Wall clock time and date at job start Wed Apr 1 2020 05:05:57
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 1.42904 * 1
3 3 C 1.35907 * 116.99703 * 2 1
4 4 C 1.38846 * 119.98664 * 0.02562 * 3 2 1
5 5 C 1.38252 * 120.23716 * 179.97438 * 4 3 2
6 6 C 1.38004 * 120.20831 * 359.97438 * 5 4 3
7 7 C 1.39570 * 119.96427 * 0.02562 * 6 5 4
8 8 C 1.47854 * 120.11617 * 180.02562 * 7 6 5
9 9 O 1.21551 * 119.99965 * 24.48555 * 8 7 6
10 10 N 1.34774 * 120.00068 * 204.48411 * 8 7 6
11 11 C 1.47432 * 125.64552 * 5.47917 * 10 8 7
12 12 C 1.55131 * 104.72185 * 155.81721 * 11 10 8
13 13 C 1.55166 * 101.48465 * 37.29392 * 12 11 10
14 14 H 1.08997 * 110.71886 * 82.69592 * 13 12 11
15 15 N 1.46899 * 110.71561 * 205.96728 * 13 12 11
16 16 C 1.46900 * 110.99843 * 199.97565 * 15 13 12
17 17 C 1.50704 * 109.47395 * 180.02562 * 16 15 13
18 18 O 1.21286 * 119.99638 * 0.02562 * 17 16 15
19 19 N 1.34775 * 119.99884 * 179.97438 * 17 16 15
20 20 C 1.37093 * 119.99578 * 179.97438 * 19 17 16
21 21 H 1.07999 * 120.00421 * 0.02562 * 20 19 17
22 22 C 1.38952 * 120.00101 * 180.02562 * 20 19 17
23 23 N 1.31406 * 120.00246 * 180.02562 * 22 20 19
24 24 Si 1.86807 * 119.99646 * 0.02562 * 22 20 19
25 25 H 1.48500 * 109.46843 * 90.00139 * 24 22 20
26 26 H 1.48501 * 109.46898 * 210.00028 * 24 22 20
27 27 H 1.48494 * 109.47201 * 330.00071 * 24 22 20
28 28 C 1.47021 * 125.65233 * 185.78650 * 10 8 7
29 29 C 1.38455 * 119.98236 * 179.72808 * 3 2 1
30 30 H 1.09007 * 109.46878 * 179.97438 * 1 2 3
31 31 H 1.08996 * 109.46939 * 299.99299 * 1 2 3
32 32 H 1.08992 * 109.47326 * 59.99671 * 1 2 3
33 33 H 1.07996 * 119.88244 * 0.02562 * 4 3 2
34 34 H 1.08003 * 119.89484 * 179.97438 * 5 4 3
35 35 H 1.07995 * 120.01534 * 179.97438 * 6 5 4
36 36 H 1.09003 * 110.36425 * 274.74308 * 11 10 8
37 37 H 1.08998 * 110.36640 * 37.06744 * 11 10 8
38 38 H 1.08998 * 111.19378 * 279.19020 * 12 11 10
39 39 H 1.08997 * 110.90653 * 155.26691 * 12 11 10
40 40 H 1.00904 * 110.99760 * 76.02595 * 15 13 12
41 41 H 1.09010 * 109.47176 * 300.00578 * 16 15 13
42 42 H 1.08993 * 109.47373 * 60.00039 * 16 15 13
43 43 H 0.96998 * 120.00313 * 0.02562 * 19 17 16
44 44 H 0.96999 * 120.00107 * 179.97438 * 23 22 20
45 45 H 1.09000 * 109.88052 * 300.44217 * 28 10 8
46 46 H 1.08996 * 109.88272 * 61.60293 * 28 10 8
47 47 H 1.08006 * 120.10377 * 359.97438 * 29 3 2
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 2.0460 1.2110 0.0000
4 6 1.2894 2.3752 0.0005
5 6 1.9116 3.6098 0.0011
6 6 3.2892 3.6931 0.0016
7 6 4.0580 2.5283 0.0011
8 6 5.5341 2.6137 0.0022
9 8 6.0852 3.6047 0.4398
10 7 6.2685 1.5926 -0.4819
11 6 5.7345 0.3879 -1.1431
12 6 6.9000 -0.1250 -2.0291
13 6 8.1273 0.1717 -1.1273
14 1 8.2682 -0.6225 -0.3942
15 7 9.3378 0.3518 -1.9399
16 6 10.5485 0.1611 -1.1301
17 6 11.7672 0.3538 -1.9955
18 8 11.6396 0.6239 -3.1710
19 7 12.9988 0.2269 -1.4629
