Wall clock time and date at job start Tue Mar 31 2020 14:21:48
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.
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* 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 1.53002 * 1
3 3 C 1.53003 * 109.47144 * 2 1
4 4 H 1.09000 * 109.46992 * 185.65876 * 3 2 1
5 5 C 1.50696 * 109.46934 * 305.66121 * 3 2 1
6 6 H 1.08000 * 119.99830 * 120.00021 * 5 3 2
7 7 C 1.37872 * 120.00296 * 299.99877 * 5 3 2
8 8 N 1.31518 * 120.00259 * 180.02562 * 7 5 3
9 9 Si 1.86800 * 119.99897 * 0.02562 * 7 5 3
10 10 H 1.48505 * 109.47137 * 89.99752 * 9 7 5
11 11 H 1.48497 * 109.47345 * 209.99844 * 9 7 5
12 12 H 1.48507 * 109.46987 * 330.00068 * 9 7 5
13 13 N 1.46904 * 109.47007 * 65.66341 * 3 2 1
14 14 C 1.46905 * 110.99850 * 197.89807 * 13 3 2
15 15 C 1.46900 * 111.00355 * 73.94208 * 13 3 2
16 16 H 1.09002 * 109.46786 * 43.72612 * 15 13 3
17 17 C 1.52992 * 109.47262 * 163.72854 * 15 13 3
18 18 C 1.50700 * 109.47150 * 283.73157 * 15 13 3
19 19 C 1.38258 * 119.99889 * 131.54406 * 18 15 13
20 20 C 1.38214 * 120.02172 * 179.97438 * 19 18 15
21 21 C 1.38234 * 120.01117 * 359.97438 * 20 19 18
22 22 C 1.38300 * 119.99370 * 359.97438 * 21 20 19
23 23 Br 1.89092 * 120.01502 * 179.97438 * 22 21 20
24 24 C 1.38195 * 119.99134 * 311.26868 * 18 15 13
25 25 H 1.09005 * 109.46522 * 58.83075 * 1 2 3
26 26 H 1.08995 * 109.47086 * 298.83232 * 1 2 3
27 27 H 1.08996 * 109.47094 * 178.82743 * 1 2 3
28 28 H 1.09004 * 109.46809 * 119.99344 * 2 1 3
29 29 H 1.08994 * 109.47564 * 239.99929 * 2 1 3
30 30 H 0.96995 * 119.99851 * 179.97438 * 8 7 5
31 31 H 1.08999 * 109.46941 * 61.84752 * 14 13 3
32 32 H 1.08999 * 109.46749 * 181.84844 * 14 13 3
33 33 H 1.09004 * 109.46591 * 301.85196 * 14 13 3
34 34 H 1.09002 * 109.47417 * 60.00145 * 17 15 13
35 35 H 1.09000 * 109.47022 * 180.02562 * 17 15 13
36 36 H 1.09006 * 109.47098 * 300.00126 * 17 15 13
37 37 H 1.08006 * 119.98732 * 359.97438 * 19 18 15
38 38 H 1.08004 * 119.99318 * 180.02562 * 20 19 18
39 39 H 1.08005 * 120.00413 * 180.02562 * 21 20 19
40 40 H 1.08001 * 120.01014 * 0.02562 * 24 18 15
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 1.5300 0.0000 0.0000
3 6 2.0400 1.4425 0.0000
4 1 3.1253 1.4442 -0.1013
5 6 1.4265 2.1922 -1.1544
6 1 0.8189 3.0656 -0.9691
7 6 1.6409 1.7631 -2.4470
8 7 1.1059 2.4177 -3.4544
9 14 2.6914 0.2521 -2.7673
10 1 1.8300 -0.9576 -2.7726
11 1 3.3637 0.3867 -4.0845
12 1 3.7156 0.1257 -1.6994
13 7 1.6651 2.0944 1.2620
14 6 1.7479 3.5564 1.1441
15 6 2.4945 1.6080 2.3726
16 1 3.5354 1.5561 2.0531
