Wall clock time and date at job start Wed Apr 1 2020 03:52:10
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 N
2 2 C 1.31620 * 1
3 3 Si 1.86802 * 119.99966 * 2 1
4 4 H 1.48495 * 109.46661 * 239.99753 * 3 2 1
5 5 H 1.48496 * 109.46740 * 359.97438 * 3 2 1
6 6 H 1.48499 * 109.47066 * 119.99942 * 3 2 1
7 7 C 1.38810 * 119.99982 * 179.97438 * 2 1 3
8 8 H 1.07999 * 120.00125 * 160.18366 * 7 2 1
9 9 N 1.36943 * 120.00272 * 340.18392 * 7 2 1
10 10 C 1.46499 * 119.99757 * 139.90052 * 9 7 2
11 11 C 1.53001 * 109.46877 * 90.00513 * 10 9 7
12 12 C 1.52996 * 109.47086 * 179.97438 * 11 10 9
13 13 N 1.46505 * 109.47376 * 179.97438 * 12 11 10
14 14 C 1.34773 * 120.00012 * 180.02562 * 13 12 11
15 15 O 1.21275 * 120.00444 * 0.27223 * 14 13 12
16 16 C 1.50705 * 119.99770 * 180.02562 * 14 13 12
17 17 C 1.53004 * 109.46916 * 179.97438 * 16 14 13
18 18 C 1.53002 * 109.46759 * 179.97438 * 17 16 14
19 19 C 1.53780 * 113.61734 * 274.13562 * 18 17 16
20 20 C 1.53949 * 87.01854 * 220.04940 * 19 18 17
21 21 C 1.53782 * 87.11647 * 25.36535 * 20 19 18
22 22 C 1.46502 * 119.99697 * 319.90458 * 9 7 2
23 23 C 1.50698 * 109.46684 * 268.02599 * 22 9 7
24 24 C 1.38673 * 120.41779 * 263.14602 * 23 22 9
25 25 C 1.38633 * 118.42058 * 179.78778 * 24 23 22
26 26 C 1.38226 * 119.15901 * 0.51535 * 25 24 23
27 27 N 1.31855 * 120.76357 * 359.72514 * 26 25 24
28 28 C 1.31890 * 121.72661 * 0.02562 * 27 26 25
29 29 H 0.96998 * 120.00023 * 0.02562 * 1 2 3
30 30 H 1.08989 * 109.47815 * 330.00372 * 10 9 7
31 31 H 1.09003 * 109.46868 * 209.99843 * 10 9 7
32 32 H 1.09005 * 109.47348 * 59.99589 * 11 10 9
33 33 H 1.08995 * 109.47432 * 299.99332 * 11 10 9
34 34 H 1.09003 * 109.47362 * 60.00202 * 12 11 10
35 35 H 1.08996 * 109.47561 * 300.00157 * 12 11 10
36 36 H 0.96995 * 119.99463 * 0.02562 * 13 12 11
37 37 H 1.09003 * 109.46730 * 299.99470 * 16 14 13
38 38 H 1.08997 * 109.47372 * 60.00020 * 16 14 13
39 39 H 1.08994 * 109.47200 * 299.99572 * 17 16 14
40 40 H 1.08997 * 109.46921 * 59.99944 * 17 16 14
41 41 H 1.09001 * 112.84947 * 45.33433 * 18 17 16
42 42 H 1.08993 * 113.61264 * 334.57097 * 19 18 17
43 43 H 1.08994 * 113.61072 * 105.46976 * 19 18 17
44 44 H 1.08994 * 113.54192 * 270.80932 * 20 19 18
45 45 H 1.09007 * 113.66262 * 139.93312 * 20 19 18
46 46 H 1.08993 * 113.61360 * 220.09038 * 21 20 19
47 47 H 1.09000 * 113.69041 * 89.18958 * 21 20 19
48 48 H 1.08999 * 109.47181 * 28.02564 * 22 9 7
49 49 H 1.08999 * 109.46767 * 148.03148 * 22 9 7
50 50 H 1.08001 * 120.79159 * 0.02619 * 24 23 22
