Wall clock time and date at job start Tue Mar 31 2020 13:42:11
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 1.31619 * 1
3 3 Si 1.86805 * 119.99738 * 2 1
4 4 H 1.48500 * 109.46691 * 179.72473 * 3 2 1
5 5 H 1.48503 * 109.47032 * 299.72117 * 3 2 1
6 6 H 1.48494 * 109.47062 * 59.72467 * 3 2 1
7 7 C 1.38810 * 119.99810 * 179.72475 * 2 1 3
8 8 H 1.07999 * 119.99779 * 155.10382 * 7 2 1
9 9 N 1.36929 * 120.00233 * 335.09825 * 7 2 1
10 10 C 1.47424 * 125.65182 * 331.84059 * 9 7 2
11 11 C 1.54907 * 104.83588 * 204.09122 * 10 9 7
12 12 C 1.55155 * 101.58106 * 322.98622 * 11 10 9
13 13 C 1.47026 * 125.65011 * 151.52776 * 9 7 2
14 14 H 1.09008 * 109.88082 * 59.56305 * 13 9 7
15 15 C 1.53001 * 109.88016 * 298.39992 * 13 9 7
16 16 N 1.46500 * 109.47302 * 61.51176 * 15 13 9
17 17 C 1.34773 * 120.00122 * 186.19375 * 16 15 13
18 18 O 1.21282 * 119.99987 * 359.97438 * 17 16 15
19 19 C 1.50698 * 120.00289 * 179.97438 * 17 16 15
20 20 H 1.08998 * 110.37422 * 305.91985 * 19 17 16
21 21 O 1.43932 * 110.42317 * 183.54617 * 19 17 16
22 22 C 1.43766 * 109.64100 * 215.17130 * 21 19 17
23 23 C 1.53679 * 106.82634 * 1.34163 * 22 21 19
24 24 H 1.09005 * 109.74052 * 267.27731 * 23 22 21
25 25 C 1.51240 * 112.33139 * 144.99799 * 23 22 21
26 26 O 1.42699 * 111.49579 * 295.00558 * 25 23 22
27 27 C 1.43201 * 112.75732 * 299.56261 * 26 25 23
28 28 C 1.52760 * 108.43296 * 64.90812 * 27 26 25
29 29 C 1.53101 * 110.45683 * 300.07423 * 28 27 26
30 30 H 1.08993 * 113.39848 * 283.65631 * 29 28 27
31 31 H 0.97003 * 120.00035 * 174.41820 * 1 2 3
32 32 H 1.09004 * 110.36730 * 322.92980 * 10 9 7
33 33 H 1.08999 * 110.37071 * 85.13755 * 10 9 7
34 34 H 1.08999 * 111.00619 * 81.06130 * 11 10 9
35 35 H 1.09004 * 111.00163 * 204.87710 * 11 10 9
36 36 H 1.09001 * 110.71912 * 153.86399 * 12 11 10
37 37 H 1.09001 * 110.72641 * 277.14216 * 12 11 10
38 38 H 1.09002 * 109.46872 * 181.50928 * 15 13 9
39 39 H 1.08997 * 109.47151 * 301.50638 * 15 13 9
40 40 H 0.96999 * 119.99738 * 6.19548 * 16 15 13
41 41 H 1.08994 * 109.99143 * 120.68235 * 22 21 19
42 42 H 1.09007 * 109.98932 * 242.00264 * 22 21 19
43 43 H 1.09009 * 109.07216 * 55.52514 * 25 23 22
44 44 H 1.09002 * 109.07350 * 174.48317 * 25 23 22
45 45 H 1.08995 * 109.64492 * 305.22764 * 27 26 25
46 46 H 1.08996 * 109.81899 * 184.69498 * 27 26 25
47 47 H 1.09005 * 109.30122 * 179.77545 * 28 27 26
48 48 H 1.08993 * 109.14547 * 60.28148 * 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 2.2501 1.6178 0.0000
4 1 3.7101 1.3464 0.0067
5 1 1.8965 2.3935 -1.2159
6 1 1.8863 2.3994 1.2091
7 6 2.0102 -1.2021 0.0058
8 1 3.0149 -1.2475 -0.3878
9 7 1.4210 -2.3305 0.5105
10 6 0.3854 -2.3634 1.5591
11 6 0.5064 -3.7720 2.1921
12 6 0.8343 -4.6439 0.9514
13 6 1.7119 -3.7095 0.0919
14 1 2.7651 -3.9339 0.2609
15 6 1.3703 -3.8867 -1.3890
16 7 2.1988 -2.9846 -2.1926
17 6 1.9850 -2.8753 -3.5188
18 8 1.1070 -3.5242 -4.0470
