Wall clock time and date at job start Wed Apr 1 2020 05:01:14
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.
*******************************************************************************
* 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 O 1.42899 * 1
3 3 C 1.35903 * 116.99688 * 2 1
4 4 C 1.38750 * 120.05883 * 0.02562 * 3 2 1
5 5 C 1.38117 * 119.94586 * 180.02562 * 4 3 2
6 6 C 1.38294 * 120.05545 * 359.97438 * 5 4 3
7 7 C 1.38242 * 120.11099 * 359.97411 * 6 5 4
8 8 C 1.38173 * 120.05560 * 0.05153 * 7 6 5
9 9 C 1.50693 * 120.02483 * 179.97438 * 8 7 6
10 10 N 1.46502 * 112.85181 * 106.49662 * 9 8 7
11 11 C 1.34785 * 119.99806 * 309.66405 * 10 9 8
12 12 O 1.21585 * 119.99587 * 359.97438 * 11 10 9
13 13 N 1.34770 * 120.00031 * 180.02562 * 11 10 9
14 14 C 1.46491 * 119.99905 * 179.97438 * 13 11 10
15 15 C 1.50701 * 109.47234 * 180.02562 * 14 13 11
16 16 O 1.21295 * 120.00029 * 359.97438 * 15 14 13
17 17 N 1.34781 * 120.00124 * 180.02562 * 15 14 13
18 18 C 1.37103 * 119.99982 * 179.97438 * 17 15 14
19 19 H 1.08005 * 119.99592 * 359.97438 * 18 17 15
20 20 C 1.38944 * 119.99935 * 180.02562 * 18 17 15
21 21 N 1.31414 * 119.99902 * 179.97438 * 20 18 17
22 22 Si 1.86801 * 120.00175 * 359.97438 * 20 18 17
23 23 H 1.48495 * 109.47225 * 90.00030 * 22 20 18
24 24 H 1.48500 * 109.47185 * 210.00522 * 22 20 18
25 25 H 1.48498 * 109.46950 * 330.00399 * 22 20 18
26 26 C 1.53776 * 113.61997 * 335.18379 * 9 8 7
27 27 C 1.53776 * 87.08452 * 220.02078 * 26 9 8
28 28 C 1.53778 * 87.08141 * 25.43345 * 27 26 9
29 29 H 1.08998 * 109.47223 * 299.99482 * 1 2 3
30 30 H 1.09001 * 109.47417 * 59.99353 * 1 2 3
31 31 H 1.09005 * 109.47383 * 180.02562 * 1 2 3
32 32 H 1.07999 * 120.02767 * 0.04009 * 4 3 2
33 33 H 1.08001 * 119.97789 * 180.24810 * 5 4 3
34 34 H 1.07997 * 119.94444 * 180.02562 * 6 5 4
35 35 H 1.07999 * 119.97318 * 180.02562 * 7 6 5
36 36 H 0.96997 * 120.00269 * 129.65768 * 10 9 8
37 37 H 0.97001 * 119.99844 * 359.97438 * 13 11 10
38 38 H 1.09002 * 109.47709 * 299.99990 * 14 13 11
39 39 H 1.09003 * 109.47125 * 60.00254 * 14 13 11
40 40 H 0.97001 * 119.99848 * 359.97438 * 17 15 14
41 41 H 0.97002 * 119.99948 * 179.97438 * 21 20 18
42 42 H 1.09003 * 113.61360 * 334.57146 * 26 9 8
43 43 H 1.09002 * 113.61474 * 105.47205 * 26 9 8
44 44 H 1.08998 * 113.61693 * 270.88327 * 27 26 9
45 45 H 1.09003 * 113.61133 * 139.98043 * 27 26 9
46 46 H 1.09002 * 113.61582 * 220.02206 * 28 27 26
47 47 H 1.09003 * 113.61646 * 89.11428 * 28 27 26
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 8 1.4290 0.0000 0.0000
3 6 2.0459 1.2109 0.0000
4 6 1.2914 2.3753 0.0005
5 6 1.9207 3.6048 0.0000
6 6 3.3019 3.6758 -0.0005
7 6 4.0559 2.5172 0.0000
8 6 3.4310 1.2848 0.0000
9 6 4.2537 0.0222 0.0000
10 7 4.2431 -0.6637 1.2945
11 6 4.5164 0.0215 2.4225
12 8 4.7723 1.2088 2.3656
13 7 4.5072 -0.6096 3.6133
14 6 4.8049 0.1351 4.8392
15 6 4.7296 -0.7949 6.0227
