Wall clock time and date at job start Tue Mar 31 2020 22:58:44
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
* DEV - DEVELOPER OPTIONS ARE ALLOWED
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS USER-SPECIFIED
* DIELEC - THE SOLVENT DIELECTRIC CONSTANT IS 2.06
* IOFR - THE SOLVENT INDEX OF REFRACTION IS 1.4345
* ALPHA - THE SOLVENT ALPHA IS 0.00
* BETA - THE SOLVENT BETA IS 0.00
* GAMMA - THE SOLVENT MACROSCOPIC SURFACE TENSION IS
* 38.93 CAL MOL^-1 ANGSTROM^-2
* FACARB - THE FRACTION OF AROMATIC CARBONS IS 0.00
* FEHALO - THE FRACTION OF ELECTRONEGATIVE HALOGENS IS 0.00
*******************************************************************************
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 1.31614 * 1
3 3 Si 1.86801 * 120.00082 * 2 1
4 4 H 1.48497 * 109.46998 * 270.00239 * 3 2 1
5 5 H 1.48502 * 109.46773 * 30.00140 * 3 2 1
6 6 H 1.48500 * 109.47234 * 149.99980 * 3 2 1
7 7 C 1.38815 * 120.00168 * 179.97438 * 2 1 3
8 8 H 1.08001 * 119.99978 * 197.01533 * 7 2 1
9 9 N 1.36937 * 119.99926 * 17.02141 * 7 2 1
10 10 C 1.47080 * 120.88079 * 206.58167 * 9 7 2
11 11 C 1.53237 * 108.52369 * 231.15819 * 10 9 7
12 12 N 1.46901 * 109.34084 * 306.17524 * 11 10 9
13 13 C 1.46907 * 110.99625 * 187.25155 * 12 11 10
14 14 C 1.53000 * 109.46788 * 170.00149 * 13 12 11
15 15 N 1.46502 * 109.46748 * 180.02562 * 14 13 12
16 16 C 1.34773 * 119.99484 * 179.97438 * 15 14 13
17 17 O 1.21282 * 120.00513 * 359.72245 * 16 15 14
18 18 C 1.50706 * 119.99840 * 179.97438 * 16 15 14
19 19 N 1.46503 * 109.47274 * 180.02562 * 18 16 15
20 20 C 1.34764 * 124.17291 * 269.72705 * 19 18 16
21 21 O 1.21233 * 127.16121 * 359.97438 * 20 19 18
22 22 C 1.51593 * 105.67907 * 179.97438 * 20 19 18
23 23 N 1.47305 * 103.59464 * 0.32260 * 22 20 19
24 24 C 1.33793 * 124.17493 * 90.02341 * 19 18 16
25 25 O 1.21535 * 123.77619 * 359.96672 * 24 19 18
26 26 C 1.46897 * 111.26932 * 63.10393 * 12 11 10
27 27 C 1.47084 * 120.88459 * 26.56048 * 9 7 2
28 28 H 0.96998 * 120.00193 * 0.02562 * 1 2 3
29 29 H 1.09002 * 109.62176 * 111.45118 * 10 9 7
30 30 H 1.09001 * 109.78850 * 350.97195 * 10 9 7
31 31 H 1.09001 * 109.49320 * 186.20710 * 11 10 9
32 32 H 1.09010 * 109.48728 * 66.13105 * 11 10 9
33 33 H 1.08992 * 109.47176 * 49.99406 * 13 12 11
34 34 H 1.09005 * 109.46973 * 289.99470 * 13 12 11
35 35 H 1.08999 * 109.47296 * 59.99991 * 14 13 12
36 36 H 1.08997 * 109.47055 * 299.99678 * 14 13 12
37 37 H 0.96997 * 120.00138 * 359.97438 * 15 14 13
38 38 H 1.08997 * 109.47055 * 300.00163 * 18 16 15
39 39 H 1.08999 * 109.46898 * 60.00233 * 18 16 15
40 40 H 1.08998 * 110.76217 * 241.71095 * 22 20 19
41 41 H 1.09003 * 110.55832 * 118.82862 * 22 20 19
42 42 H 0.97002 * 126.69204 * 179.77193 * 23 22 20
43 43 H 1.08998 * 109.49448 * 56.85112 * 26 12 11
44 44 H 1.08998 * 109.49247 * 176.93333 * 26 12 11
45 45 H 1.08994 * 109.62981 * 248.55279 * 27 9 7
46 46 H 1.09006 * 109.62361 * 9.12752 * 27 9 7
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 1.3161 0.0000 0.0000
