Wall clock time and date at job start Wed Apr 1 2020 05:14:47
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 C 1.52994 * 1
3 3 C 1.53009 * 109.47127 * 2 1
4 4 C 1.52999 * 109.47057 * 119.99697 * 2 1 3
5 5 H 1.09005 * 109.47033 * 60.00029 * 4 2 1
6 6 C 1.52997 * 109.47264 * 299.99952 * 4 2 1
7 7 N 1.46505 * 109.46985 * 184.99674 * 6 4 2
8 8 C 1.34774 * 119.99861 * 180.02562 * 7 6 4
9 9 O 1.21483 * 120.00280 * 0.02562 * 8 7 6
10 10 C 1.48469 * 119.99983 * 180.02562 * 8 7 6
11 11 C 1.39508 * 120.50520 * 179.97438 * 10 8 7
12 12 C 1.38763 * 118.42351 * 179.97438 * 11 10 8
13 13 N 1.32136 * 119.25124 * 0.02562 * 12 11 10
14 14 C 1.32572 * 120.95443 * 0.02562 * 13 12 11
15 15 N 1.38427 * 119.13713 * 179.97438 * 14 13 12
16 16 C 1.48526 * 111.00178 * 242.59722 * 15 14 13
17 17 C 1.54939 * 103.22906 * 159.72096 * 16 15 14
18 18 C 1.54600 * 102.91981 * 322.58817 * 17 16 15
19 19 C 1.47903 * 111.00238 * 0.02562 * 15 14 13
20 20 N 1.32289 * 121.72139 * 359.73446 * 14 13 12
21 21 N 1.46498 * 109.46890 * 179.97438 * 4 2 1
22 22 C 1.36935 * 120.00239 * 275.00034 * 21 4 2
23 23 H 1.08004 * 120.00069 * 0.02562 * 22 21 4
24 24 C 1.38811 * 120.00368 * 180.02562 * 22 21 4
25 25 N 1.31624 * 119.99540 * 359.72375 * 24 22 21
26 26 Si 1.86800 * 120.00451 * 180.02562 * 24 22 21
27 27 H 1.48501 * 109.47364 * 179.72253 * 26 24 22
28 28 H 1.48508 * 109.46883 * 299.72375 * 26 24 22
29 29 H 1.48497 * 109.46870 * 59.72186 * 26 24 22
30 30 H 1.09004 * 109.47252 * 59.99968 * 1 2 3
31 31 H 1.08999 * 109.47272 * 179.97438 * 1 2 3
32 32 H 1.09003 * 109.47639 * 300.00185 * 1 2 3
33 33 H 1.08994 * 109.47535 * 240.00023 * 2 1 3
34 34 H 1.08994 * 109.47076 * 179.97438 * 3 2 1
35 35 H 1.08994 * 109.46954 * 300.00277 * 3 2 1
36 36 H 1.08997 * 109.46518 * 59.99948 * 3 2 1
37 37 H 1.08996 * 109.47726 * 304.99907 * 6 4 2
38 38 H 1.09001 * 109.46766 * 65.00647 * 6 4 2
39 39 H 0.96994 * 120.00104 * 0.02562 * 7 6 4
40 40 H 1.08002 * 120.78632 * 0.02562 * 11 10 8
41 41 H 1.08006 * 120.37960 * 179.97438 * 12 11 10
42 42 H 1.08999 * 110.67390 * 278.15817 * 16 15 14
43 43 H 1.09003 * 110.66424 * 41.29153 * 16 15 14
44 44 H 1.09000 * 110.72723 * 204.23250 * 17 16 15
45 45 H 1.08998 * 110.87743 * 81.01729 * 17 16 15
46 46 H 1.08997 * 110.30832 * 263.03554 * 18 17 16
47 47 H 1.09002 * 110.30838 * 140.87304 * 18 17 16
48 48 H 1.09006 * 109.91315 * 333.50613 * 19 15 14
49 49 H 1.09001 * 109.92113 * 94.80096 * 19 15 14
50 50 H 0.97004 * 119.99747 * 95.00774 * 21 4 2
51 51 H 0.97000 * 120.00481 * 0.27542 * 25 24 22
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 1.5299 0.0000 0.0000
3 6 2.0400 1.4426 0.0000
4 6 2.0399 -0.7212 1.2493
5 1 1.6766 -1.7489 1.2493
6 6 1.5300 0.0001 2.4985
7 7 2.1141 -0.6176 3.6916
8 6 1.8052 -0.1444 4.9152
9 8 1.0420 0.7940 5.0288
10 6 2.3976 -0.7699 6.1244
11 6 2.0855 -0.2883 7.3959
12 6 2.6633 -0.9056 8.4962
13 7 3.4856 -1.9227 8.3080
14 6 3.7640 -2.3577 7.0870
15 7 4.6310 -3.4258 6.9334
16 6 5.8453 -3.0215 6.1796
17 6 6.8765 -4.1150 6.5557
18 6 6.5634 -4.3878 8.0449