16 8 4.4540 -1.9646 5.8582
17 7 4.9676 -0.3267 7.2639
18 6 4.8987 -1.1727 8.3406
19 1 4.6533 -2.2142 8.1941
20 6 5.1435 -0.6898 9.6202
21 7 5.0769 -1.5006 10.6523
22 14 5.5673 1.1117 9.8736
23 1 4.3199 1.8883 10.0881
24 1 6.4475 1.2509 11.0615
25 1 6.2715 1.6282 8.6726
26 6 5.6615 0.2042 -0.5913
27 6 5.4725 -1.1677 -1.2599
28 6 3.9589 -0.9051 -1.1909
29 1 -0.3633 0.5137 0.8900
30 1 -0.3634 0.5139 -0.8899
31 1 -0.3634 -1.0277 0.0005
32 1 0.2128 2.3204 0.0016
33 1 1.3339 4.5114 0.0045
34 1 3.7921 4.6381 -0.0005
35 1 5.1344 2.5753 0.0000
36 1 4.0393 -1.6109 1.3398
37 1 4.3035 -1.5569 3.6585
38 1 5.8073 0.5581 4.7732
39 1 4.0787 0.9388 4.9615
40 1 5.1877 0.6088 7.3954
41 1 5.2482 -1.1636 11.5457
42 1 5.7341 1.0291 -1.3002
43 1 6.4518 0.2189 0.1592
44 1 5.7993 -2.0036 -0.6414
45 1 5.8616 -1.2150 -2.2770
46 1 3.3746 -1.7858 -0.9243
47 1 3.5660 -0.3834 -2.0636
RHF calculation, no. of doubly occupied orbitals= 65
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
ZINC001117432393.mol2 47
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Wed Apr 1 2020 05:01:14
Heat of formation + Delta-G solvation = -64.901182 kcal
Electronic energy + Delta-G solvation = -30911.629768 eV
Core-core repulsion = 26674.135567 eV
Total energy + Delta-G solvation = -4237.494201 eV
No. of doubly occupied orbitals = 65
Molecular weight
(most abundant/longest-lived isotopes) = 347.168 amu
Computer time = 1.05 seconds
Orbital eigenvalues (eV)
-42.01267 -40.83328 -40.17628 -39.15755 -38.00429 -36.25710 -35.19095 -34.05636
-33.79103 -32.09647 -30.96806 -29.30122 -28.15974 -26.73850 -26.39921 -25.57222
-22.90176 -22.72816 -21.99829 -21.46209 -20.64380 -20.07269 -19.50722 -18.92871
-17.56028 -17.37523 -17.04839 -16.94783 -16.70560 -16.53204 -16.49946 -16.06436
-15.66759 -15.47042 -15.29325 -15.21470 -14.88797 -14.63081 -14.46205 -14.27734
-13.98123 -13.75107 -13.49358 -13.28479 -13.05053 -12.95705 -12.77745 -12.45280
-12.39020 -12.12362 -12.00673 -11.95198 -11.79895 -11.58670 -11.47062 -11.31441
-11.18233 -10.65167 -10.33982 -10.24479 -9.76883 -9.64450 -9.02043 -8.46108
-6.07970 0.42487 0.58625 1.30663 1.33447 1.43162 1.66514 1.78749
2.19941 2.23200 2.45306 2.76738 2.91591 3.10251 3.36321 3.55594
3.72188 3.75498 3.93050 4.00034 4.06708 4.19254 4.31828 4.35644
4.39857 4.42126 4.45112 4.53932 4.61336 4.74282 4.82120 4.84832
4.87664 5.07543 5.09889 5.12218 5.16972 5.31674 5.34783 5.46522
5.49637 5.54944 5.67543 5.78459 5.87878 5.93266 6.02830 6.48722
6.52873 6.77671 7.09639 7.28578 7.65146 7.77980 8.70451
Molecular weight = 347.17amu
Principal moments of inertia in cm(-1)
A = 0.013695 B = 0.002603 C = 0.002502
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2044.025230 B =10753.682527 C =11187.725630
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.020 3.980
2 O -0.321 6.321
3 C 0.126 3.874
4 C -0.227 4.227
5 C -0.085 4.085
6 C -0.174 4.174
7 C -0.049 4.049