20 6 14.1073 0.4017 -2.2503
21 1 13.9938 0.6415 -3.2972
22 6 15.3771 0.2705 -1.7015
23 7 16.4397 0.4385 -2.4561
24 14 15.5735 -0.1449 0.1092
25 1 15.6195 -1.6197 0.2765
26 1 16.8343 0.4508 0.6197
27 1 14.4228 0.4040 0.8706
28 6 7.7345 1.4926 -0.4326
29 6 3.4286 1.2831 0.0057
30 1 -0.3633 -1.0277 -0.0005
31 1 -0.3633 0.5137 0.8900
32 1 -0.3633 0.5138 -0.8899
33 1 0.2111 2.3162 0.0014
34 1 1.3178 4.5119 0.0011
35 1 3.7719 4.6592 0.0016
36 1 5.4605 -0.3621 -0.4010
37 1 4.8735 0.6441 -1.7605
38 1 6.9586 0.4318 -2.9643
39 1 6.8035 -1.1941 -2.2181
40 1 9.3412 1.2558 -2.3881
41 1 10.5611 0.8884 -0.3183
42 1 10.5530 -0.8467 -0.7150
43 1 13.1008 0.0112 -0.5228
44 1 17.3261 0.3472 -2.0728
45 1 8.1815 2.3357 -0.9594
46 1 8.0705 1.4803 0.6042
47 1 4.0183 0.3782 0.0106
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
ZINC001187357364.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 05:05:57
Heat of formation + Delta-G solvation = -82.037304 kcal
Electronic energy + Delta-G solvation = -29335.233330 eV
Core-core repulsion = 25096.996051 eV
Total energy + Delta-G solvation = -4238.237279 eV
No. of doubly occupied orbitals = 65
Molecular weight
(most abundant/longest-lived isotopes) = 347.168 amu
Computer time = 1.11 seconds
Orbital eigenvalues (eV)
-41.77808 -40.72709 -40.26861 -39.01203 -37.98987 -36.27690 -35.66148 -33.75689
-32.81092 -31.67689 -31.19394 -29.78389 -28.27744 -27.76686 -25.99322 -24.96474
-23.48195 -23.34290 -21.87137 -21.29154 -20.94727 -20.30005 -18.97758 -18.06255
-17.76900 -17.61858 -17.11807 -17.04563 -16.83655 -16.63038 -16.44664 -16.32451
-15.85362 -15.44824 -15.14457 -14.91336 -14.71961 -14.56306 -14.45732 -14.16992
-14.03928 -13.85271 -13.60099 -13.43792 -13.30272 -13.13293 -12.94547 -12.80822
-12.52172 -12.43460 -12.39631 -12.03847 -11.98590 -11.86624 -11.77361 -11.51546
-11.19360 -10.45320 -10.25160 -10.13647 -9.85099 -9.41119 -9.28761 -8.41525
-6.02553 -0.25103 0.34874 1.30546 1.35754 1.44593 1.63168 1.76003
1.95365 2.22961 2.30479 2.67836 2.74787 3.14673 3.21396 3.42842
3.58298 3.69059 3.77298 4.03773 4.05546 4.12015 4.15470 4.21126
4.22701 4.32372 4.42296 4.42871 4.45153 4.46340 4.52524 4.58329
4.70993 4.73761 4.78437 4.85273 5.01758 5.13302 5.17716 5.21215
5.28072 5.37530 5.52443 5.57729 5.89183 6.01493 6.23474 6.31842
6.37239 6.59040 6.87677 6.91880 7.39255 7.95795 8.76088
Molecular weight = 347.17amu
Principal moments of inertia in cm(-1)
A = 0.024362 B = 0.001763 C = 0.001722
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1149.041217 B =15879.376255 C =16252.854255
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.016 3.984
2 O -0.329 6.329
3 C 0.115 3.885
4 C -0.179 4.179
5 C -0.082 4.082
6 C -0.117 4.117
7 C -0.107 4.107
8 C 0.566 3.434
9 O -0.582 6.582
10 N -0.607 5.607
11 C 0.095 3.905
12 C -0.116 4.116