19 6 2.8369 -1.9469 -4.3454
20 1 2.8201 -0.9413 -3.9252
21 8 2.3806 -1.9284 -5.7104
22 6 3.5061 -1.7907 -6.5943
23 6 4.7632 -1.7522 -5.7111
24 1 5.0168 -0.7183 -5.4765
25 6 5.9461 -2.4306 -6.3653
26 8 5.7178 -3.8287 -6.5371
27 6 5.4970 -4.5103 -5.2973
28 6 4.2005 -3.9865 -4.6822
29 6 4.2991 -2.4799 -4.4286
30 1 4.8987 -2.2264 -3.5544
31 1 -0.4850 -0.8361 -0.0817
32 1 0.5778 -1.5937 2.3067
33 1 -0.6031 -2.2264 1.1206
34 1 1.3183 -3.8054 2.9187
35 1 -0.4355 -4.0779 2.6475
36 1 1.3878 -5.5366 1.2427
37 1 -0.0768 -4.9114 0.4162
38 1 1.5630 -4.9178 -1.6854
39 1 0.3178 -3.6532 -1.5495
40 1 2.9013 -2.4659 -1.7702
41 1 3.5534 -2.6424 -7.2728
42 1 3.4220 -0.8647 -7.1633
43 1 6.1230 -1.9760 -7.3402
44 1 6.8285 -2.2876 -5.7416
45 1 6.3284 -4.3167 -4.6195
46 1 5.4113 -5.5823 -5.4750
47 1 4.0165 -4.4996 -3.7383
48 1 3.3752 -4.1836 -5.3663
RHF calculation, no. of doubly occupied orbitals= 62
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
ZINC001028047936.mol2 48
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Tue Mar 31 2020 13:42:11
Heat of formation + Delta-G solvation = -128.808481 kcal
Electronic energy + Delta-G solvation = -29851.193031 eV
Core-core repulsion = 25905.494315 eV
Total energy + Delta-G solvation = -3945.698716 eV
No. of doubly occupied orbitals = 62
Molecular weight
(most abundant/longest-lived isotopes) = 324.188 amu
Computer time = 0.79 seconds
Orbital eigenvalues (eV)
-42.17603 -40.37945 -39.34487 -38.40742 -35.57682 -34.75803 -34.14133 -32.93186
-31.29372 -30.86522 -29.61346 -26.80614 -26.45975 -25.57907 -24.54482 -23.75831
-22.08447 -21.50589 -20.92309 -20.63489 -19.42448 -18.20045 -17.92389 -17.44195
-17.17167 -16.99981 -16.60580 -16.34722 -16.15753 -15.92391 -15.63434 -15.55095
-15.08418 -14.94702 -14.42493 -14.26249 -14.12239 -13.65910 -13.63822 -13.46135
-13.35266 -13.17389 -12.87877 -12.67390 -12.56615 -12.34418 -12.18182 -12.06757
-11.86817 -11.85379 -11.70506 -11.52819 -11.48903 -11.25576 -10.99348 -10.56641
-10.50743 -10.47211 -9.97091 -8.92562 -8.19443 -5.37579 1.53156 1.58206
1.65852 1.79048 2.04429 2.65552 2.86852 2.94502 3.12008 3.29015
3.48627 3.52983 3.60183 3.84686 3.91341 3.91672 3.99590 3.99944
4.16899 4.18451 4.25013 4.33199 4.36495 4.42304 4.46521 4.55768
4.60580 4.63545 4.68155 4.73061 4.75938 4.81164 4.82995 4.96357
4.96809 5.05762 5.09830 5.13489 5.21061 5.33623 5.45267 5.52670
5.76780 5.80271 6.17629 6.36478 6.62131 6.94471 7.26168 7.73979
8.39362 9.05888
Molecular weight = 324.19amu
Principal moments of inertia in cm(-1)
A = 0.013517 B = 0.004428 C = 0.003772
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2071.000841 B = 6321.885032 C = 7421.006701
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.948 5.948
2 C -0.078 4.078
3 Si 1.108 2.892
4 H -0.255 1.255
5 H -0.300 1.300
6 H -0.297 1.297
7 C -0.318 4.318
8 H 0.069 0.931
9 N -0.609 5.609
10 C 0.139 3.861
