Wall clock time and date at job start Mon Mar 30 2020 00:54:12
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 N
2 2 C 1.31616 * 1
3 3 Si 1.86801 * 119.99888 * 2 1
4 4 H 1.48505 * 109.47288 * 270.00197 * 3 2 1
5 5 H 1.48493 * 109.46953 * 30.00097 * 3 2 1
6 6 H 1.48497 * 109.47298 * 150.00164 * 3 2 1
7 7 C 1.38817 * 120.00314 * 180.02562 * 2 1 3
8 8 H 1.08001 * 119.99819 * 359.97438 * 7 2 1
9 9 N 1.36935 * 119.99890 * 179.97438 * 7 2 1
10 10 C 1.46500 * 119.99902 * 179.97438 * 9 7 2
11 11 H 1.09008 * 109.47071 * 324.99933 * 10 9 7
12 12 C 1.53001 * 109.47196 * 84.99926 * 10 9 7
13 13 O 1.42898 * 109.47122 * 65.00073 * 12 10 9
14 14 C 1.52997 * 109.47295 * 204.99988 * 10 9 7
15 15 N 1.46506 * 109.47289 * 54.99786 * 14 10 9
16 16 C 1.34774 * 120.00072 * 180.02562 * 15 14 10
17 17 O 1.21634 * 119.99983 * 0.02562 * 16 15 14
18 18 C 1.47186 * 119.99768 * 180.02562 * 16 15 14
19 19 C 1.44431 * 123.46214 * 180.02562 * 18 16 15
20 20 C 1.32762 * 113.08510 * 179.97438 * 19 18 16
21 21 S 1.75511 * 110.57933 * 0.02562 * 20 19 18
22 22 C 1.36009 * 123.46295 * 359.70229 * 18 16 15
23 23 H 0.96994 * 120.00380 * 359.97438 * 1 2 3
24 24 H 0.96994 * 120.00682 * 359.97438 * 9 7 2
25 25 H 1.09005 * 109.47062 * 185.00104 * 12 10 9
26 26 H 1.08998 * 109.47183 * 304.99762 * 12 10 9
27 27 H 0.96700 * 113.99783 * 179.97438 * 13 12 10
28 28 H 1.09001 * 109.47289 * 294.99658 * 14 10 9
29 29 H 1.09004 * 109.47261 * 174.99914 * 14 10 9
30 30 H 0.97001 * 119.99251 * 0.02562 * 15 14 10
31 31 H 1.08005 * 123.45343 * 0.02562 * 19 18 16
32 32 H 1.08001 * 124.71464 * 179.97438 * 20 19 18
33 33 H 1.07999 * 124.58950 * 359.97438 * 22 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 1.3162 0.0000 0.0000
3 14 2.2501 1.6178 0.0000
4 1 2.4976 2.0465 -1.4001
5 1 1.4476 2.6526 0.7000
6 1 3.5477 1.4403 0.7000
7 6 2.0103 -1.2022 -0.0005
8 1 1.4703 -2.1375 -0.0005
9 7 3.3797 -1.2020 -0.0011
10 6 4.1122 -2.4707 -0.0011
11 1 3.5651 -3.2062 0.5888
12 6 4.2578 -2.9756 -1.4380
13 8 5.0737 -2.0680 -2.1814
14 6 5.4996 -2.2586 0.6080
15 7 5.3627 -1.6631 1.9395
16 6 6.4609 -1.3848 2.6695
17 8 7.5658 -1.6276 2.2226
18 6 6.3232 -0.7871 4.0075
19 6 7.4474 -0.4584 4.8524
20 6 7.0873 0.0714 6.0153
21 16 5.3396 0.1898 6.1244
22 6 5.1243 -0.4817 4.5726
23 1 -0.4850 0.8400 0.0004
24 1 3.8647 -0.3621 -0.0014
25 1 4.7237 -3.9611 -1.4315
26 1 3.2734 -3.0422 -1.9012
27 1 5.2094 -2.3260 -3.1034
28 1 6.0786 -1.5914 -0.0306
29 1 6.0111 -3.2177 0.6897
30 1 4.4815 -1.4692 2.2957
31 1 8.4756 -0.6256 4.5671
32 1 7.7744 0.3851 6.7873
33 1 4.1657 -0.6445 4.1026
RHF calculation, no. of doubly occupied orbitals= 47
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
ZINC001700782006.mol2 33
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 00:54:12
Heat of formation + Delta-G solvation = -65.935823 kcal
Electronic energy + Delta-G solvation = -18365.144419 eV
Core-core repulsion = 15323.930840 eV