17 6 2.3722 2.5668 3.5585
18 6 2.0269 0.2362 2.7854
19 6 2.9430 -0.7864 2.9484
20 6 2.5147 -2.0447 3.3275
21 6 1.1701 -2.2811 3.5444
22 6 0.2533 -1.2583 3.3825
23 35 -1.5862 -1.5813 3.6783
24 6 0.6830 0.0019 3.0065
25 1 -0.3632 0.5319 -0.8794
26 1 -0.3633 0.4956 0.9002
27 1 -0.3633 -1.0274 -0.0210
28 1 1.8933 -0.5138 0.8901
29 1 1.8934 -0.5138 -0.8899
30 1 1.2571 2.1160 -4.3638
31 1 1.0471 3.8998 0.3831
32 1 1.4970 4.0128 2.1016
33 1 2.7610 3.8412 0.8601
34 1 1.3313 2.6187 3.8780
35 1 2.9880 2.2061 4.3824
36 1 2.7105 3.5591 3.2598
37 1 3.9937 -0.6020 2.7794
38 1 3.2308 -2.8431 3.4552
39 1 0.8355 -3.2643 3.8411
40 1 -0.0322 0.8018 2.8831
RHF calculation, no. of doubly occupied orbitals= 50
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)
Si: (AM1): M.J.S.DEWAR, C. JIE, ORGANOMETALLICS, 6, 1486-1490 (1987).
Br: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988).
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
ZINC001255177113.mol2 40
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 14:21:48
Heat of formation + Delta-G solvation = 32.888869 kcal
Electronic energy + Delta-G solvation = -21128.730662 eV
Core-core repulsion = 18182.773391 eV
Total energy + Delta-G solvation = -2945.957271 eV
No. of doubly occupied orbitals = 50
Molecular weight
(most abundant/longest-lived isotopes) = 325.074 amu
Computer time = 0.40 seconds
Orbital eigenvalues (eV)
-41.05058 -38.74641 -35.66223 -33.66039 -33.35379 -32.64526 -30.25132 -29.78335
-28.26821 -27.46966 -24.58163 -23.96726 -23.00723 -21.86376 -20.49552 -18.49702
-17.75141 -17.19496 -16.66888 -16.39771 -15.62379 -15.47073 -15.42880 -14.82193
-14.69495 -14.32311 -14.19573 -13.87431 -13.51296 -13.37725 -13.24381 -12.79904
-12.70264 -12.46945 -12.41978 -12.15850 -12.00957 -11.94377 -11.67370 -11.62705
-11.50900 -11.16358 -11.14074 -10.79621 -10.65762 -9.63156 -9.41698 -8.97800
-8.24993 -6.24725 0.22821 0.45563 0.75245 1.28332 1.30649 1.39267
2.31690 2.71878 3.09357 3.25834 3.75551 4.00742 4.19629 4.28141
4.34796 4.37635 4.41098 4.44616 4.59438 4.61485 4.72346 4.77491
4.83011 4.94659 4.99015 5.04277 5.11879 5.17771 5.24777 5.33870
5.35625 5.38944 5.43875 5.47020 5.64648 5.65420 5.78590 5.94475
6.09700 6.39696 6.74892 6.82541 7.38913 8.89982
Molecular weight = 325.07amu
Principal moments of inertia in cm(-1)
A = 0.015090 B = 0.005384 C = 0.004967
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1855.141121 B = 5199.776564 C = 5635.985079
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.112 4.112
2 C -0.121 4.121
3 C 0.193 3.807
