Wall clock time and date at job start Mon Mar 30 2020 00:41:13
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 1.52999 * 1
3 3 H 1.09005 * 109.47141 * 2 1
4 4 C 1.50694 * 109.47265 * 240.00382 * 2 1 3
5 5 H 1.08002 * 120.00179 * 239.99421 * 4 2 1
6 6 C 1.37879 * 120.00472 * 59.99739 * 4 2 1
7 7 N 1.31514 * 119.99350 * 359.97438 * 6 4 2
8 8 Si 1.86798 * 120.00608 * 179.97438 * 6 4 2
9 9 H 1.48490 * 109.47339 * 179.97438 * 8 6 4
10 10 H 1.48493 * 109.47239 * 300.00306 * 8 6 4
11 11 H 1.48504 * 109.46636 * 59.99865 * 8 6 4
12 12 N 1.46500 * 109.47436 * 119.99618 * 2 1 3
13 13 C 1.34774 * 120.00476 * 275.00648 * 12 2 1
14 14 O 1.21558 * 119.99662 * 359.97438 * 13 12 2
15 15 C 1.47774 * 119.99829 * 179.97438 * 13 12 2
16 16 C 1.40646 * 119.74849 * 359.72744 * 15 13 12
17 17 C 1.35728 * 120.84767 * 179.74897 * 16 15 13
18 18 C 1.40711 * 120.01566 * 0.52114 * 17 16 15
19 19 C 1.40480 * 121.04168 * 179.74402 * 18 17 16
20 20 C 1.36138 * 119.72098 * 180.02562 * 19 18 17
21 21 C 1.39367 * 121.00980 * 359.95042 * 20 19 18
22 22 C 1.36084 * 120.95454 * 0.02562 * 21 20 19
23 23 C 1.40661 * 119.66074 * 0.02562 * 22 21 20
24 24 C 1.38492 * 119.74255 * 179.97438 * 15 13 12
25 25 H 1.08993 * 109.47298 * 299.99300 * 1 2 3
26 26 H 1.09001 * 109.47411 * 60.00233 * 1 2 3
27 27 H 1.09002 * 109.46412 * 180.02562 * 1 2 3
28 28 H 0.97005 * 119.99661 * 179.97438 * 7 6 4
29 29 H 0.97008 * 119.99239 * 95.00725 * 12 2 1
30 30 H 1.08001 * 119.57949 * 359.97438 * 16 15 13
31 31 H 1.07996 * 119.99325 * 180.28385 * 17 16 15
32 32 H 1.08001 * 120.14052 * 0.04282 * 19 18 17
33 33 H 1.08007 * 119.49681 * 179.97438 * 20 19 18
34 34 H 1.07997 * 119.52005 * 180.02562 * 21 20 19
35 35 H 1.08002 * 120.17252 * 179.97438 * 22 21 20
36 36 H 1.07995 * 120.27862 * 359.97438 * 24 15 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 1.5300 0.0000 0.0000
3 1 1.8933 1.0277 0.0000
4 6 2.0323 -0.7103 -1.2304
5 1 2.6533 -1.5883 -1.1314
6 6 1.6993 -0.2393 -2.4828
7 7 0.9427 0.8297 -2.6033
8 14 2.3226 -1.1193 -4.0080
9 1 1.8270 -0.4197 -5.2204
10 1 3.8075 -1.1187 -4.0078
11 1 1.8282 -2.5196 -4.0082
12 7 2.0184 -0.6905 1.1962
13 6 2.1471 -0.0182 2.3572
14 8 1.8583 1.1613 2.4116
15 6 2.6392 -0.7150 3.5638
16 6 2.9663 -2.0812 3.4961
17 6 3.4251 -2.7420 4.5893
18 6 3.5685 -2.0631 5.8134
19 6 4.0362 -2.7271 6.9596
20 6 4.1641 -2.0441 8.1303
21 6 3.8387 -0.6914 8.2117
22 6 3.3830 -0.0144 7.1227
23 6 3.2367 -0.6869 5.8960
24 6 2.7699 -0.0189 4.7539
25 1 -0.3633 0.5137 0.8900
26 1 -0.3634 0.5138 -0.8900
27 1 -0.3632 -1.0277 0.0005
28 1 0.7087 1.1613 -3.4844
29 1 2.2492 -1.6317 1.1525
30 1 2.8545 -2.6105 2.5614
31 1 3.6765 -3.7901 4.5206
32 1 4.2935 -3.7750 6.9123
33 1 4.5237 -2.5583 9.0095
34 1 3.9497 -0.1730 9.1526
35 1 3.1341 1.0337 7.2001
36 1 2.5142 1.0292 4.8026
RHF calculation, no. of doubly occupied orbitals= 49
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
ZINC000050337173.mol2 36
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 00:41:13
Heat of formation + Delta-G solvation = -19.892917 kcal
Electronic energy + Delta-G solvation = -19139.202529 eV