Total energy + Delta-G solvation = -3041.213579 eV
No. of doubly occupied orbitals = 47
Molecular weight
(most abundant/longest-lived isotopes) = 270.082 amu
Computer time = 0.39 seconds
Orbital eigenvalues (eV)
-40.97056 -38.83267 -37.71603 -36.47373 -35.29494 -33.46234 -31.29333 -30.18011
-27.06757 -25.58750 -25.14032 -22.30373 -21.74638 -20.31923 -19.75817 -18.96701
-18.29521 -17.98734 -17.10333 -16.56607 -16.20953 -15.98900 -15.23793 -15.06216
-14.82448 -14.58566 -14.31016 -14.15901 -13.95060 -13.73339 -13.38904 -13.20588
-12.86213 -12.64624 -12.36326 -12.09224 -11.90632 -11.80092 -11.14780 -10.95656
-10.75884 -10.19415 -9.98789 -9.36630 -9.35169 -8.02625 -5.35002 -0.23935
0.60766 0.95939 0.99995 1.35497 1.40226 1.44478 2.19840 2.32436
2.46431 3.29196 3.44032 3.68097 3.80618 3.91200 3.99853 4.31231
4.36128 4.43765 4.51075 4.59993 4.78539 4.83140 4.95642 5.12195
5.15059 5.26754 5.42233 5.76797 6.20903 6.49430 7.01653 7.07357
7.14509 7.81332 8.00682 9.18165
Molecular weight = 270.08amu
Principal moments of inertia in cm(-1)
A = 0.015765 B = 0.006388 C = 0.004963
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1775.715107 B = 4382.363721 C = 5640.230526
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.977 5.977
2 C -0.051 4.051
3 Si 0.942 3.058
4 H -0.291 1.291
5 H -0.295 1.295
6 H -0.260 1.260
7 C -0.222 4.222
8 H 0.069 0.931
9 N -0.741 5.741
10 C 0.166 3.834
11 H 0.082 0.918
12 C 0.066 3.934
13 O -0.584 6.584
14 C 0.126 3.874
15 N -0.711 5.711
16 C 0.570 3.430
17 O -0.583 6.583
18 C -0.182 4.182
19 C -0.109 4.109
20 C -0.227 4.227
21 S 0.239 5.761
22 C -0.219 4.219
23 H 0.257 0.743
24 H 0.363 0.637
25 H 0.070 0.930
26 H 0.036 0.964
27 H 0.388 0.612
28 H 0.059 0.941
29 H 0.083 0.917
30 H 0.409 0.591
31 H 0.151 0.849
32 H 0.202 0.798
33 H 0.174 0.826
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 12.919 -2.692 10.673 16.973
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 -0.628 5.628
2 C -0.243 4.243
3 Si 0.771 3.229
4 H -0.218 1.218
5 H -0.222 1.222
6 H -0.185 1.185
7 C -0.353 4.353
8 H 0.087 0.913
9 N -0.384 5.384
10 C 0.057 3.943
11 H 0.100 0.900
12 C -0.015 4.015
13 O -0.391 6.391
14 C 0.002 3.998
15 N -0.362 5.362
16 C 0.357 3.643
17 O -0.465 6.465
18 C -0.200 4.200
19 C -0.137 4.137
20 C -0.362 4.362
21 S 0.505 5.495
22 C -0.358 4.358
23 H 0.066 0.934
24 H 0.195 0.805
25 H 0.088 0.912
26 H 0.055 0.945
27 H 0.237 0.763
28 H 0.078 0.922
29 H 0.101 0.899
30 H 0.246 0.754
31 H 0.168 0.832
32 H 0.219 0.781
33 H 0.191 0.809
Dipole moment (debyes) X Y Z Total
from point charges 12.490 -2.125 12.042 17.480
hybrid contribution 0.467 0.318 -2.084 2.159
sum 12.958 -1.807 9.959 16.442
Atomic orbital electron populations
1.69834 1.06737 1.26402 1.59818 1.25246 0.95752 1.00265 1.03056
0.85620 0.78513 0.81210 0.77555 1.21789 1.22212 1.18498 1.19024
0.82049 0.93559 1.40625 0.91271 1.42713 1.02462 1.03345 1.89850
1.20833 0.90606 0.88903 0.93968 0.89982 1.22791 0.93562 0.92023