3 14 2.2502 1.6177 0.0000
4 1 2.4976 2.0464 -1.4001
5 1 1.4476 2.6526 0.7001
6 1 3.5477 1.4402 0.7000
7 6 2.0102 -1.2022 0.0005
8 1 3.0548 -1.2225 0.2742
9 7 1.3706 -2.3623 -0.3461
10 6 1.8310 -3.6609 0.1684
11 6 2.0023 -4.6201 -1.0143
12 7 0.7547 -4.6656 -1.7885
13 6 0.8183 -5.7008 -2.8289
14 6 -0.5693 -5.8905 -3.4450
15 7 -0.5060 -6.9233 -4.4821
16 6 -1.6176 -7.2613 -5.1651
17 8 -2.6713 -6.7141 -4.9177
18 6 -1.5524 -8.3232 -6.2325
19 7 -2.8811 -8.5050 -6.8223
20 6 -3.7972 -9.3828 -6.3682
21 8 -3.6817 -10.1425 -5.4305
22 6 -5.0023 -9.2227 -7.2738
23 7 -4.5831 -8.1806 -8.2269
24 6 -3.3326 -7.8240 -7.8817
25 8 -2.6849 -6.9791 -8.4680
26 6 0.4401 -3.3537 -2.3696
27 6 0.2046 -2.3427 -1.2425
28 1 -0.4850 0.8400 -0.0004
29 1 1.0920 -4.0628 0.8617
30 1 2.7849 -3.5375 0.6811
31 1 2.2364 -5.6177 -0.6426
32 1 2.8137 -4.2695 -1.6522
33 1 1.1513 -6.6399 -2.3872
34 1 1.5210 -5.3944 -3.6038
35 1 -0.9022 -4.9513 -3.8867
36 1 -1.2720 -6.1969 -2.6701
37 1 0.3359 -7.3637 -4.6772
38 1 -0.8501 -8.0167 -7.0075
39 1 -1.2190 -9.2623 -5.7907
40 1 -5.8723 -8.8947 -6.7050
41 1 -5.2159 -10.1558 -7.7953
42 1 -5.1066 -7.8213 -8.9601
43 1 1.2732 -3.0208 -2.9886
44 1 -0.4589 -3.4328 -2.9809
45 1 -0.6906 -2.6178 -0.6848
46 1 0.0841 -1.3450 -1.6647
RHF calculation, no. of doubly occupied orbitals= 64
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC001265266415.mol2 46
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 22:58:44
Heat of formation + Delta-G solvation = -29.440341 kcal
Electronic energy + Delta-G solvation = -29272.312051 eV
Core-core repulsion = 25006.418388 eV
Total energy + Delta-G solvation = -4265.893664 eV
No. of doubly occupied orbitals = 64
Molecular weight
(most abundant/longest-lived isotopes) = 339.174 amu
Computer time = 0.77 seconds
Orbital eigenvalues (eV)
-42.77065 -39.79466 -38.96988 -38.21733 -36.49307 -35.59380 -34.97979 -34.01336
-31.53374 -29.95072 -29.94092 -28.46212 -27.75645 -25.76675 -23.42101 -23.29535
-22.62701 -21.87264 -21.31267 -20.43239 -19.11464 -18.50319 -18.14218 -17.25453
-16.88855 -16.68135 -16.42925 -15.81141 -15.72360 -15.53557 -14.89942 -14.67032
-14.58555 -14.46967 -14.32966 -14.21539 -13.81196 -13.65203 -13.44167 -13.40525
-12.94827 -12.80774 -12.40540 -11.66832 -11.45766 -11.41961 -11.31651 -11.05385
-10.88574 -10.74978 -10.71328 -10.44618 -10.30982 -10.05043 -10.01681 -9.84692
-9.74824 -9.61527 -9.19444 -8.49933 -7.89817 -6.66374 -5.76633 -3.18235
1.21662 1.61086 2.33052 2.49406 2.68689 2.99870 3.38957 3.45574
3.47022 3.53655 4.25342 4.27339 4.47409 4.50348 4.52529 4.62668
4.68531 4.90272 4.99114 5.12469 5.16492 5.40393 5.42576 5.49713
5.81153 5.90070 5.93361 6.02445 6.10075 6.18627 6.26202 6.29152
6.32961 6.53817 6.55303 6.68709 6.90014 6.92564 7.19225 7.24506
7.53274 7.63769 7.67668 7.69957 7.82155 7.93273 8.44604 9.22294
9.85687 10.44128 11.32170
Molecular weight = 339.17amu
Principal moments of inertia in cm(-1)
A = 0.021703 B = 0.001954 C = 0.001874
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1289.839872 B =14327.370317 C =14940.675914