19 6 5.1127 -3.9104 8.2451
20 7 3.2312 -1.8006 6.0119
21 7 3.5049 -0.7217 1.2489
22 6 4.1891 -1.6935 0.5688
23 1 3.6488 -2.4594 0.0322
24 6 5.5772 -1.6943 0.5689
25 7 6.2358 -0.7578 1.2183
26 14 6.5106 -3.0195 -0.3595
27 1 7.9708 -2.7942 -0.2092
28 1 6.1561 -4.3525 0.1909
29 1 6.1470 -2.9654 -1.7983
30 1 -0.3634 0.5138 -0.8900
31 1 -0.3634 -1.0276 -0.0005
32 1 -0.3634 0.5139 0.8900
33 1 1.8933 -0.5138 -0.8899
34 1 3.1299 1.4426 0.0005
35 1 1.6766 1.9564 -0.8899
36 1 1.6766 1.9563 0.8900
37 1 1.8183 1.0503 2.4549
38 1 0.4436 -0.0769 2.5444
39 1 2.7231 -1.3670 3.6010
40 1 1.4096 0.5447 7.5210
41 1 2.4441 -0.5582 9.4951
42 1 5.6521 -3.0277 5.1068
43 1 6.1902 -2.0397 6.5038
44 1 7.8941 -3.7426 6.4375
45 1 6.7245 -5.0141 5.9586
46 1 7.2402 -3.8207 8.6838
47 1 6.6436 -5.4535 8.2593
48 1 5.0859 -3.0996 8.9731
49 1 4.4922 -4.7394 8.5854
50 1 3.9902 -0.0337 1.7306
51 1 5.7512 -0.0693 1.7001
RHF calculation, no. of doubly occupied orbitals= 66
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
ZINC001271862114.mol2 51
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 05:14:47
Heat of formation + Delta-G solvation = 22.557740 kcal
Electronic energy + Delta-G solvation = -31491.205666 eV
Core-core repulsion = 27425.629814 eV
Total energy + Delta-G solvation = -4065.575852 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 347.206 amu
Computer time = 1.14 seconds
Orbital eigenvalues (eV)
-42.59034 -40.90995 -39.59406 -38.91135 -35.62657 -35.40597 -34.82913 -34.13982
-32.04634 -30.93001 -30.07855 -29.17751 -28.00086 -26.66896 -25.41829 -25.04012
-24.21858 -22.81351 -22.14465 -21.45757 -20.43772 -19.37793 -19.27871 -18.98720
-17.76368 -17.41866 -17.05391 -16.74977 -16.66851 -16.26693 -16.16070 -15.71204
-15.49962 -15.37053 -15.14301 -14.97394 -14.88677 -14.36372 -14.18512 -14.02961
-13.60335 -13.50696 -13.32969 -12.95525 -12.78284 -12.72128 -12.50601 -12.48805
-12.25135 -12.17247 -12.08034 -12.03563 -11.91963 -11.72104 -11.67812 -11.47818
-11.44677 -11.24209 -11.12460 -10.86270 -10.44987 -10.19500 -9.59739 -9.07089
-8.31056 -5.25457 -0.68449 -0.16643 1.51129 1.59598 1.68311 1.81394
1.84109 2.08446 2.59489 2.72828 2.85429 3.30367 3.45348 3.50368
3.61803 3.68774 3.74996 3.78033 3.86411 4.00686 4.11105 4.12725
4.21222 4.23424 4.34192 4.40242 4.44347 4.49619 4.59535 4.67665
4.80133 4.80978 4.82988 4.88357 4.94569 5.00617 5.04275 5.07261
5.08892 5.12324 5.17514 5.20446 5.31448 5.46492 5.47779 5.50392
5.55694 5.68219 5.98219 6.29212 6.54855 6.79931 6.93476 7.12505
8.02399 8.14604 9.19156
Molecular weight = 347.21amu
Principal moments of inertia in cm(-1)
A = 0.007944 B = 0.004182 C = 0.002880
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 3523.807912 B = 6694.482805 C = 9718.812458
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.140 4.140
2 C -0.105 4.105
3 C -0.134 4.134
4 C 0.176 3.824
5 H 0.048 0.952
6 C 0.115 3.885
7 N -0.692 5.692
8 C 0.564 3.436
9 O -0.553 6.553
10 C 0.133 3.867
11 C -0.194 4.194
12 C 0.185 3.815
13 N -0.538 5.538