8 C -0.121 4.121
9 C 0.213 3.787
10 N -0.709 5.709
11 C 0.706 3.294
12 O -0.609 6.609
13 N -0.731 5.731
14 C 0.143 3.857
15 C 0.446 3.554
16 O -0.614 6.614
17 N -0.578 5.578
18 C -0.331 4.331
19 H 0.063 0.937
20 C -0.007 4.007
21 N -0.926 5.926
22 Si 0.958 3.042
23 H -0.257 1.257
24 H -0.272 1.272
25 H -0.233 1.233
26 C -0.144 4.144
27 C -0.131 4.131
28 C -0.113 4.113
29 H 0.049 0.951
30 H 0.068 0.932
31 H 0.115 0.885
32 H 0.142 0.858
33 H 0.144 0.856
34 H 0.136 0.864
35 H 0.123 0.877
36 H 0.406 0.594
37 H 0.406 0.594
38 H 0.099 0.901
39 H 0.095 0.905
40 H 0.391 0.609
41 H 0.281 0.719
42 H 0.098 0.902
43 H 0.054 0.946
44 H 0.082 0.918
45 H 0.087 0.913
46 H 0.081 0.919
47 H 0.098 0.902
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -5.402 9.565 -28.546 30.587
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 -0.074 4.074
2 O -0.234 6.234
3 C 0.080 3.920
4 C -0.245 4.245
5 C -0.103 4.103
6 C -0.192 4.192
7 C -0.067 4.067
8 C -0.123 4.123
9 C 0.126 3.874
10 N -0.364 5.364
11 C 0.406 3.594
12 O -0.489 6.489
13 N -0.389 5.389
14 C 0.015 3.985
15 C 0.234 3.766
16 O -0.500 6.500
17 N -0.218 5.218
18 C -0.460 4.460
19 H 0.081 0.919
20 C -0.207 4.207
21 N -0.566 5.566
22 Si 0.778 3.222
23 H -0.181 1.181
24 H -0.197 1.197
25 H -0.157 1.157
26 C -0.183 4.183
27 C -0.169 4.169
28 C -0.151 4.151
29 H 0.068 0.932
30 H 0.086 0.914
31 H 0.133 0.867
32 H 0.159 0.841
33 H 0.162 0.838
34 H 0.154 0.846
35 H 0.141 0.859
36 H 0.242 0.758
37 H 0.243 0.757
38 H 0.117 0.883
39 H 0.113 0.887
40 H 0.227 0.773
41 H 0.091 0.909
42 H 0.116 0.884
43 H 0.073 0.927
44 H 0.100 0.900
45 H 0.106 0.894
46 H 0.100 0.900
47 H 0.116 0.884
Dipole moment (debyes) X Y Z Total
from point charges -5.259 9.604 -28.459 30.492
hybrid contribution -0.232 -0.060 1.229 1.252
sum -5.491 9.544 -27.230 29.372
Atomic orbital electron populations
1.23248 0.77364 1.05130 1.01674 1.86068 1.22428 1.26430 1.88486
1.19003 0.91802 0.84931 0.96272 1.21435 1.00747 0.92384 1.09941
1.21219 0.94771 0.97669 0.96667 1.21281 0.94391 0.98795 1.04749
1.20884 1.00001 0.91230 0.94608 1.19190 0.90445 0.95543 1.07121
1.19807 0.95191 0.90152 0.82285 1.44673 1.75182 1.12613 1.03896
1.15913 0.78147 0.84941 0.80423 1.90880 1.57228 1.14371 1.86371
1.44740 1.75909 1.13943 1.04281 1.20601 1.03553 0.92895 0.81491
1.20520 0.82390 0.89055 0.84669 1.90520 1.54345 1.19692 1.85416
1.41921 1.63043 1.11238 1.05611 1.19035 1.47605 0.93879 0.85511
0.91853 1.26049 0.96197 1.04507 0.93958 1.69780 1.48591 1.38257
0.99966 0.85455 0.79766 0.76926 0.80051 1.18104 1.19702 1.15686
1.23399 0.95776 0.99272 0.99837 1.22835 0.95650 0.96508 1.01883
1.23100 0.97216 0.98818 0.95932 0.93183 0.91378 0.86700 0.84060
0.83841 0.84632 0.85864 0.75789 0.75658 0.88272 0.88664 0.77276
0.90904 0.88391 0.92674 0.89970 0.89388 0.90049 0.88388
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 0.02 0.28 9.81 113.37 1.11 1.39 16