51 51 H 1.07999 * 120.42282 * 180.21820 * 25 24 23
52 52 H 1.07994 * 119.61950 * 179.74658 * 26 25 24
53 53 H 1.08000 * 119.61583 * 179.97438 * 28 27 26
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 2.2502 1.6178 0.0000
4 1 3.1039 1.6963 -1.2125
5 1 1.2851 2.7464 -0.0006
6 1 3.1039 1.6964 1.2125
7 6 2.0102 -1.2021 0.0005
8 1 3.0423 -1.2300 -0.3165
9 7 1.3864 -2.3528 0.4031
10 6 1.6284 -3.6068 -0.3147
11 6 2.8174 -4.3342 0.3163
12 6 3.0698 -5.6441 -0.4329
13 7 4.2087 -6.3404 0.1709
14 6 4.6163 -7.5242 -0.3280
15 8 4.0434 -8.0108 -1.2798
16 6 5.7874 -8.2407 0.2934
17 6 6.0399 -9.5506 -0.4559
18 6 7.2293 -10.2777 0.1746
19 6 8.5912 -9.8264 -0.3790
20 6 9.0089 -11.3075 -0.3362
21 6 7.5148 -11.6519 -0.4538
22 6 0.4770 -2.3297 1.5514
23 6 1.2445 -2.6560 2.8066
24 6 1.2522 -3.9486 3.3088
25 6 1.9756 -4.2034 4.4636
26 6 2.6516 -3.1658 5.0777
27 7 2.6179 -1.9476 4.5743
28 6 1.9443 -1.6697 3.4750
29 1 -0.4850 0.8400 -0.0004
30 1 1.8480 -3.3906 -1.3601
31 1 0.7419 -4.2379 -0.2525
32 1 2.5979 -4.5505 1.3619
33 1 3.7040 -3.7032 0.2542
34 1 3.2893 -5.4282 -1.4785
35 1 2.1832 -6.2751 -0.3705
36 1 4.6693 -5.9494 0.9296
37 1 6.6740 -7.6095 0.2313
38 1 5.5679 -8.4571 1.3389
39 1 5.1533 -10.1816 -0.3935
40 1 6.2593 -9.3346 -1.5015
41 1 7.1851 -10.2963 1.2636
42 1 8.5383 -9.4166 -1.3876
43 1 9.1533 -9.1933 0.3073
44 1 9.4527 -11.6075 0.6130
45 1 9.5983 -11.6209 -1.1980
46 1 7.2094 -12.4903 0.1721
47 1 7.1658 -11.7425 -1.4825
48 1 0.0337 -1.3383 1.6440
49 1 -0.3114 -3.0681 1.4054
50 1 0.7107 -4.7388 2.8101
51 1 2.0068 -5.1990 4.8809
52 1 3.2141 -3.3551 5.9799
53 1 1.9396 -0.6596 3.0929
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
ZINC001230726183.mol2 53
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 03:52:10
Heat of formation + Delta-G solvation = -2.519475 kcal
Electronic energy + Delta-G solvation = -29714.125088 eV
Core-core repulsion = 25778.313629 eV
Total energy + Delta-G solvation = -3935.811460 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 345.216 amu
Computer time = 1.06 seconds
Orbital eigenvalues (eV)
-40.93697 -40.79451 -39.58341 -38.03109 -36.24592 -34.00993 -33.77873 -33.32359
-32.54656 -31.19618 -27.93750 -27.58040 -26.51911 -26.22597 -24.26670 -24.10886
-22.88928 -22.50367 -22.03498 -21.03808 -20.24584 -18.72748 -17.92621 -17.78764
-17.28649 -16.95943 -16.88763 -16.63184 -16.33256 -16.01061 -15.80233 -15.50968
-15.29323 -15.09003 -14.57568 -14.48128 -14.34519 -14.15439 -13.80641 -13.68539