14 C 0.472 3.528
15 N -0.459 5.459
16 C 0.054 3.946
17 C -0.119 4.119
18 C -0.121 4.121
19 C 0.039 3.961
20 N -0.525 5.525
21 N -0.735 5.735
22 C -0.320 4.320
23 H 0.064 0.936
24 C -0.096 4.096
25 N -0.971 5.971
26 Si 1.120 2.880
27 H -0.296 1.296
28 H -0.280 1.280
29 H -0.283 1.283
30 H 0.065 0.935
31 H 0.057 0.943
32 H 0.062 0.938
33 H 0.051 0.949
34 H 0.028 0.972
35 H 0.061 0.939
36 H 0.057 0.943
37 H 0.066 0.934
38 H 0.090 0.910
39 H 0.413 0.587
40 H 0.179 0.821
41 H 0.229 0.771
42 H 0.070 0.930
43 H 0.043 0.957
44 H 0.092 0.908
45 H 0.079 0.921
46 H 0.086 0.914
47 H 0.095 0.905
48 H 0.083 0.917
49 H 0.090 0.910
50 H 0.358 0.642
51 H 0.241 0.759
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -6.585 -2.902 15.283 16.892
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 -0.198 4.198
2 C -0.127 4.127
3 C -0.191 4.191
4 C 0.067 3.933
5 H 0.066 0.934
6 C -0.008 4.008
7 N -0.341 5.341
8 C 0.348 3.652
9 O -0.432 6.432
10 C -0.015 4.015
11 C -0.218 4.218
12 C 0.016 3.984
13 N -0.258 5.258
14 C 0.115 3.885
15 N -0.180 5.180
16 C -0.072 4.072
17 C -0.158 4.158
18 C -0.159 4.159
19 C -0.088 4.088
20 N -0.246 5.246
21 N -0.377 5.377
22 C -0.451 4.451
23 H 0.082 0.918
24 C -0.288 4.288
25 N -0.619 5.619
26 Si 0.946 3.054
27 H -0.222 1.222
28 H -0.206 1.206
29 H -0.209 1.209
30 H 0.084 0.916
31 H 0.076 0.924
32 H 0.081 0.919
33 H 0.070 0.930
34 H 0.047 0.953
35 H 0.080 0.920
36 H 0.075 0.925
37 H 0.084 0.916
38 H 0.108 0.892
39 H 0.250 0.750
40 H 0.196 0.804
41 H 0.245 0.755
42 H 0.088 0.912
43 H 0.062 0.938
44 H 0.110 0.890
45 H 0.098 0.902
46 H 0.105 0.895
47 H 0.114 0.886
48 H 0.101 0.899
49 H 0.108 0.892
50 H 0.190 0.810
51 H 0.051 0.949
Dipole moment (debyes) X Y Z Total
from point charges -5.381 -4.215 14.350 15.894
hybrid contribution -1.242 1.794 0.385 2.216
sum -6.622 -2.421 14.734 16.334
Atomic orbital electron populations
1.21844 0.93462 1.02051 1.02466 1.21574 0.96223 0.96472 0.98381
1.21693 0.99948 0.95961 1.01479 1.20587 0.83554 0.96999 0.92115
0.93421 1.21893 0.98456 0.97224 0.83270 1.45985 1.47151 1.35742
1.05232 1.18061 0.81145 0.82841 0.83159 1.90730 1.37071 1.28701
1.86693 1.21521 0.93095 0.91857 0.95004 1.23068 1.03226 1.03674
0.91836 1.24012 0.86301 0.86857 1.01230 1.68344 1.18121 1.15483
1.23818 1.21321 0.93917 0.88990 0.84265 1.61295 1.13907 1.24078
1.18740 1.23175 0.87290 0.98251 0.98463 1.22536 0.98220 0.97879
0.97124 1.22462 0.94344 1.03479 0.95653 1.23075 0.96590 1.01226
0.87867 1.67893 1.11263 1.10646 1.34803 1.42489 1.01057 1.32467
1.61697 1.20235 0.91963 1.06157 1.26793 0.91821 1.26882 0.94810
1.04486 1.02650 1.70994 1.37380 1.16517 1.37049 0.82708 0.74596
0.73131 0.74935 1.22207 1.20609 1.20906 0.91627 0.92431 0.91895
0.93050 0.95258 0.92011 0.92458 0.91608 0.89215 0.74973 0.80408
0.75503 0.91182 0.93837 0.88996 0.90188 0.89540 0.88616 0.89869
0.89182 0.80954 0.94877
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 -0.14 -3.61 8.84 71.98 0.64 -2.97 16
2 C -0.10 -3.54 2.91 -10.79 -0.03 -3.57 16