2 O -0.32 -6.69 9.16 -92.46 -0.85 -7.53 16
3 C 0.13 2.94 6.54 22.51 0.15 3.09 16
4 C -0.23 -4.68 9.04 22.36 0.20 -4.48 16
5 C -0.09 -1.68 10.04 22.25 0.22 -1.46 16
6 C -0.17 -3.75 10.04 22.28 0.22 -3.53 16
7 C -0.05 -1.19 7.61 22.26 0.17 -1.02 16
8 C -0.12 -2.97 3.88 -19.77 -0.08 -3.05 16
9 C 0.21 4.59 0.55 3.38 0.00 4.59 16
10 N -0.71 -17.25 5.22 -439.02 -2.29 -19.54 16
11 C 0.71 22.02 8.32 179.05 1.49 23.51 16
12 O -0.61 -21.79 14.05 -3.98 -0.06 -21.85 16
13 N -0.73 -23.74 5.53 -482.31 -2.67 -26.41 16
14 C 0.14 4.94 6.15 85.63 0.53 5.47 16
15 C 0.45 19.95 7.85 87.66 0.69 20.63 16
16 O -0.61 -32.20 15.24 -3.08 -0.05 -32.24 16
17 N -0.58 -27.10 5.09 -306.97 -1.56 -28.67 16
18 C -0.33 -19.03 10.16 84.04 0.85 -18.18 16
19 H 0.06 4.29 7.39 -2.91 -0.02 4.26 16
20 C -0.01 -0.39 5.50 84.92 0.47 0.08 16
21 N -0.93 -54.79 13.96 21.66 0.30 -54.49 16
22 Si 0.96 38.59 27.74 68.60 1.90 40.49 16
23 H -0.26 -9.86 7.11 99.48 0.71 -9.15 16
24 H -0.27 -10.83 7.11 99.48 0.71 -10.13 16
25 H -0.23 -8.09 6.52 99.48 0.65 -7.44 16
26 C -0.14 -2.78 6.43 31.12 0.20 -2.58 16
27 C -0.13 -1.91 7.99 31.12 0.25 -1.66 16
28 C -0.11 -1.79 6.32 31.12 0.20 -1.60 16
29 H 0.05 0.72 7.66 -2.39 -0.02 0.70 16
30 H 0.07 0.71 7.66 -2.39 -0.02 0.69 16
31 H 0.11 1.15 8.14 -2.38 -0.02 1.13 16
32 H 0.14 2.25 6.30 -2.91 -0.02 2.23 16
33 H 0.14 2.02 8.06 -2.91 -0.02 2.00 16
34 H 0.14 2.35 8.06 -2.91 -0.02 2.33 16
35 H 0.12 2.97 6.82 -2.91 -0.02 2.95 16
36 H 0.41 8.34 8.64 -92.71 -0.80 7.54 16
37 H 0.41 13.27 7.45 -92.71 -0.69 12.58 16
38 H 0.10 3.14 8.14 -2.39 -0.02 3.13 16
39 H 0.10 3.08 8.14 -2.39 -0.02 3.06 16
40 H 0.39 15.51 5.76 -92.71 -0.53 14.97 16
41 H 0.28 15.19 8.31 -92.71 -0.77 14.42 16
42 H 0.10 1.68 7.24 -2.39 -0.02 1.66 16
43 H 0.05 1.28 8.14 -2.39 -0.02 1.26 16
44 H 0.08 1.21 8.14 -2.39 -0.02 1.19 16
45 H 0.09 0.99 8.14 -2.39 -0.02 0.97 16
46 H 0.08 1.22 8.11 -2.39 -0.02 1.20 16
47 H 0.10 1.46 8.09 -2.39 -0.02 1.44 16
Total: -1.00 -76.39 387.38 0.36 -76.03
By element:
Atomic # 1 Polarization: 54.03 SS G_CDS: -1.05 Total: 52.98 kcal
Atomic # 6 Polarization: 14.54 SS G_CDS: 6.67 Total: 21.22 kcal
Atomic # 7 Polarization: -122.88 SS G_CDS: -6.22 Total: -129.10 kcal
Atomic # 8 Polarization: -60.67 SS G_CDS: -0.95 Total: -61.62 kcal
Atomic # 14 Polarization: 38.59 SS G_CDS: 1.90 Total: 40.49 kcal
Total: -76.39 0.36 -76.03 kcal
The number of atoms in the molecule is 47
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.
ZINC001117432393.mol2 47
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 11.130 kcal
(2) G-P(sol) polarization free energy of solvation -76.390 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -65.260 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.359 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.031 kcal
(6) G-S(sol) free energy of system = (1) + (5) -64.901 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.05 seconds