4 H -0.017 1.017
5 C -0.495 4.495
6 H 0.058 0.942
7 C 0.022 3.978
8 N -0.945 5.945
9 Si 0.930 3.070
10 H -0.273 1.273
11 H -0.301 1.301
12 H -0.255 1.255
13 N -0.523 5.523
14 C 0.037 3.963
15 C 0.109 3.891
16 H 0.042 0.958
17 C -0.139 4.139
18 C -0.061 4.061
19 C -0.116 4.116
20 C -0.112 4.112
21 C -0.102 4.102
22 C -0.100 4.100
23 Br -0.060 7.060
24 C -0.064 4.064
25 H 0.031 0.969
26 H 0.065 0.935
27 H 0.032 0.968
28 H 0.074 0.926
29 H 0.022 0.978
30 H 0.262 0.738
31 H 0.053 0.947
32 H 0.086 0.914
33 H 0.010 0.990
34 H 0.063 0.937
35 H 0.074 0.926
36 H 0.069 0.931
37 H 0.137 0.863
38 H 0.157 0.843
39 H 0.146 0.854
40 H 0.125 0.875
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 1.195 -9.295 19.324 21.477
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 -0.169 4.169
2 C -0.159 4.159
3 C 0.085 3.915
4 H 0.001 0.999
5 C -0.533 4.533
6 H 0.076 0.924
7 C -0.175 4.175
8 N -0.586 5.586
9 Si 0.759 3.241
10 H -0.199 1.199
11 H -0.230 1.230
12 H -0.180 1.180
13 N -0.248 5.248
14 C -0.110 4.110
15 C 0.001 3.999
16 H 0.059 0.941
17 C -0.196 4.196
18 C -0.062 4.062
19 C -0.135 4.135
20 C -0.131 4.131
21 C -0.122 4.122
22 C -0.180 4.180
23 Br 0.026 6.974
24 C -0.084 4.084
25 H 0.050 0.950
26 H 0.084 0.916
27 H 0.051 0.949
28 H 0.092 0.908
29 H 0.040 0.960
30 H 0.072 0.928
31 H 0.072 0.928
32 H 0.104 0.896
33 H 0.028 0.972
34 H 0.083 0.917
35 H 0.093 0.907
36 H 0.088 0.912
37 H 0.155 0.845
38 H 0.175 0.825
39 H 0.164 0.836
40 H 0.143 0.857
Dipole moment (debyes) X Y Z Total
from point charges -0.007 -9.512 19.361 21.572
hybrid contribution 1.441 -0.133 -1.398 2.012
sum 1.434 -9.645 17.963 20.439
Atomic orbital electron populations
1.21385 0.95296 0.98507 1.01760 1.21962 0.97630 0.97182 0.99110
1.19543 0.92139 0.92055 0.87760 0.99921 1.21342 1.30006 1.12136
0.89841 0.92414 1.25538 0.96697 0.99040 0.96220 1.70005 1.47007
1.42218 0.99389 0.86131 0.80125 0.81233 0.76582 1.19941 1.22953
1.17972 1.61903 1.53384 1.05716 1.03748 1.22342 0.99154 0.87889
1.01644 1.20711 0.94363 0.92271 0.92588 0.94057 1.21964 1.02946
0.98566 0.96145 1.19775 0.93254 0.95463 0.97740 1.21413 1.00244
0.92955 0.98880 1.21355 0.95476 0.97245 0.99001 1.21296 0.92883
0.98529 0.99518 1.21868 0.90695 0.97136 1.08263 1.96662 1.09110
1.96248 1.95405 1.20841 0.95969 0.95370 0.96269 0.94974 0.91589
0.94882 0.90763 0.95974 0.92845 0.92847 0.89565 0.97153 0.91746
0.90703 0.91248 0.84513 0.82528 0.83645 0.85737
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 -0.11 -4.77 8.89 71.98 0.64 -4.13 16
2 C -0.12 -5.18 4.63 30.60 0.14 -5.04 16