3 C -0.13 -4.46 8.69 71.99 0.63 -3.83 16
4 C 0.18 6.72 2.27 44.99 0.10 6.82 16
5 H 0.05 1.89 8.08 -2.38 -0.02 1.87 16
6 C 0.12 3.97 4.51 86.38 0.39 4.36 16
7 N -0.69 -25.44 5.38 -465.36 -2.50 -27.95 16
8 C 0.56 20.02 7.83 86.97 0.68 20.70 16
9 O -0.55 -20.61 16.42 -3.66 -0.06 -20.67 16
10 C 0.13 4.28 6.79 42.00 0.29 4.57 16
11 C -0.19 -4.56 9.71 22.70 0.22 -4.34 16
12 C 0.18 3.50 11.30 84.77 0.96 4.46 16
13 N -0.54 -13.42 8.12 -198.02 -1.61 -15.02 16
14 C 0.47 14.59 6.98 261.53 1.82 16.42 16
15 N -0.46 -13.36 5.35 -696.30 -3.73 -17.08 16
16 C 0.05 1.61 6.31 86.65 0.55 2.16 16
17 C -0.12 -2.59 7.06 31.80 0.22 -2.37 16
18 C -0.12 -2.03 6.93 31.48 0.22 -1.81 16
19 C 0.04 0.82 6.34 86.46 0.55 1.37 16
20 N -0.53 -18.28 9.48 -187.10 -1.77 -20.05 16
21 N -0.74 -35.09 3.79 -322.94 -1.23 -36.31 16
22 C -0.32 -17.24 9.93 84.03 0.83 -16.41 16
23 H 0.06 3.39 7.83 -2.91 -0.02 3.36 16
24 C -0.10 -5.45 5.50 84.86 0.47 -4.98 16
25 N -0.97 -59.48 13.70 21.65 0.30 -59.19 16
26 Si 1.12 51.55 29.92 68.60 2.05 53.60 16
27 H -0.30 -14.01 7.11 99.48 0.71 -13.31 16
28 H -0.28 -12.05 7.11 99.48 0.71 -11.35 16
29 H -0.28 -12.24 7.11 99.48 0.71 -11.53 16
30 H 0.06 1.48 8.14 -2.39 -0.02 1.46 16
31 H 0.06 1.41 8.14 -2.39 -0.02 1.39 16
32 H 0.06 1.50 6.54 -2.39 -0.02 1.48 16
33 H 0.05 1.96 8.14 -2.39 -0.02 1.94 16
34 H 0.03 1.16 7.60 -2.39 -0.02 1.15 16
35 H 0.06 1.79 8.14 -2.39 -0.02 1.77 16
36 H 0.06 1.76 6.32 -2.39 -0.02 1.75 16
37 H 0.07 2.35 6.17 -2.39 -0.01 2.34 16
38 H 0.09 2.76 6.71 -2.39 -0.02 2.74 16
39 H 0.41 16.84 7.52 -92.71 -0.70 16.14 16
40 H 0.18 3.45 7.73 -2.91 -0.02 3.42 16
41 H 0.23 1.81 8.06 -2.91 -0.02 1.78 16
42 H 0.07 2.56 8.14 -2.39 -0.02 2.54 16
43 H 0.04 1.33 7.99 -2.39 -0.02 1.31 16
44 H 0.09 1.78 8.14 -2.39 -0.02 1.76 16
45 H 0.08 1.75 8.14 -2.39 -0.02 1.73 16
46 H 0.09 1.20 8.14 -2.39 -0.02 1.18 16
47 H 0.10 1.26 8.14 -2.39 -0.02 1.24 16
48 H 0.08 1.76 6.46 -2.38 -0.02 1.75 16
49 H 0.09 1.77 8.14 -2.39 -0.02 1.75 16
50 H 0.36 18.46 6.63 -92.71 -0.61 17.85 16
51 H 0.24 14.89 6.77 -92.71 -0.63 14.26 16
Total: -1.00 -70.07 407.23 -0.23 -70.31
By element:
Atomic # 1 Polarization: 52.00 SS G_CDS: -0.22 Total: 51.78 kcal
Atomic # 6 Polarization: 12.05 SS G_CDS: 8.53 Total: 20.58 kcal
Atomic # 7 Polarization: -165.06 SS G_CDS: -10.54 Total: -175.61 kcal
Atomic # 8 Polarization: -20.61 SS G_CDS: -0.06 Total: -20.67 kcal
Atomic # 14 Polarization: 51.55 SS G_CDS: 2.05 Total: 53.60 kcal
Total: -70.07 -0.23 -70.31 kcal
The number of atoms in the molecule is 51
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.
ZINC001271862114.mol2 51
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 92.865 kcal
(2) G-P(sol) polarization free energy of solvation -70.072 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 22.792 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.234 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -70.307 kcal
(6) G-S(sol) free energy of system = (1) + (5) 22.558 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.14 seconds