13 C 0.085 3.915
14 H 0.123 0.877
15 N -0.666 5.666
16 C 0.058 3.942
17 C 0.447 3.553
18 O -0.615 6.615
19 N -0.590 5.590
20 C -0.330 4.330
21 H 0.055 0.945
22 C -0.015 4.015
23 N -0.934 5.934
24 Si 0.965 3.035
25 H -0.255 1.255
26 H -0.276 1.276
27 H -0.232 1.232
28 C 0.076 3.924
29 C -0.133 4.133
30 H 0.118 0.882
31 H 0.067 0.933
32 H 0.068 0.932
33 H 0.162 0.838
34 H 0.160 0.840
35 H 0.124 0.876
36 H 0.103 0.897
37 H 0.093 0.907
38 H 0.070 0.930
39 H 0.113 0.887
40 H 0.344 0.656
41 H 0.074 0.926
42 H 0.125 0.875
43 H 0.390 0.610
44 H 0.279 0.721
45 H 0.049 0.951
46 H 0.071 0.929
47 H 0.157 0.843
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -38.062 -3.000 11.863 39.980
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 -0.078 4.078
2 O -0.243 6.243
3 C 0.069 3.931
4 C -0.197 4.197
5 C -0.100 4.100
6 C -0.136 4.136
7 C -0.110 4.110
8 C 0.357 3.643
9 O -0.463 6.463
10 N -0.340 5.340
11 C -0.027 4.027
12 C -0.155 4.155
13 C -0.026 4.026
14 H 0.141 0.859
15 N -0.297 5.297
16 C -0.074 4.074
17 C 0.235 3.765
18 O -0.500 6.500
19 N -0.232 5.232
20 C -0.459 4.459
21 H 0.073 0.927
22 C -0.214 4.214
23 N -0.575 5.575
24 Si 0.785 3.215
25 H -0.179 1.179
26 H -0.201 1.201
27 H -0.156 1.156
28 C -0.049 4.049
29 C -0.152 4.152
30 H 0.136 0.864
31 H 0.085 0.915
32 H 0.087 0.913
33 H 0.179 0.821
34 H 0.178 0.822
35 H 0.142 0.858
36 H 0.120 0.880
37 H 0.111 0.889
38 H 0.088 0.912
39 H 0.132 0.868
40 H 0.164 0.836
41 H 0.092 0.908
42 H 0.143 0.857
43 H 0.226 0.774
44 H 0.089 0.911
45 H 0.068 0.932
46 H 0.090 0.910
47 H 0.174 0.826
Dipole moment (debyes) X Y Z Total
from point charges -37.575 -3.102 11.043 39.287
hybrid contribution 0.991 1.259 0.954 1.865
sum -36.584 -1.843 11.997 38.545
Atomic orbital electron populations
1.23401 0.76137 1.05807 1.02502 1.86078 1.23626 1.26074 1.88547
1.18963 0.91907 0.85332 0.96875 1.21813 1.01861 0.91606 1.04455
1.21220 0.93247 0.98772 0.96759 1.21277 0.94666 0.97513 1.00172
1.19514 0.91136 0.94799 1.05540 1.18404 0.87436 0.81320 0.77185
1.90769 1.73899 1.32168 1.49514 1.48369 1.07292 1.20580 1.57726
1.23007 0.97854 0.85739 0.96054 1.22890 0.91218 1.03808 0.97561
1.22827 0.89804 0.95142 0.94849 0.85919 1.60259 1.00059 1.38979
1.30389 1.21744 0.87164 1.04672 0.93800 1.20996 0.85045 0.81537
0.88898 1.90549 1.86727 1.53298 1.19376 1.42024 1.05116 1.64819
1.11232 1.19012 0.84828 1.47548 0.94544 0.92707 1.26126 0.93783
0.96500 1.04962 1.69803 0.98994 1.49645 1.39012 0.85361 0.79692
0.79865 0.76574 1.17882 1.20148 1.15558 1.22913 0.80497 0.99618
1.01858 1.21075 0.92743 0.97881 1.03506 0.86396 0.91460 0.91326
0.82077 0.82245 0.85758 0.87952 0.88908 0.91164 0.86834 0.83631
0.90819 0.85738 0.77427 0.91146 0.93234 0.91028 0.82604
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 0.06 9.81 113.37 1.11 1.17 16