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.903 5.903
2 C 0.001 3.999
3 Si 0.903 3.097
4 H -0.288 1.288
5 H -0.291 1.291
6 H -0.279 1.279
7 C -0.253 4.253
8 H 0.066 0.934
9 N -0.596 5.596
10 C 0.148 3.852
11 C 0.046 3.954
12 N -0.529 5.529
13 C 0.045 3.955
14 C 0.121 3.879
15 N -0.722 5.722
16 C 0.499 3.501
17 O -0.527 6.527
18 C 0.101 3.899
19 N -0.562 5.562
20 C 0.526 3.474
21 O -0.465 6.465
22 C 0.066 3.934
23 N -0.727 5.727
24 C 0.707 3.293
25 O -0.538 6.538
26 C 0.031 3.969
27 C 0.178 3.822
28 H 0.254 0.746
29 H 0.026 0.974
30 H 0.056 0.944
31 H 0.062 0.938
32 H 0.028 0.972
33 H 0.074 0.926
34 H 0.033 0.967
35 H 0.073 0.927
36 H 0.079 0.921
37 H 0.401 0.599
38 H 0.128 0.872
39 H 0.127 0.873
40 H 0.126 0.874
41 H 0.125 0.875
42 H 0.443 0.557
43 H 0.026 0.974
44 H 0.064 0.936
45 H 0.027 0.973
46 H 0.089 0.911
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -6.142 -23.081 -17.410 29.556
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 -0.547 5.547
2 C -0.198 4.198
3 Si 0.733 3.267
4 H -0.215 1.215
5 H -0.217 1.217
6 H -0.205 1.205
7 C -0.382 4.382
8 H 0.084 0.916
9 N -0.319 5.319
10 C 0.022 3.978
11 C -0.083 4.083
12 N -0.255 5.255
13 C -0.084 4.084
14 C -0.002 4.002
15 N -0.375 5.375
16 C 0.283 3.717
17 O -0.402 6.402
18 C -0.025 4.025
19 N -0.308 5.308
20 C 0.313 3.687
21 O -0.334 6.334
22 C -0.062 4.062
23 N -0.392 5.392
24 C 0.408 3.592
25 O -0.411 6.411
26 C -0.098 4.098
27 C 0.052 3.948
28 H 0.064 0.936
29 H 0.044 0.956
30 H 0.075 0.925
31 H 0.081 0.919
32 H 0.047 0.953
33 H 0.092 0.908
34 H 0.051 0.949
35 H 0.091 0.909
36 H 0.097 0.903
37 H 0.234 0.766
38 H 0.146 0.854
39 H 0.145 0.855
40 H 0.144 0.856
41 H 0.143 0.857
42 H 0.287 0.713
43 H 0.045 0.955
44 H 0.082 0.918
45 H 0.046 0.954
46 H 0.107 0.893
Dipole moment (debyes) X Y Z Total
from point charges -6.890 -22.588 -16.601 28.867
hybrid contribution 1.223 1.052 -0.928 1.861
sum -5.667 -21.536 -17.529 28.340
Atomic orbital electron populations
1.70027 1.05201 1.25513 1.53966 1.25038 0.95322 0.98387 1.01041
0.86277 0.79061 0.83705 0.77646 1.21508 1.21736 1.20479 1.19198
0.92577 0.84773 1.41668 0.91608 1.44131 1.34143 1.01270 1.52357
1.20971 0.97857 0.86486 0.92524 1.22629 0.89244 0.99528 0.96901
1.61875 1.34696 1.05777 1.23129 1.22195 0.94872 0.97017 0.94313
1.21426 0.98322 0.90791 0.89652 1.45821 1.11247 1.41515 1.38916
1.20657 0.84405 0.83948 0.82682 1.90760 1.29308 1.53749 1.66380
1.21449 0.83119 1.00754 0.97136 1.45800 1.16857 1.38054 1.30105
1.20906 0.84942 0.78868 0.83936 1.90842 1.79617 1.36813 1.26161
1.22452 0.97649 0.94446 0.91627 1.45347 1.15613 1.43041 1.35223
1.15759 0.82592 0.80882 0.79996 1.91041 1.60304 1.33085 1.56673
1.23008 0.98844 0.89196 0.98773 1.20870 0.88994 0.96585 0.88391
0.93577 0.95612 0.92538 0.91943 0.95321 0.90771 0.94881 0.90908
0.90281 0.76560 0.85420 0.85537 0.85595 0.85730 0.71268 0.95544
0.91801 0.95445 0.89290
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 17.