11 C -0.119 4.119
12 C -0.115 4.115
13 C 0.141 3.859
14 H 0.060 0.940
15 C 0.125 3.875
16 N -0.690 5.690
17 C 0.510 3.490
18 O -0.589 6.589
19 C 0.062 3.938
20 H 0.097 0.903
21 O -0.389 6.389
22 C 0.049 3.951
23 C -0.146 4.146
24 H 0.119 0.881
25 C 0.070 3.930
26 O -0.394 6.394
27 C 0.067 3.933
28 C -0.151 4.151
29 C -0.096 4.096
30 H 0.134 0.866
31 H 0.252 0.748
32 H 0.019 0.981
33 H -0.007 1.007
34 H 0.079 0.921
35 H 0.083 0.917
36 H 0.104 0.896
37 H 0.063 0.937
38 H 0.068 0.932
39 H 0.019 0.981
40 H 0.410 0.590
41 H 0.069 0.931
42 H 0.090 0.910
43 H 0.115 0.885
44 H 0.080 0.920
45 H 0.078 0.922
46 H 0.101 0.899
47 H 0.071 0.929
48 H 0.047 0.953
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 15.974 -7.307 -5.952 18.547
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 -0.590 5.590
2 C -0.275 4.275
3 Si 0.933 3.067
4 H -0.178 1.178
5 H -0.227 1.227
6 H -0.224 1.224
7 C -0.447 4.447
8 H 0.087 0.913
9 N -0.334 5.334
10 C 0.014 3.986
11 C -0.157 4.157
12 C -0.153 4.153
13 C 0.034 3.966
14 H 0.077 0.923
15 C -0.001 4.001
16 N -0.342 5.342
17 C 0.297 3.703
18 O -0.470 6.470
19 C 0.001 3.999
20 H 0.115 0.885
21 O -0.308 6.308
22 C -0.027 4.027
23 C -0.165 4.165
24 H 0.137 0.863
25 C -0.006 4.006
26 O -0.313 6.313
27 C -0.010 4.010
28 C -0.189 4.189
29 C -0.115 4.115
30 H 0.152 0.848
31 H 0.062 0.938
32 H 0.037 0.963
33 H 0.011 0.989
34 H 0.097 0.903
35 H 0.102 0.898
36 H 0.123 0.877
37 H 0.081 0.919
38 H 0.086 0.914
39 H 0.037 0.963
40 H 0.249 0.751
41 H 0.087 0.913
42 H 0.108 0.892
43 H 0.133 0.867
44 H 0.098 0.902
45 H 0.096 0.904
46 H 0.120 0.880
47 H 0.089 0.911
48 H 0.066 0.934
Dipole moment (debyes) X Y Z Total
from point charges 15.053 -6.160 -6.527 17.526
hybrid contribution -0.706 -0.852 0.298 1.146
sum 14.347 -7.013 -6.230 17.142
Atomic orbital electron populations
1.70827 1.08145 1.29371 1.50622 1.27084 0.96435 1.04862 0.99077
0.82984 0.75286 0.72382 0.76027 1.17831 1.22734 1.22438 1.19771
0.96537 0.87869 1.40553 0.91315 1.44901 1.46462 1.01453 1.40601
1.21483 0.91043 0.96146 0.89972 1.22683 1.02276 0.93619 0.97117
1.22530 0.99520 0.97791 0.95462 1.21558 0.98558 0.86236 0.90228
0.92258 1.21806 0.93185 0.92253 0.92866 1.45855 1.37075 1.44930
1.06342 1.20763 0.83971 0.82511 0.83067 1.90621 1.35323 1.48177
1.72925 1.23160 0.94287 0.98369 0.84050 0.88533 1.88662 1.32378
1.94987 1.14807 1.23343 0.84253 1.02370 0.92686 1.22790 0.96717
1.02688 0.94267 0.86281 1.22151 0.94858 0.80739 1.02860 1.88080
1.92037 1.20770 1.30404 1.22606 0.95040 0.97418 0.85918 1.22123
1.00078 0.94964 1.01739 1.22984 0.92359 0.95741 1.00378 0.84828
0.93821 0.96261 0.98885 0.90253 0.89794 0.87723 0.91865 0.91407
0.96272 0.75089 0.91286 0.89212 0.86708 0.90172 0.90357 0.88045
0.91063 0.93366
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 -0.95 -57.68 13.08 21.65 0.28 -57.40 16
2 C -0.08 -4.19 5.18 84.86 0.44 -3.75 16