-13.48491 -13.39151 -13.27699 -12.97295 -12.88141 -12.77695 -12.58233 -12.46315
-12.35953 -12.25449 -12.00035 -11.88920 -11.84234 -11.56876 -11.39375 -11.15699
-10.96356 -10.77712 -10.55398 -10.47275 -10.21553 -10.06077 -9.69095 -8.56636
-7.87228 -5.50855 0.39989 0.53540 1.44126 1.48104 1.52944 1.68906
2.26122 2.48709 3.02561 3.24293 3.69375 3.72475 3.73551 3.76128
3.80350 3.99300 4.02937 4.10097 4.12886 4.20340 4.26598 4.30933
4.33038 4.39523 4.44592 4.49852 4.65908 4.68660 4.73150 4.74851
4.85299 4.87915 4.92638 4.94394 4.97423 5.05794 5.06314 5.07437
5.12079 5.20757 5.30220 5.32820 5.35264 5.45215 5.46824 5.51322
5.53127 5.68945 5.70294 5.70757 6.01600 6.46186 6.60198 7.14723
7.22075 7.29592 7.80278 8.34821 9.09286
Molecular weight = 345.22amu
Principal moments of inertia in cm(-1)
A = 0.012012 B = 0.002176 C = 0.002015
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2330.497098 B =12864.751359 C =13892.405565
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.910 5.910
2 C -0.023 4.023
3 Si 0.944 3.056
4 H -0.277 1.277
5 H -0.292 1.292
6 H -0.280 1.280
7 C -0.262 4.262
8 H 0.049 0.951
9 N -0.585 5.585
10 C 0.150 3.850
11 C -0.127 4.127
12 C 0.131 3.869
13 N -0.720 5.720
14 C 0.504 3.496
15 O -0.592 6.592
16 C -0.130 4.130
17 C -0.090 4.090
18 C -0.107 4.107
19 C -0.141 4.141
20 C -0.142 4.142
21 C -0.143 4.143
22 C 0.188 3.812
23 C -0.130 4.130
24 C -0.080 4.080
25 C -0.162 4.162
26 C 0.070 3.930
27 N -0.514 5.514
28 C 0.090 3.910
29 H 0.254 0.746
30 H 0.037 0.963
31 H 0.048 0.952
32 H 0.070 0.930
33 H 0.048 0.952
34 H 0.049 0.951
35 H 0.061 0.939
36 H 0.413 0.587
37 H 0.111 0.889
38 H 0.118 0.882
39 H 0.055 0.945
40 H 0.050 0.950
41 H 0.104 0.896
42 H 0.072 0.928
43 H 0.075 0.925
44 H 0.088 0.912
45 H 0.065 0.935
46 H 0.071 0.929
47 H 0.072 0.928
48 H 0.066 0.934
49 H 0.044 0.956
50 H 0.142 0.858
51 H 0.167 0.833
52 H 0.179 0.821
53 H 0.120 0.880
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 12.819 -20.288 7.279 25.078
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 -0.553 5.553
2 C -0.221 4.221
3 Si 0.772 3.228
4 H -0.202 1.202
5 H -0.218 1.218
6 H -0.206 1.206
7 C -0.393 4.393
8 H 0.067 0.933
9 N -0.305 5.305
10 C 0.023 3.977
11 C -0.167 4.167
12 C 0.006 3.994
13 N -0.372 5.372
14 C 0.292 3.708
15 O -0.473 6.473
16 C -0.170 4.170
17 C -0.128 4.128
18 C -0.125 4.125
19 C -0.179 4.179
20 C -0.179 4.179
21 C -0.181 4.181
22 C 0.061 3.939
23 C -0.135 4.135
24 C -0.106 4.106
25 C -0.181 4.181
