Wall clock time and date at job start Mon Mar 30 2020 04:41:07
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
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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 H 1.09000 * 109.47148 * 2 1
4 4 C 1.53006 * 109.47228 * 240.00367 * 2 1 3
5 5 C 1.50692 * 109.46942 * 174.99973 * 4 2 1
6 6 H 1.08004 * 120.00731 * 359.97438 * 5 4 2
7 7 C 1.37880 * 119.99936 * 179.97438 * 5 4 2
8 8 N 1.31520 * 119.99585 * 359.97438 * 7 5 4
9 9 Si 1.86804 * 120.00441 * 179.97438 * 7 5 4
10 10 H 1.48501 * 109.46703 * 59.99906 * 9 7 5
11 11 H 1.48492 * 109.47406 * 179.97438 * 9 7 5
12 12 H 1.48504 * 109.47025 * 300.00157 * 9 7 5
13 13 N 1.46897 * 109.47571 * 120.00087 * 2 1 3
14 14 C 1.46903 * 111.00031 * 275.00270 * 13 2 1
15 15 C 1.53001 * 109.47457 * 174.60979 * 14 13 2
16 16 S 1.81406 * 112.84987 * 292.62906 * 15 14 13
17 17 C 1.81405 * 102.99512 * 306.90731 * 16 15 14
18 18 O 1.42104 * 109.47047 * 63.29491 * 16 15 14
19 19 C 1.53785 * 113.61338 * 63.81601 * 15 14 13
20 20 C 1.53785 * 87.07643 * 89.11991 * 19 15 14
21 21 C 1.53780 * 87.17265 * 25.39147 * 20 19 15
22 22 H 1.09000 * 109.47148 * 180.02562 * 1 2 3
23 23 H 1.09001 * 109.47586 * 299.99842 * 1 2 3
24 24 H 1.08999 * 109.47622 * 60.00347 * 1 2 3
25 25 H 1.08994 * 109.46675 * 294.99876 * 4 2 1
26 26 H 1.08996 * 109.46819 * 54.99811 * 4 2 1
27 27 H 0.97003 * 119.99401 * 179.97438 * 8 7 5
28 28 H 1.00898 * 111.00677 * 151.04589 * 13 2 1
29 29 H 1.09004 * 109.46862 * 54.60957 * 14 13 2
30 30 H 1.08995 * 109.47399 * 294.61217 * 14 13 2
31 31 H 1.09000 * 109.46852 * 65.77138 * 17 16 15
32 32 H 1.09006 * 109.46811 * 185.76102 * 17 16 15
33 33 H 1.08997 * 109.47507 * 305.76616 * 17 16 15
34 34 H 1.09004 * 113.61400 * 334.57405 * 19 15 14
35 35 H 1.08991 * 113.69063 * 203.67831 * 19 15 14
36 36 H 1.08997 * 113.61455 * 139.98082 * 20 19 15
37 37 H 1.09005 * 113.61141 * 270.80346 * 20 19 15
38 38 H 1.08994 * 113.61582 * 89.15658 * 21 20 19
39 39 H 1.09002 * 113.61170 * 220.06030 * 21 20 19
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 1 1.8933 1.0277 0.0000
4 6 2.0400 -0.7212 -1.2493
5 6 3.5418 -0.6148 -1.3127
6 1 4.0789 -0.0854 -0.5396
7 6 4.2304 -1.1934 -2.3578
8 7 3.5764 -1.8385 -3.2991
9 14 6.0920 -1.0610 -2.4369
10 1 6.6845 -1.6861 -1.2272
11 1 6.5872 -1.7620 -3.6487
12 1 6.4844 0.3700 -2.4973
13 7 2.0197 -0.6925 1.1994
14 6 2.0825 0.2226 2.3469
15 6 2.4663 -0.5610 3.6037
16 16 1.1788 -1.7264 4.1279
17 6 -0.2997 -0.6806 4.2335
18 8 0.9919 -2.7105 3.1199
19 6 3.8707 -1.1841 3.5362
20 6 4.3975 0.1324 4.1315
21 6 2.9998 0.3268 4.7427
22 1 -0.3633 -1.0277 0.0005
23 1 -0.3634 0.5138 0.8900
24 1 -0.3634 0.5138 -0.8900
25 1 1.7516 -1.7714 -1.2057
26 1 1.6053 -0.2616 -2.1370
27 1 4.0609 -2.2452 -4.0345
28 1 2.9173 -1.1205 1.0287
29 1 1.1083 0.6893 2.4930
30 1 2.8296 0.9931 2.1568
31 1 -0.5641 -0.3237 3.2380
32 1 -1.1267 -1.2609 4.6429
33 1 -0.0968 0.1710 4.8828
34 1 4.2162 -1.3728 2.5198
35 1 4.0005 -2.0434 4.1939
36 1 5.1831 -0.0076 4.8740
37 1 4.6533 0.8797 3.3803
38 1 2.8899 -0.1186 5.7314
39 1 2.6434 1.3559 4.6989
RHF calculation, no. of doubly occupied orbitals= 47
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).