3 C 0.19 8.75 1.45 44.17 0.06 8.82 16
4 H -0.02 -0.79 6.83 -2.39 -0.02 -0.81 16
5 C -0.50 -27.02 6.99 25.60 0.18 -26.84 16
6 H 0.06 3.46 5.75 -2.91 -0.02 3.44 16
7 C 0.02 1.28 5.39 84.65 0.46 1.74 16
8 N -0.94 -58.42 13.96 21.45 0.30 -58.13 16
9 Si 0.93 45.65 24.31 68.60 1.67 47.32 16
10 H -0.27 -13.10 6.92 99.48 0.69 -12.41 16
11 H -0.30 -14.80 7.11 99.48 0.71 -14.10 16
12 H -0.26 -11.76 6.53 99.48 0.65 -11.11 16
13 N -0.52 -19.70 3.66 -880.58 -3.22 -22.92 16
14 C 0.04 1.37 8.12 127.69 1.04 2.40 16
15 C 0.11 3.27 2.39 44.17 0.11 3.37 16
16 H 0.04 1.28 7.53 -2.39 -0.02 1.26 16
17 C -0.14 -3.25 8.07 71.98 0.58 -2.67 16
18 C -0.06 -1.70 2.47 -19.87 -0.05 -1.75 16
19 C -0.12 -2.78 8.67 22.27 0.19 -2.58 16
20 C -0.11 -2.29 10.05 22.26 0.22 -2.07 16
21 C -0.10 -2.26 9.79 22.28 0.22 -2.04 16
22 C -0.10 -2.61 6.22 22.31 0.14 -2.47 16
23 Br -0.06 -1.46 33.70 -20.37 -0.69 -2.15 16
24 C -0.06 -1.85 6.16 22.29 0.14 -1.71 16
25 H 0.03 1.56 6.96 -2.38 -0.02 1.55 16
26 H 0.07 2.65 5.55 -2.39 -0.01 2.63 16
27 H 0.03 1.27 8.14 -2.39 -0.02 1.25 16
28 H 0.07 2.80 3.93 -2.39 -0.01 2.79 16
29 H 0.02 1.01 3.44 -2.39 -0.01 1.00 16
30 H 0.26 15.42 8.31 -92.71 -0.77 14.65 16
31 H 0.05 2.29 5.74 -2.39 -0.01 2.28 16
32 H 0.09 2.51 5.87 -2.39 -0.01 2.50 16
33 H 0.01 0.37 8.14 -2.39 -0.02 0.35 16
34 H 0.06 1.51 8.01 -2.39 -0.02 1.50 16
35 H 0.07 1.45 8.14 -2.39 -0.02 1.43 16
36 H 0.07 1.55 6.29 -2.38 -0.01 1.53 16
37 H 0.14 2.83 7.98 -2.91 -0.02 2.80 16
38 H 0.16 2.20 8.06 -2.91 -0.02 2.18 16
39 H 0.15 2.57 8.06 -2.91 -0.02 2.55 16
40 H 0.12 3.90 7.30 -2.91 -0.02 3.88 16
Total: -1.00 -62.79 315.52 3.09 -59.70
By element:
Atomic # 1 Polarization: 10.17 SS G_CDS: 0.96 Total: 11.14 kcal
Atomic # 6 Polarization: -39.03 SS G_CDS: 4.07 Total: -34.96 kcal
Atomic # 7 Polarization: -78.12 SS G_CDS: -2.92 Total: -81.04 kcal
Atomic # 14 Polarization: 45.65 SS G_CDS: 1.67 Total: 47.32 kcal
Atomic # 35 Polarization: -1.46 SS G_CDS: -0.69 Total: -2.15 kcal
Total: -62.79 3.09 -59.70 kcal
The number of atoms in the molecule is 40
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.
ZINC001255177113.mol2 40
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 92.585 kcal
(2) G-P(sol) polarization free energy of solvation -62.789 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 29.796 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.092 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -59.696 kcal
(6) G-S(sol) free energy of system = (1) + (5) 32.889 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.40 seconds