26 C -0.088 4.088
27 N -0.223 5.223
28 C -0.066 4.066
29 H 0.063 0.937
30 H 0.055 0.945
31 H 0.066 0.934
32 H 0.089 0.911
33 H 0.067 0.933
34 H 0.067 0.933
35 H 0.080 0.920
36 H 0.249 0.751
37 H 0.129 0.871
38 H 0.136 0.864
39 H 0.074 0.926
40 H 0.069 0.931
41 H 0.122 0.878
42 H 0.091 0.909
43 H 0.093 0.907
44 H 0.107 0.893
45 H 0.084 0.916
46 H 0.090 0.910
47 H 0.091 0.909
48 H 0.084 0.916
49 H 0.062 0.938
50 H 0.160 0.840
51 H 0.185 0.815
52 H 0.196 0.804
53 H 0.137 0.863
Dipole moment (debyes) X Y Z Total
from point charges 12.708 -19.783 6.958 24.521
hybrid contribution -0.214 1.044 -0.604 1.225
sum 12.494 -18.739 6.354 23.402
Atomic orbital electron populations
1.70085 1.06575 1.26305 1.52310 1.25767 0.95545 1.01085 0.99738
0.85722 0.78236 0.80438 0.78383 1.20244 1.21790 1.20571 1.19001
0.93199 0.86452 1.40631 0.93319 1.43774 1.52941 1.04510 1.29234
1.20838 0.95324 0.87016 0.94481 1.22179 1.00039 0.94155 1.00305
1.21136 0.88782 0.92768 0.96698 1.46072 1.33730 1.21636 1.35751
1.21501 0.85540 0.80745 0.82999 1.90678 1.59127 1.67578 1.29925
1.21712 0.95766 0.97413 1.02067 1.21256 0.98141 0.94619 0.98768
1.22594 0.93561 0.95746 1.00600 1.23035 0.96628 0.96879 1.01312
1.22854 0.96148 0.96407 1.02490 1.22962 0.96819 0.97207 1.01074
1.19700 0.90204 1.01261 0.82701 1.21909 0.99243 0.94712 0.97598
1.21669 0.97647 0.95572 0.95752 1.22387 0.97869 1.01747 0.96084
1.23192 0.97791 0.87730 1.00060 1.67610 1.18443 1.24120 1.12144
1.22303 0.93844 0.99309 0.91130 0.93713 0.94484 0.93394 0.91105
0.93309 0.93266 0.92026 0.75123 0.87073 0.86364 0.92623 0.93083
0.87774 0.90898 0.90675 0.89318 0.91579 0.91045 0.90931 0.91584
0.93800 0.83976 0.81538 0.80407 0.86266
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 16.
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 -0.91 -50.70 11.59 21.65 0.25 -50.45 16
2 C -0.02 -1.21 4.95 84.86 0.42 -0.79 16
3 Si 0.94 43.44 29.60 68.60 2.03 45.47 16
4 H -0.28 -12.48 7.11 99.48 0.71 -11.78 16
5 H -0.29 -13.48 7.11 99.48 0.71 -12.77 16
6 H -0.28 -12.78 7.11 99.48 0.71 -12.07 16
7 C -0.26 -13.54 9.44 84.03 0.79 -12.75 16
8 H 0.05 2.57 7.90 -2.91 -0.02 2.54 16
9 N -0.59 -26.67 2.39 -706.35 -1.69 -28.36 16
10 C 0.15 5.71 5.71 86.38 0.49 6.20 16
11 C -0.13 -3.89 5.62 30.59 0.17 -3.72 16
12 C 0.13 3.61 5.67 86.38 0.49 4.10 16
13 N -0.72 -16.13 5.56 -463.06 -2.57 -18.70 16
14 C 0.50 12.07 7.83 87.66 0.69 12.76 16
15 O -0.59 -19.76 15.98 -3.02 -0.05 -19.81 16
16 C -0.13 -1.92 5.70 29.85 0.17 -1.75 16