S: (AM1): M.J.S. DEWAR, Y.-C. YUAN, INORGANIC CHEM., 29, 589 (1990)
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
ZINC000695810293.mol2 39
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Mon Mar 30 2020 04:41:07
Heat of formation + Delta-G solvation = -25.918931 kcal
Electronic energy + Delta-G solvation = -18484.175028 eV
Core-core repulsion = 15746.870379 eV
Total energy + Delta-G solvation = -2737.304649 eV
No. of doubly occupied orbitals = 47
Molecular weight
(most abundant/longest-lived isotopes) = 259.135 amu
Computer time = 0.32 seconds
Orbital eigenvalues (eV)
-39.10070 -36.12973 -35.12227 -32.68755 -30.59635 -28.82877 -27.36391 -26.31063
-25.50710 -23.43657 -22.47609 -19.38807 -18.86312 -17.09660 -16.34745 -16.18565
-15.31659 -14.89194 -14.52775 -14.30305 -14.06381 -13.63597 -13.38618 -12.79047
-12.64577 -12.40658 -12.27290 -11.94078 -11.77355 -11.64710 -11.44470 -11.20128
-11.08782 -10.96042 -10.70002 -10.53342 -10.32887 -10.21929 -10.16636 -9.35416
-9.20859 -9.04622 -8.36926 -7.95782 -7.51894 -5.99909 -4.03177 1.97078
2.87627 3.31140 3.36102 3.37479 4.04124 4.44300 4.56048 4.61047
4.83155 4.88583 5.21232 5.30646 5.37645 5.39775 5.58571 5.61155
5.70865 5.76661 5.89415 5.97421 5.98896 6.10490 6.19028 6.24356
6.26617 6.35286 6.44487 6.52305 6.96548 6.97760 7.55927 7.66364
7.99635 8.10980 8.32948 8.40176 9.02371 9.60246 11.11154
Molecular weight = 259.13amu
Principal moments of inertia in cm(-1)
A = 0.021742 B = 0.006652 C = 0.005750
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1287.498706 B = 4208.409212 C = 4867.992436
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.135 4.135
2 C 0.090 3.910
3 H 0.026 0.974
4 C 0.021 3.979
5 C -0.523 4.523
6 H 0.049 0.951
7 C 0.061 3.939
8 N -0.890 5.890
9 Si 0.890 3.110
10 H -0.276 1.276
11 H -0.286 1.286
12 H -0.278 1.278
13 N -0.675 5.675
14 C 0.086 3.914
15 C -0.398 4.398
16 S 1.248 4.752
17 C -0.492 4.492
18 O -0.819 6.819
19 C -0.104 4.104
20 C -0.134 4.134
21 C -0.099 4.099
22 H 0.056 0.944
23 H 0.030 0.970
24 H 0.048 0.952
25 H 0.027 0.973
26 H 0.020 0.980
27 H 0.261 0.739
28 H 0.357 0.643
29 H 0.063 0.937
30 H 0.027 0.973
31 H 0.084 0.916
32 H 0.096 0.904
33 H 0.102 0.898
34 H 0.077 0.923
35 H 0.084 0.916
36 H 0.067 0.933
37 H 0.079 0.921
38 H 0.092 0.908
39 H 0.070 0.930
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -2.550 4.277 20.735 21.324
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 -0.193 4.193
2 C -0.019 4.019
3 H 0.044 0.956
4 C -0.016 4.016
5 C -0.562 4.562
6 H 0.068 0.932
7 C -0.141 4.141
8 N -0.529 5.529
9 Si 0.718 3.282
10 H -0.202 1.202
11 H -0.212 1.212
12 H -0.204 1.204
13 N -0.310 5.310
14 C -0.045 4.045
15 C -0.496 4.496
16 S 1.445 4.555
17 C -0.649 4.649
18 O -0.814 6.814
19 C -0.143 4.143
20 C -0.173 4.173
21 C -0.139 4.139
22 H 0.075 0.925
23 H 0.049 0.951
24 H 0.067 0.933
25 H 0.045 0.955
26 H 0.038 0.962
27 H 0.071 0.929
28 H 0.179 0.821
29 H 0.081 0.919
30 H 0.045 0.955
31 H 0.103 0.897
32 H 0.115 0.885
33 H 0.120 0.880
34 H 0.096 0.904
35 H 0.103 0.897
36 H 0.086 0.914
37 H 0.097 0.903
38 H 0.110 0.890
39 H 0.088 0.912
Dipole moment (debyes) X Y Z Total
from point charges -3.097 2.938 20.860 21.292
hybrid contribution 1.239 1.684 -2.433 3.208
sum -1.858 4.622 18.427 19.089
Atomic orbital electron populations
1.21807 0.97002 1.01414 0.99073 1.21568 0.93160 0.95594 0.91609
0.95603 1.19257 0.95375 0.96333 0.90617 1.21102 0.92200 1.34577
1.08302 0.93250 1.24992 0.98224 0.95164 0.95714 1.69960 1.35578
1.35427 1.11935 0.86691 0.85932 0.78066 0.77505 1.20200 1.21199
1.20414 1.60530 1.35162 1.31272 1.04045 1.21608 0.99427 0.93635
0.89800 1.28706 1.09653 1.09467 1.01736 1.70215 0.87556 0.83256
1.14501 1.27661 1.17437 1.12842 1.06942 1.93212 1.82288 1.43545
1.62322 1.22512 0.92329 0.96853 1.02587 1.22790 0.96321 0.98069
1.00084 1.22606 0.96205 0.99072 0.95978 0.92481 0.95056 0.93294
0.95472 0.96153 0.92890 0.82120 0.91909 0.95518 0.89661 0.88474
0.87963 0.90420 0.89720 0.91388 0.90271 0.88965 0.91176
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 14.