Core-core repulsion = 16165.800575 eV
Total energy + Delta-G solvation = -2973.401955 eV
No. of doubly occupied orbitals = 49
Molecular weight
(most abundant/longest-lived isotopes) = 269.116 amu
Computer time = 0.38 seconds
Orbital eigenvalues (eV)
-41.53511 -40.31226 -37.20915 -36.75196 -34.40465 -33.67028 -31.94501 -30.39826
-30.09749 -27.37427 -25.44053 -24.12547 -23.03479 -22.71288 -21.42697 -19.59634
-18.25668 -18.03228 -17.53367 -16.88703 -16.60439 -15.97689 -15.75590 -15.58373
-14.97699 -14.60754 -14.47692 -14.41402 -14.29544 -13.99414 -13.73563 -13.02412
-12.92800 -12.86910 -12.76112 -12.31161 -12.20556 -12.17885 -12.12986 -11.76724
-11.15578 -10.96625 -10.90285 -10.61035 -9.90425 -9.57170 -8.86783 -8.19132
-6.37547 -0.59577 -0.12710 1.00706 1.44731 1.47433 1.55249 1.60209
2.31247 2.41502 2.54368 3.11035 3.17112 3.64254 3.76658 3.87979
4.04151 4.15390 4.22064 4.35059 4.43713 4.51625 4.71260 4.83775
4.88186 4.94210 5.04506 5.11974 5.18200 5.26932 5.34707 5.39792
5.55662 5.58466 5.60776 5.64933 5.81841 5.87813 6.04964 6.05636
6.68695 6.87160 7.27849 7.44860 8.87410
Molecular weight = 269.12amu
Principal moments of inertia in cm(-1)
A = 0.039230 B = 0.003744 C = 0.003513
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 713.572098 B = 7476.737101 C = 7968.657465
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.134 4.134
2 C 0.269 3.731
3 H -0.001 1.001
4 C -0.551 4.551
5 H 0.075 0.925
6 C 0.014 3.986
7 N -0.918 5.918
8 Si 0.976 3.024
9 H -0.286 1.286
10 H -0.270 1.270
11 H -0.262 1.262
12 N -0.696 5.696
13 C 0.537 3.463
14 O -0.600 6.600
15 C -0.143 4.143
16 C -0.102 4.102
17 C -0.100 4.100
18 C -0.053 4.053
19 C -0.113 4.113
20 C -0.108 4.108
21 C -0.116 4.116
22 C -0.116 4.116
23 C -0.079 4.079
24 C -0.054 4.054
25 H 0.010 0.990
26 H 0.070 0.930
27 H 0.042 0.958
28 H 0.266 0.734
29 H 0.405 0.595
30 H 0.141 0.859
31 H 0.168 0.832
32 H 0.158 0.842
33 H 0.157 0.843
34 H 0.151 0.849
35 H 0.136 0.864
36 H 0.126 0.874
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 7.018 -10.737 20.316 24.027
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 -0.193 4.193
2 C 0.166 3.834
3 H 0.017 0.983
4 C -0.589 4.589
5 H 0.093 0.907
6 C -0.186 4.186
7 N -0.556 5.556
8 Si 0.800 3.200
9 H -0.211 1.211
10 H -0.195 1.195
11 H -0.186 1.186
12 N -0.345 5.345
13 C 0.326 3.674
14 O -0.484 6.484
15 C -0.146 4.146
16 C -0.120 4.120
17 C -0.117 4.117
18 C -0.053 4.053
19 C -0.131 4.131
20 C -0.126 4.126
21 C -0.134 4.134
22 C -0.134 4.134
23 C -0.079 4.079
24 C -0.073 4.073
25 H 0.029 0.971
26 H 0.088 0.912
27 H 0.061 0.939
28 H 0.076 0.924
29 H 0.241 0.759
30 H 0.159 0.841
31 H 0.185 0.815
32 H 0.175 0.825
33 H 0.174 0.826
34 H 0.169 0.831
35 H 0.154 0.846
36 H 0.144 0.856
Dipole moment (debyes) X Y Z Total
from point charges 6.716 -9.806 20.159 23.401
hybrid contribution -0.041 0.071 -1.282 1.285
sum 6.675 -9.735 18.876 22.263
Atomic orbital electron populations
1.21908 0.98130 0.99605 0.99629 1.18410 0.91275 0.91977 0.81715
0.98338 1.21505 1.32906 1.13767 0.90683 0.90692 1.25843 0.94759
0.95570 1.02416 1.70053 1.36836 1.23922 1.24798 0.85337 0.78642