17 C -0.09 -1.50 4.33 30.60 0.13 -1.37 16
18 C -0.11 -1.29 3.64 -10.26 -0.04 -1.32 16
19 C -0.14 -1.64 7.65 31.18 0.24 -1.40 16
20 C -0.14 -1.52 8.09 31.18 0.25 -1.27 16
21 C -0.14 -1.76 7.65 31.12 0.24 -1.52 16
22 C 0.19 8.12 5.47 85.63 0.47 8.59 16
23 C -0.13 -4.82 5.17 -19.78 -0.10 -4.92 16
24 C -0.08 -2.27 8.00 22.47 0.18 -2.09 16
25 C -0.16 -3.74 10.11 22.36 0.23 -3.51 16
26 C 0.07 1.87 11.18 84.69 0.95 2.81 16
27 N -0.51 -18.41 10.36 -195.85 -2.03 -20.44 16
28 C 0.09 3.63 10.89 84.67 0.92 4.55 16
29 H 0.25 13.80 8.31 -92.71 -0.77 13.03 16
30 H 0.04 1.51 8.04 -2.39 -0.02 1.49 16
31 H 0.05 1.71 7.91 -2.39 -0.02 1.69 16
32 H 0.07 2.08 5.85 -2.38 -0.01 2.06 16
33 H 0.05 1.66 8.14 -2.39 -0.02 1.64 16
34 H 0.05 1.52 8.14 -2.39 -0.02 1.50 16
35 H 0.06 1.74 8.14 -2.39 -0.02 1.72 16
36 H 0.41 7.11 8.47 -92.71 -0.79 6.32 16
37 H 0.11 1.26 8.14 -2.39 -0.02 1.24 16
38 H 0.12 1.15 8.14 -2.39 -0.02 1.13 16
39 H 0.05 1.09 8.10 -2.39 -0.02 1.07 16
40 H 0.05 1.04 7.83 -2.39 -0.02 1.02 16
41 H 0.10 0.98 8.14 -2.39 -0.02 0.96 16
42 H 0.07 0.97 7.92 -2.39 -0.02 0.95 16
43 H 0.07 0.74 8.14 -2.39 -0.02 0.72 16
44 H 0.09 0.78 8.14 -2.39 -0.02 0.76 16
45 H 0.07 0.70 8.14 -2.38 -0.02 0.68 16
46 H 0.07 0.79 8.14 -2.39 -0.02 0.77 16
47 H 0.07 1.01 8.10 -2.39 -0.02 0.99 16
48 H 0.07 3.36 5.66 -2.39 -0.01 3.35 16
49 H 0.04 1.78 7.83 -2.39 -0.02 1.76 16
50 H 0.14 3.47 8.06 -2.91 -0.02 3.45 16
51 H 0.17 2.42 8.06 -2.91 -0.02 2.40 16
52 H 0.18 3.35 8.06 -2.91 -0.02 3.33 16
53 H 0.12 5.42 8.06 -2.91 -0.02 5.40 16
Total: -1.00 -67.05 429.45 2.72 -64.32
By element:
Atomic # 1 Polarization: 25.26 SS G_CDS: 0.09 Total: 25.36 kcal
Atomic # 6 Polarization: -4.08 SS G_CDS: 6.69 Total: 2.61 kcal
Atomic # 7 Polarization: -111.90 SS G_CDS: -6.04 Total: -117.94 kcal
Atomic # 8 Polarization: -19.76 SS G_CDS: -0.05 Total: -19.81 kcal
Atomic # 14 Polarization: 43.44 SS G_CDS: 2.03 Total: 45.47 kcal
Total: -67.05 2.72 -64.32 kcal
The number of atoms in the molecule is 53
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.
ZINC001230726183.mol2 53
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 61.801 kcal
(2) G-P(sol) polarization free energy of solvation -67.045 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -5.244 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.725 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -64.321 kcal
(6) G-S(sol) free energy of system = (1) + (5) -2.519 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.06 seconds