0.93093 1.86465 1.72159 1.52642 1.27848 1.21483 0.97316 0.98801
0.82176 1.45904 1.09320 1.62975 1.17986 1.18019 0.83917 0.77548
0.84843 1.90718 1.26750 1.55827 1.73237 1.20348 0.93941 1.09295
0.96420 1.21159 0.99235 1.00166 0.93147 1.25903 0.99683 1.08114
1.02462 1.82895 1.00869 1.56502 1.09280 1.26003 1.02150 1.04649
1.02986 0.93424 0.80468 0.91216 0.94525 0.76324 0.92237 0.89870
0.75449 0.83188 0.78132 0.80857
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 -0.98 -60.07 13.97 21.65 0.30 -59.77 16
2 C -0.05 -2.88 5.50 84.86 0.47 -2.41 16
3 Si 0.94 45.35 27.73 68.60 1.90 47.26 16
4 H -0.29 -14.27 7.11 99.48 0.71 -13.56 16
5 H -0.30 -14.31 7.11 99.48 0.71 -13.60 16
6 H -0.26 -11.63 6.52 99.48 0.65 -10.98 16
7 C -0.22 -11.69 10.41 84.03 0.87 -10.81 16
8 H 0.07 3.92 8.06 -2.91 -0.02 3.89 16
9 N -0.74 -32.41 4.31 -322.93 -1.39 -33.80 16
10 C 0.17 5.78 2.84 44.99 0.13 5.90 16
11 H 0.08 2.75 8.08 -2.38 -0.02 2.74 16
12 C 0.07 2.04 6.86 71.98 0.49 2.54 16
13 O -0.58 -18.40 12.64 -148.98 -1.88 -20.28 16
14 C 0.13 4.18 5.12 86.38 0.44 4.62 16
15 N -0.71 -23.55 5.36 -466.59 -2.50 -26.05 16
16 C 0.57 19.69 7.79 86.59 0.67 20.37 16
17 O -0.58 -23.44 16.80 -4.14 -0.07 -23.51 16
18 C -0.18 -5.21 5.98 -19.87 -0.12 -5.33 16
19 C -0.11 -2.62 10.10 22.67 0.23 -2.39 16
20 C -0.23 -3.97 11.12 66.64 0.74 -3.23 16
21 S 0.24 4.24 23.02 -56.49 -1.30 2.93 16
22 C -0.22 -5.38 10.38 67.30 0.70 -4.68 16
23 H 0.26 15.21 8.31 -92.71 -0.77 14.44 16
24 H 0.36 16.46 5.66 -92.71 -0.52 15.94 16
25 H 0.07 1.66 8.14 -2.38 -0.02 1.64 16
26 H 0.04 1.26 8.14 -2.39 -0.02 1.24 16
27 H 0.39 8.34 9.12 -74.06 -0.68 7.66 16
28 H 0.06 2.21 7.39 -2.39 -0.02 2.19 16
29 H 0.08 2.49 8.14 -2.38 -0.02 2.47 16
30 H 0.41 13.21 6.64 -92.71 -0.62 12.59 16
31 H 0.15 3.57 8.06 -2.91 -0.02 3.54 16
32 H 0.20 2.07 8.06 -2.91 -0.02 2.04 16
33 H 0.17 4.16 7.01 -2.91 -0.02 4.14 16
Total: -1.00 -71.24 301.48 -1.02 -72.26
By element:
Atomic # 1 Polarization: 37.09 SS G_CDS: -0.71 Total: 36.38 kcal
Atomic # 6 Polarization: -0.05 SS G_CDS: 4.63 Total: 4.58 kcal
Atomic # 7 Polarization: -116.03 SS G_CDS: -3.59 Total: -119.62 kcal
Atomic # 8 Polarization: -41.85 SS G_CDS: -1.95 Total: -43.80 kcal
Atomic # 14 Polarization: 45.35 SS G_CDS: 1.90 Total: 47.26 kcal
Atomic # 16 Polarization: 4.24 SS G_CDS: -1.30 Total: 2.93 kcal
Total: -71.24 -1.02 -72.26 kcal
The number of atoms in the molecule is 33
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.
ZINC001700782006.mol2 33
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 6.319 kcal
(2) G-P(sol) polarization free energy of solvation -71.236 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -64.916 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.020 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.255 kcal
(6) G-S(sol) free energy of system = (1) + (5) -65.936 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.39 seconds