0.78736 0.77274 1.21111 1.19525 1.18643 1.46223 1.64509 1.14233
1.09494 1.18931 0.77720 0.86351 0.84413 1.90679 1.53772 1.17890
1.86019 1.19942 1.05604 0.95827 0.93261 1.21085 0.98276 0.92065
1.00598 1.21285 0.98426 1.01335 0.90678 1.18557 0.98527 0.92591
0.95601 1.21400 0.98969 1.01312 0.91418 1.21361 0.97976 0.94405
0.98818 1.21257 0.97866 0.95209 0.99045 1.21320 0.99598 1.00720
0.91749 1.18256 1.01274 0.94244 0.94117 1.21516 0.94867 0.99798
0.91142 0.97099 0.91154 0.93909 0.92436 0.75882 0.84146 0.81451
0.82463 0.82570 0.83090 0.84625 0.85639
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 -0.13 -7.06 9.26 71.98 0.67 -6.39 16
2 C 0.27 14.58 2.56 44.24 0.11 14.70 16
3 H 0.00 -0.08 7.58 -2.38 -0.02 -0.10 16
4 C -0.55 -29.78 8.73 25.60 0.22 -29.55 16
5 H 0.07 3.75 7.74 -2.91 -0.02 3.72 16
6 C 0.01 0.78 5.30 84.66 0.45 1.23 16
7 N -0.92 -53.46 11.32 21.45 0.24 -53.21 16
8 Si 0.98 42.22 29.54 68.60 2.03 44.25 16
9 H -0.29 -12.26 7.11 99.48 0.71 -11.55 16
10 H -0.27 -11.37 7.11 99.48 0.71 -10.66 16
11 H -0.26 -10.69 7.11 99.48 0.71 -9.98 16
12 N -0.70 -31.09 5.02 -449.06 -2.25 -33.34 16
13 C 0.54 24.09 7.73 86.77 0.67 24.76 16
14 O -0.60 -32.06 15.96 -3.90 -0.06 -32.12 16
15 C -0.14 -5.00 5.87 -20.11 -0.12 -5.12 16
16 C -0.10 -2.74 9.44 22.28 0.21 -2.53 16
17 C -0.10 -2.10 9.73 22.29 0.22 -1.89 16
18 C -0.05 -1.16 5.75 -21.25 -0.12 -1.29 16
19 C -0.11 -1.74 9.76 22.33 0.22 -1.52 16
20 C -0.11 -1.41 9.95 22.05 0.22 -1.19 16
21 C -0.12 -1.74 9.95 22.04 0.22 -1.52 16
22 C -0.12 -2.40 9.77 22.36 0.22 -2.18 16
23 C -0.08 -2.06 5.74 -21.31 -0.12 -2.18 16
24 C -0.05 -1.74 9.34 22.83 0.21 -1.53 16
25 H 0.01 0.53 8.14 -2.39 -0.02 0.51 16
26 H 0.07 4.00 6.07 -2.39 -0.01 3.99 16
27 H 0.04 2.06 8.14 -2.39 -0.02 2.04 16
28 H 0.27 14.65 8.31 -92.70 -0.77 13.88 16
29 H 0.40 15.11 6.52 -92.70 -0.60 14.50 16
30 H 0.14 3.31 6.34 -2.91 -0.02 3.29 16
31 H 0.17 2.21 8.06 -2.91 -0.02 2.19 16
32 H 0.16 1.42 8.06 -2.91 -0.02 1.40 16
33 H 0.16 0.99 8.06 -2.91 -0.02 0.97 16
34 H 0.15 1.38 8.06 -2.91 -0.02 1.35 16
35 H 0.14 2.47 8.06 -2.91 -0.02 2.45 16
36 H 0.13 4.26 7.61 -2.91 -0.02 4.24 16
Total: -1.00 -72.12 308.76 3.72 -68.40
By element:
Atomic # 1 Polarization: 21.74 SS G_CDS: 0.49 Total: 22.24 kcal
Atomic # 6 Polarization: -19.48 SS G_CDS: 3.28 Total: -16.21 kcal
Atomic # 7 Polarization: -84.54 SS G_CDS: -2.01 Total: -86.55 kcal
Atomic # 8 Polarization: -32.06 SS G_CDS: -0.06 Total: -32.12 kcal
Atomic # 14 Polarization: 42.22 SS G_CDS: 2.03 Total: 44.25 kcal
Total: -72.12 3.72 -68.40 kcal
The number of atoms in the molecule is 36
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.
ZINC000050337173.mol2 36
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 48.503 kcal
(2) G-P(sol) polarization free energy of solvation -72.119 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -23.616 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.723 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.396 kcal
(6) G-S(sol) free energy of system = (1) + (5) -19.893 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.38 seconds