3 Si 1.11 48.25 29.99 68.60 2.06 50.30 16
4 H -0.25 -9.47 7.11 99.48 0.71 -8.76 16
5 H -0.30 -13.27 7.11 99.48 0.71 -12.56 16
6 H -0.30 -13.25 7.11 99.48 0.71 -12.54 16
7 C -0.32 -15.76 8.13 84.03 0.68 -15.07 16
8 H 0.07 3.16 6.67 -2.91 -0.02 3.14 16
9 N -0.61 -27.79 2.89 -668.22 -1.93 -29.72 16
10 C 0.14 6.23 5.65 86.85 0.49 6.72 16
11 C -0.12 -3.76 7.09 31.98 0.23 -3.53 16
12 C -0.11 -3.39 6.49 31.79 0.21 -3.18 16
13 C 0.14 5.09 3.34 45.35 0.15 5.25 16
14 H 0.06 1.98 8.14 -2.38 -0.02 1.96 16
15 C 0.12 4.85 5.19 86.38 0.45 5.30 16
16 N -0.69 -26.37 4.80 -463.07 -2.22 -28.60 16
17 C 0.51 20.88 5.50 87.66 0.48 21.36 16
18 O -0.59 -29.33 16.52 15.34 0.25 -29.07 16
19 C 0.06 2.07 3.52 30.84 0.11 2.18 16
20 H 0.10 3.18 8.14 -2.39 -0.02 3.16 16
21 O -0.39 -14.13 10.21 -130.60 -1.33 -15.46 16
22 C 0.05 1.22 6.78 72.21 0.49 1.71 16
23 C -0.15 -2.67 2.98 -10.60 -0.03 -2.70 16
24 H 0.12 1.67 8.14 -2.38 -0.02 1.65 16
25 C 0.07 1.02 6.12 71.41 0.44 1.45 16
26 O -0.39 -7.94 10.46 -148.98 -1.56 -9.50 16
27 C 0.07 1.22 6.82 71.90 0.49 1.71 16
28 C -0.15 -3.71 4.12 30.55 0.13 -3.58 16
29 C -0.10 -2.19 3.63 -9.23 -0.03 -2.22 16
30 H 0.13 2.37 8.14 -2.39 -0.02 2.35 16
31 H 0.25 15.94 6.25 -92.71 -0.58 15.36 16
32 H 0.02 0.94 8.14 -2.39 -0.02 0.92 16
33 H -0.01 -0.34 6.73 -2.39 -0.02 -0.36 16
34 H 0.08 2.29 8.14 -2.39 -0.02 2.27 16
35 H 0.08 2.31 8.14 -2.38 -0.02 2.29 16
36 H 0.10 2.32 8.14 -2.39 -0.02 2.30 16
37 H 0.06 1.92 7.84 -2.39 -0.02 1.90 16
38 H 0.07 2.34 8.14 -2.39 -0.02 2.32 16
39 H 0.02 0.90 8.12 -2.39 -0.02 0.88 16
40 H 0.41 14.78 6.02 -92.71 -0.56 14.22 16
41 H 0.07 1.79 7.62 -2.39 -0.02 1.77 16
42 H 0.09 1.85 8.14 -2.38 -0.02 1.83 16
43 H 0.11 1.25 8.14 -2.38 -0.02 1.24 16
44 H 0.08 0.82 8.13 -2.39 -0.02 0.81 16
45 H 0.08 1.07 8.12 -2.39 -0.02 1.05 16
46 H 0.10 1.70 8.14 -2.39 -0.02 1.68 16
47 H 0.07 1.80 7.77 -2.38 -0.02 1.78 16
48 H 0.05 1.56 6.94 -2.39 -0.02 1.55 16
Total: -1.00 -76.45 367.72 0.85 -75.60
By element:
Atomic # 1 Polarization: 31.62 SS G_CDS: 0.58 Total: 32.21 kcal
Atomic # 6 Polarization: 6.92 SS G_CDS: 4.71 Total: 11.64 kcal
Atomic # 7 Polarization: -111.84 SS G_CDS: -3.87 Total: -115.71 kcal
Atomic # 8 Polarization: -51.40 SS G_CDS: -2.64 Total: -54.04 kcal
Atomic # 14 Polarization: 48.25 SS G_CDS: 2.06 Total: 50.30 kcal
Total: -76.45 0.85 -75.60 kcal
The number of atoms in the molecule is 48
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.
ZINC001028047936.mol2 48
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 -53.208 kcal
(2) G-P(sol) polarization free energy of solvation -76.448 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -129.656 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.847 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.600 kcal
(6) G-S(sol) free energy of system = (1) + (5) -128.808 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.80 seconds