2 O -0.33 -3.87 10.49 -92.51 -0.97 -4.85 16
3 C 0.11 1.55 6.68 22.47 0.15 1.70 16
4 C -0.18 -1.84 9.03 22.42 0.20 -1.64 16
5 C -0.08 -0.98 10.03 22.22 0.22 -0.76 16
6 C -0.12 -2.16 9.59 22.54 0.22 -1.95 16
7 C -0.11 -2.19 5.67 -20.10 -0.11 -2.31 16
8 C 0.57 14.81 7.64 86.79 0.66 15.48 16
9 O -0.58 -20.18 16.93 -3.88 -0.07 -20.24 16
10 N -0.61 -12.95 3.32 -814.74 -2.71 -15.66 16
11 C 0.09 1.29 5.00 86.93 0.43 1.73 16
12 C -0.12 -1.79 6.78 32.07 0.22 -1.57 16
13 C 0.08 1.60 3.23 46.11 0.15 1.75 16
14 H 0.12 1.76 7.90 -2.39 -0.02 1.74 16
15 N -0.67 -18.45 5.98 -489.43 -2.93 -21.38 16
16 C 0.06 1.70 6.02 85.56 0.52 2.22 16
17 C 0.45 20.09 7.82 87.66 0.69 20.78 16
18 O -0.61 -34.19 15.78 -3.05 -0.05 -34.24 16
19 N -0.59 -27.87 5.09 -306.99 -1.56 -29.43 16
20 C -0.33 -19.51 10.16 84.04 0.85 -18.65 16
21 H 0.05 3.86 7.39 -2.91 -0.02 3.84 16
22 C -0.02 -0.84 5.50 84.93 0.47 -0.38 16
23 N -0.93 -56.76 13.96 21.66 0.30 -56.46 16
24 Si 0.97 39.02 27.74 68.60 1.90 40.92 16
25 H -0.25 -9.67 7.11 99.48 0.71 -8.96 16
26 H -0.28 -11.15 7.11 99.48 0.71 -10.44 16
27 H -0.23 -7.92 6.52 99.48 0.65 -7.27 16
28 C 0.08 1.70 6.52 86.73 0.57 2.26 16
29 C -0.13 -2.12 8.01 22.63 0.18 -1.94 16
30 H 0.12 0.06 8.14 -2.38 -0.02 0.04 16
31 H 0.07 0.11 7.66 -2.39 -0.02 0.09 16
32 H 0.07 0.11 7.66 -2.39 -0.02 0.09 16
33 H 0.16 0.64 6.28 -2.91 -0.02 0.62 16
34 H 0.16 0.97 8.06 -2.91 -0.02 0.95 16
35 H 0.12 2.49 7.84 -2.91 -0.02 2.47 16
36 H 0.10 0.92 6.84 -2.39 -0.02 0.90 16
37 H 0.09 1.16 6.82 -2.39 -0.02 1.14 16
38 H 0.07 1.32 8.14 -2.39 -0.02 1.30 16
39 H 0.11 1.31 8.14 -2.39 -0.02 1.29 16
40 H 0.34 10.88 7.86 -89.69 -0.70 10.17 16
41 H 0.07 1.83 8.13 -2.38 -0.02 1.81 16
42 H 0.12 2.87 8.09 -2.39 -0.02 2.85 16
43 H 0.39 15.17 5.76 -92.71 -0.53 14.64 16
44 H 0.28 15.49 8.31 -92.71 -0.77 14.72 16
45 H 0.05 1.35 7.57 -2.39 -0.02 1.33 16
46 H 0.07 1.57 8.14 -2.39 -0.02 1.55 16
47 H 0.16 2.02 4.61 -2.91 -0.01 2.01 16
Total: -1.00 -86.72 386.85 0.18 -86.54
By element:
Atomic # 1 Polarization: 37.16 SS G_CDS: -0.27 Total: 36.89 kcal
Atomic # 6 Polarization: 11.37 SS G_CDS: 6.52 Total: 17.90 kcal
Atomic # 7 Polarization: -116.03 SS G_CDS: -6.90 Total: -122.93 kcal
Atomic # 8 Polarization: -58.24 SS G_CDS: -1.08 Total: -59.33 kcal
Atomic # 14 Polarization: 39.02 SS G_CDS: 1.90 Total: 40.92 kcal
Total: -86.72 0.18 -86.54 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.
ZINC001187357364.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 4.508 kcal
(2) G-P(sol) polarization free energy of solvation -86.721 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -82.214 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.176 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -86.545 kcal
(6) G-S(sol) free energy of system = (1) + (5) -82.037 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.12 seconds