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 -0.90 -26.63 11.15 55.49 0.62 -26.01 16
2 C 0.00 0.02 4.94 -17.43 -0.09 -0.07 16
3 Si 0.90 21.93 29.59 -169.99 -5.03 16.90 16
4 H -0.29 -6.98 7.11 56.52 0.40 -6.57 16
5 H -0.29 -7.14 7.11 56.52 0.40 -6.73 16
6 H -0.28 -6.62 7.11 56.52 0.40 -6.22 16
7 C -0.25 -7.02 9.63 -15.06 -0.15 -7.16 16
8 H 0.07 1.79 7.88 -52.49 -0.41 1.37 16
9 N -0.60 -15.26 3.04 -172.01 -0.52 -15.78 16
10 C 0.15 3.16 6.69 -3.60 -0.02 3.13 16
11 C 0.05 0.81 5.62 -3.70 -0.02 0.79 16
12 N -0.53 -9.23 4.63 -234.32 -1.08 -10.32 16
13 C 0.05 0.59 5.08 -3.82 -0.02 0.57 16
14 C 0.12 1.61 5.61 -4.04 -0.02 1.59 16
15 N -0.72 -7.34 5.56 -60.29 -0.33 -7.67 16
16 C 0.50 5.96 7.90 -10.98 -0.09 5.87 16
17 O -0.53 -8.76 16.43 5.56 0.09 -8.67 16
18 C 0.10 0.81 6.18 -5.19 -0.03 0.78 16
19 N -0.56 -5.17 2.09 -122.01 -0.26 -5.42 16
20 C 0.53 4.38 8.32 -10.55 -0.09 4.30 16
21 O -0.47 -5.17 17.75 5.60 0.10 -5.07 16
22 C 0.07 0.25 7.97 -4.31 -0.03 0.22 16
23 N -0.73 -3.96 6.58 -65.73 -0.43 -4.39 16
24 C 0.71 6.99 8.62 -88.01 -0.76 6.23 16
25 O -0.54 -7.32 17.48 5.33 0.09 -7.22 16
26 C 0.03 0.61 5.46 -3.70 -0.02 0.59 16
27 C 0.18 4.37 5.42 -3.60 -0.02 4.35 16
28 H 0.25 7.24 8.31 -40.82 -0.34 6.91 16
29 H 0.03 0.57 8.14 -51.93 -0.42 0.15 16
30 H 0.06 1.15 7.96 -51.93 -0.41 0.73 16
31 H 0.06 0.92 7.99 -51.93 -0.41 0.50 16
32 H 0.03 0.51 8.14 -51.92 -0.42 0.09 16
33 H 0.07 0.83 7.97 -51.93 -0.41 0.42 16
34 H 0.03 0.42 8.12 -51.93 -0.42 -0.01 16
35 H 0.07 1.12 6.40 -51.93 -0.33 0.79 16
36 H 0.08 1.18 8.14 -51.93 -0.42 0.76 16
37 H 0.40 2.57 8.47 -40.82 -0.35 2.23 16
38 H 0.13 0.79 7.86 -51.93 -0.41 0.38 16
39 H 0.13 0.67 8.00 -51.93 -0.42 0.26 16
40 H 0.13 0.31 8.14 -51.93 -0.42 -0.11 16
41 H 0.13 0.08 8.14 -51.93 -0.42 -0.34 16
42 H 0.44 1.32 8.96 -40.82 -0.37 0.95 16
43 H 0.03 0.54 8.14 -51.93 -0.42 0.11 16
44 H 0.06 1.18 6.16 -51.93 -0.32 0.86 16
45 H 0.03 0.73 8.14 -51.93 -0.42 0.30 16
46 H 0.09 2.42 6.12 -51.93 -0.32 2.11 16
LS Contribution 380.26 15.07 5.73 5.73
Total: -1.00 -38.77 380.26 -9.06 -47.83
By element:
Atomic # 1 Polarization: 5.60 SS G_CDS: -6.68 Total: -1.08 kcal
Atomic # 6 Polarization: 22.54 SS G_CDS: -1.36 Total: 21.18 kcal
Atomic # 7 Polarization: -67.59 SS G_CDS: -2.01 Total: -69.60 kcal
Atomic # 8 Polarization: -21.26 SS G_CDS: 0.28 Total: -20.97 kcal
Atomic # 14 Polarization: 21.93 SS G_CDS: -5.03 Total: 16.90 kcal
Total LS contribution 5.73 Total: 5.73 kcal
Total: -38.77 -9.06 -47.83 kcal
The number of atoms in the molecule is 46
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.
ZINC001265266415.mol2 46
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 18.387 kcal
(2) G-P(sol) polarization free energy of solvation -38.766 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -20.379 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -9.061 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -47.828 kcal
(6) G-S(sol) free energy of system = (1) + (5) -29.440 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.77 seconds