24.43998 -22.76298 -20.85545 -19.72288 -19.45146
-19.26127 -17.93015 -17.80479 -17.34288 -17.19709 -16.54475 -15.96692 -15.62915
-14.95761 -14.60300 -14.29684 -14.14827 -14.08991 -13.66115 -13.46683 -13.32590
-13.20437 -12.79308 -12.68818 -12.51727 -12.22310 -12.08375 -12.03907 -11.74703
-11.65573 -11.31154 -10.47089 -10.26392 -9.41481 -7.08324 -1.29087 -1.11021
-0.30929 0.26443 0.34795 1.10715 1.27713 1.37760 1.60871 1.85994
2.05922 2.58514 2.80008 3.05399 3.84283 3.91550 3.99889 4.09136
4.12042 4.32245 4.47095 4.54792 4.79421 4.92309 5.02439 5.19413
5.34561 5.48041 5.62139 5.69386 6.00887 6.12237 7.60328
Molecular weight = 271.04amu
Principal moments of inertia in cm(-1)
A = 0.025306 B = 0.008474 C = 0.007156
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1106.187786 B = 3303.263464 C = 3911.691047
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.639 4.639
2 S 2.474 3.526
3 O -0.969 6.969
4 O -0.945 6.945
5 C -0.567 4.567
6 C -0.138 4.138
7 C -0.057 4.057
8 C -0.186 4.186
9 C 0.091 3.909
10 C -0.459 4.459
11 H 0.050 0.950
12 C 0.047 3.953
13 N -0.769 5.769
14 Si 0.973 3.027
15 H -0.224 1.224
16 H -0.258 1.258
17 H -0.239 1.239
18 C -0.105 4.105
19 N -0.016 5.016
20 O -0.183 6.183
21 O -0.155 6.155
22 H 0.132 0.868
23 H 0.171 0.829
24 H 0.168 0.832
25 H 0.169 0.831
26 H 0.175 0.825
27 H 0.139 0.861
28 H 0.321 0.679
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -2.535 -10.450 -5.520 12.087
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 -0.793 4.793
2 S 2.656 3.344
3 O -0.966 6.966
4 O -0.942 6.942
5 C -0.653 4.653
6 C -0.158 4.158
7 C -0.076 4.076
8 C -0.205 4.205
9 C 0.086 3.914
10 C -0.483 4.483
11 H 0.069 0.931
12 C -0.182 4.182
13 N -0.387 5.387
14 Si 0.790 3.210
15 H -0.148 1.148
16 H -0.183 1.183
17 H -0.161 1.161
18 C -0.188 4.188
19 N 0.476 4.524
20 O -0.382 6.382
21 O -0.362 6.362
22 H 0.150 0.850
23 H 0.189 0.811
24 H 0.186 0.814
25 H 0.186 0.814
26 H 0.192 0.808
27 H 0.156 0.844
28 H 0.134 0.866
Dipole moment (debyes) X Y Z Total
from point charges -1.537 -10.695 -5.769 12.248
hybrid contribution -0.665 0.736 1.280 1.619
sum -2.202 -9.959 -4.489 11.144
Atomic orbital electron populations
1.30313 1.19394 1.15119 1.14450 1.05835 0.80630 0.73997 0.73922
1.93644 1.79463 1.37487 1.86038 1.93517 1.79230 1.61197 1.60258
1.29635 1.12126 1.05982 1.17601 1.20870 1.01595 0.93209 1.00093
1.21308 0.95542 0.99753 0.90973 1.21361 1.03319 0.95568 1.00259
1.17333 0.91450 0.93592 0.89041 1.20906 1.40055 0.95326 0.91984
0.93131 1.28729 0.89530 1.07306 0.92613 1.68946 1.24727 1.43875
1.01176 0.85444 0.81557 0.73031 0.80996 1.14756 1.18328 1.16147
1.19219 1.17017 0.85570 0.97001 1.50732 1.02209 1.05318 0.94114
1.96250 1.66369 1.21358 1.54252 1.96023 0.91138 1.96150 1.52850
0.85012 0.81111 0.81418 0.81412 0.80800 0.84411 0.86596
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 C -0.64 -16.08 10.70 113.37 1.21 -14.87 15
2 S 2.47 85.96 5.33 -56.49 -0.30 85.66 15
3 O -0.97 -42.49 16.18 -121.73 -1.97 -44.46 15
4 O -0.94 -32.54 16.72 -127.65 -2.13 -34.67 15
5 C -0.57 -22.71 5.55 22.00 0.12 -22.59 15
6 C -0.14 -4.69 9.52 22.54 0.21 -4.47 15
7 C -0.06 -1.83 9.98 22.00 0.22 -1.61 15
8 C -0.19 -7.26 7.26 22.61 0.16 -7.09 15
9 C 0.09 4.36 5.27 -21.27 -0.11 4.25 15
10 C -0.46 -24.17 9.51 24.95 0.24 -23.94 15
11 H 0.05 3.07 7.72 -2.91 -0.02 3.04 15
12 C 0.05 2.13 5.59 87.20 0.49 2.62 15
13 N -0.77 -35.79 13.89 23.21 0.32 -35.47 15
14 Si 0.97 32.81 24.57 68.60 1.69 34.49 15
15 H -0.22 -6.40 6.69 99.48 0.67 -5.73 15
16 H -0.26 -7.99 7.11 99.48 0.71 -7.28 15
17 H -0.24 -8.18 6.84 99.48 0.68 -7.50 15
18 C -0.11 -5.02 6.18 36.72 0.23 -4.79 15
19 N -0.02 -0.78 2.65 -45.66 -0.12 -0.90 15
20 O -0.18 -10.00 18.92 8.58 0.16 -9.83 15
21 O -0.15 -7.25 17.12 3.52 0.06 -7.19 15
22 H 0.13 4.01 4.80 -2.39 -0.01 4.00 15
23 H 0.17 2.97 8.14 -2.39 -0.02 2.95 15
24 H 0.17 3.15 8.14 -2.39 -0.02 3.13 15
25 H 0.17 4.68 7.19 -2.91 -0.02 4.66 15
26 H 0.17 3.72 8.06 -2.91 -0.02 3.69 15
27 H 0.14 4.82 4.28 -2.91 -0.01 4.81 15
28 H 0.32 12.56 8.27 -92.71 -0.77 11.79 15
Total: -1.00 -68.94 262.17 1.63 -67.31
By element:
Atomic # 1 Polarization: 16.41 SS G_CDS: 1.16 Total: 17.56 kcal
Atomic # 6 Polarization: -75.26 SS G_CDS: 2.77 Total: -72.49 kcal
Atomic # 7 Polarization: -36.57 SS G_CDS: 0.20 Total: -36.37 kcal
Atomic # 8 Polarization: -92.28 SS G_CDS: -3.88 Total: -96.16 kcal
Atomic # 14 Polarization: 32.81 SS G_CDS: 1.69 Total: 34.49 kcal
Atomic # 16 Polarization: 85.96 SS G_CDS: -0.30 Total: 85.66 kcal
Total: -68.94 1.63 -67.31 kcal
The number of atoms in the molecule is 28
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.
ZINC000138093775.mol2 28
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 28.727 kcal
(2) G-P(sol) polarization free energy of solvation -68.941 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -40.214 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.633 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.308 kcal
(6) G-S(sol) free energy of system = (1) + (5) -38.581 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.29 seconds