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 -0.13 -2.72 9.41 37.15 0.35 -2.37 16
2 C 0.09 2.03 2.59 -67.71 -0.18 1.86 16
3 H 0.03 0.59 7.86 -51.93 -0.41 0.18 16
4 C 0.02 0.59 4.57 -27.88 -0.13 0.46 16
5 C -0.52 -15.06 8.12 -34.44 -0.28 -15.34 16
6 H 0.05 1.37 7.49 -52.48 -0.39 0.98 16
7 C 0.06 1.79 5.46 -17.82 -0.10 1.69 16
8 N -0.89 -27.51 13.29 55.43 0.74 -26.77 16
9 Si 0.89 22.07 29.54 -169.99 -5.02 17.05 16
10 H -0.28 -6.71 7.11 56.52 0.40 -6.31 16
11 H -0.29 -7.04 7.11 56.52 0.40 -6.64 16
12 H -0.28 -6.78 7.11 56.52 0.40 -6.38 16
13 N -0.68 -14.20 5.75 -106.73 -0.61 -14.81 16
14 C 0.09 1.40 4.64 -3.82 -0.02 1.39 16
15 C -0.40 -5.00 0.97 -89.72 -0.09 -5.08 16
16 S 1.25 14.88 13.20 -107.50 -1.42 13.46 16
17 C -0.49 -5.25 10.01 101.05 1.01 -4.24 16
18 O -0.82 -16.12 17.69 -35.23 -0.62 -16.75 16
19 C -0.10 -1.34 7.13 -25.91 -0.18 -1.52 16
20 C -0.13 -1.41 7.72 -25.92 -0.20 -1.61 16
21 C -0.10 -0.86 7.27 -25.83 -0.19 -1.05 16
22 H 0.06 1.22 8.14 -51.93 -0.42 0.80 16
23 H 0.03 0.55 7.38 -51.93 -0.38 0.17 16
24 H 0.05 0.93 8.14 -51.93 -0.42 0.51 16
25 H 0.03 0.81 8.14 -51.93 -0.42 0.39 16
26 H 0.02 0.58 8.14 -51.93 -0.42 0.16 16
27 H 0.26 7.63 8.31 -40.82 -0.34 7.29 16
28 H 0.36 8.23 5.80 -39.29 -0.23 8.00 16
29 H 0.06 0.98 5.83 -51.93 -0.30 0.68 16
30 H 0.03 0.45 7.32 -51.93 -0.38 0.07 16
31 H 0.08 1.17 7.30 -51.92 -0.38 0.79 16
32 H 0.10 0.92 8.14 -51.92 -0.42 0.50 16
33 H 0.10 0.78 8.14 -51.93 -0.42 0.36 16
34 H 0.08 1.26 6.79 -51.93 -0.35 0.91 16
35 H 0.08 0.89 8.10 -51.93 -0.42 0.47 16
36 H 0.07 0.58 8.14 -51.93 -0.42 0.16 16
37 H 0.08 0.95 7.62 -51.93 -0.40 0.55 16
38 H 0.09 0.48 8.10 -51.93 -0.42 0.06 16
39 H 0.07 0.58 8.10 -51.93 -0.42 0.16 16
LS Contribution 321.67 15.07 4.85 4.85
Total: -1.00 -36.26 321.67 -8.67 -44.93
By element:
Atomic # 1 Polarization: 10.44 SS G_CDS: -6.58 Total: 3.86 kcal
Atomic # 6 Polarization: -25.82 SS G_CDS: 0.00 Total: -25.81 kcal
Atomic # 7 Polarization: -41.71 SS G_CDS: 0.12 Total: -41.59 kcal
Atomic # 8 Polarization: -16.12 SS G_CDS: -0.62 Total: -16.75 kcal
Atomic # 14 Polarization: 22.07 SS G_CDS: -5.02 Total: 17.05 kcal
Atomic # 16 Polarization: 14.88 SS G_CDS: -1.42 Total: 13.46 kcal
Total LS contribution 4.85 Total: 4.85 kcal
Total: -36.26 -8.67 -44.93 kcal
The number of atoms in the molecule is 39
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.
ZINC000695810293.mol2 39
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 19.010 kcal
(2) G-P(sol) polarization free energy of solvation -36.263 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -17.252 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -8.667 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -44.929 kcal
(6) G-S(sol) free energy of system = (1) + (5) -25.919 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.32 seconds