Wall clock time and date at job start Tue Mar 31 2020 22:42:50
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 1.31519 * 1
3 3 Si 1.86797 * 119.99856 * 2 1
4 4 H 1.48501 * 109.47159 * 269.99717 * 3 2 1
5 5 H 1.48506 * 109.47496 * 29.99525 * 3 2 1
6 6 H 1.48498 * 109.47391 * 149.99937 * 3 2 1
7 7 C 1.37872 * 120.00156 * 179.97438 * 2 1 3
8 8 H 1.08000 * 120.00230 * 175.28527 * 7 2 1
9 9 C 1.50700 * 119.99989 * 355.56043 * 7 2 1
10 10 C 1.53004 * 115.55097 * 274.99073 * 9 7 2
11 11 N 1.46495 * 109.47052 * 294.33149 * 10 9 7
12 12 S 1.65609 * 120.00046 * 159.13246 * 11 10 9
13 13 O 1.42102 * 104.27418 * 181.07330 * 12 11 10
14 14 O 1.42097 * 104.27570 * 308.93027 * 12 11 10
15 15 C 1.81396 * 104.44756 * 65.00065 * 12 11 10
16 16 C 1.53001 * 109.47301 * 180.02562 * 15 12 11
17 17 O 1.42895 * 109.47743 * 179.97438 * 16 15 12
18 18 C 1.42894 * 114.00478 * 179.97438 * 17 16 15
19 19 C 1.50698 * 109.47462 * 179.97438 * 18 17 16
20 20 C 1.38230 * 120.00010 * 269.72960 * 19 18 17
21 21 C 1.38236 * 119.99560 * 179.76360 * 20 19 18
22 22 C 1.38238 * 120.00301 * 0.50589 * 21 20 19
23 23 C 1.38234 * 119.99891 * 359.74779 * 22 21 20
24 24 C 1.38238 * 119.99921 * 359.97438 * 23 22 21
25 25 C 1.53001 * 117.50004 * 129.31969 * 9 7 2
26 26 C 1.53005 * 117.50245 * 60.65787 * 9 7 2
27 27 H 0.96996 * 120.00045 * 5.00631 * 1 2 3
28 28 H 1.09003 * 109.47066 * 54.32894 * 10 9 7
29 29 H 1.09002 * 109.47448 * 174.32687 * 10 9 7
30 30 H 0.97000 * 120.00213 * 339.13692 * 11 10 9
31 31 H 1.09007 * 109.46979 * 299.99967 * 15 12 11
32 32 H 1.08998 * 109.47672 * 59.99974 * 15 12 11
33 33 H 1.09003 * 109.46937 * 300.00584 * 16 15 12
34 34 H 1.09007 * 109.47023 * 59.99319 * 16 15 12
35 35 H 1.09000 * 109.47249 * 300.00307 * 18 17 16
36 36 H 1.09003 * 109.47147 * 59.99985 * 18 17 16
37 37 H 1.07995 * 120.00511 * 359.97438 * 20 19 18
38 38 H 1.08011 * 119.99943 * 180.22932 * 21 20 19
39 39 H 1.08002 * 119.99890 * 179.72049 * 22 21 20
40 40 H 1.07993 * 120.00358 * 179.97438 * 23 22 21
41 41 H 1.07999 * 119.99872 * 179.97438 * 24 23 22
42 42 H 1.08991 * 117.49791 * 359.97438 * 25 9 7
43 43 H 1.09007 * 117.49553 * 145.02396 * 25 9 7
44 44 H 1.08993 * 117.50038 * 214.98204 * 26 9 7
45 45 H 1.08998 * 117.48996 * 359.97438 * 26 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 1.3152 0.0000 0.0000
3 14 2.2491 1.6177 0.0000
4 1 2.4967 2.0464 -1.4001
5 1 1.4465 2.6528 0.6999
6 1 3.5467 1.4403 0.7000
7 6 2.0046 -1.1940 0.0005
8 1 3.0818 -1.1956 -0.0763
9 6 1.2545 -2.4971 0.1021
10 6 0.9144 -2.9538 1.5223
11 7 2.1508 -3.2588 2.2464
12 16 2.1586 -3.2728 3.9024
13 8 3.5044 -3.5750 4.2439
14 8 1.5717 -2.0309 4.2661
15 6 1.0642 -4.6489 4.3485
16 6 0.9872 -4.7661 5.8721
17 8 0.1246 -5.8498 6.2236
18 6 -0.0168 -6.0469 7.6318
19 6 -0.9432 -7.2080 7.8860
20 6 -2.3020 -6.9918 8.0191
21 6 -3.1523 -8.0575 8.2474
22 6 -2.6426 -9.3381 8.3531
23 6 -1.2832 -9.5537 8.2253
24 6 -0.4335 -8.4887 7.9912
25 6 1.5761 -3.5797 -0.9301
26 6 0.2485 -2.8214 -1.0041
27 1 -0.4850 0.8368 -0.0733
28 1 0.3765 -2.1597 2.0402
29 1 0.2900 -3.8461 1.4773
30 1 2.9649 -3.4525 1.7559
31 1 0.0673 -4.4650 3.9478
32 1 1.4578 -5.5761 3.9319
33 1 1.9840 -4.9497 6.2732
34 1 0.5933 -3.8388 6.2884
35 1 0.9592 -6.2578 8.0690
36 1 -0.4309 -5.1462 8.0850
37 1 -2.6997 -5.9907 7.9412
38 1 -4.2145 -7.8890 8.3476
39 1 -3.3065 -10.1701 8.5360
40 1 -0.8849 -10.5540 8.3083
41 1 0.6286 -8.6570 7.8918
42 1 2.3299 -3.3493 -1.6828
43 1 1.5450 -4.6173 -0.5974
44 1 -0.6554 -3.3603 -0.7202
45 1 0.1289 -2.0919 -1.8051
RHF calculation, no. of doubly occupied orbitals= 61
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
ZINC000451490935.mol2 45
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 22:42:50
Heat of formation + Delta-G solvation = -69.324063 kcal
Electronic energy + Delta-G solvation = -26385.229606 eV
Core-core repulsion = 22495.773824 eV
Total energy + Delta-G solvation = -3889.455783 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 339.134 amu
Computer time = 0.60 seconds
Orbital eigenvalues (eV)
-39.69604 -38.01014 -37.11120 -36.69543 -35.60329 -33.33324 -32.95083 -31.88934
-31.21941 -31.11025 -26.30594 -25.98854 -24.86264 -23.54277 -22.90428 -21.65154
-21.14416 -19.37852 -18.86674 -17.66374 -17.25542 -16.86171 -16.60022 -16.20572
-15.90467 -15.53757 -15.47656 -15.06762 -14.60757 -14.40892 -14.21173 -13.76299
-13.53424 -13.48536 -13.14119 -13.08981 -12.87533 -12.25297 -12.07106 -11.89829
-11.81249 -11.76161 -11.62094 -11.35311 -11.33466 -11.25862 -10.93496 -10.89174
-10.69296 -10.48257 -10.22128 -9.95472 -9.53295 -9.23351 -9.19146 -9.14382
-8.63186 -8.42877 -8.15298 -6.02428 -4.09658 0.48656 0.94677 1.08945
3.04635 3.28357 3.32138 3.40453 3.44395 3.73564 4.13113 4.38178
4.42224 4.43641 4.48436 4.64647 4.70713 4.80960 4.81901 4.93600
4.97139 5.04222 5.20841 5.25642 5.28077 5.32137 5.41423 5.62306
5.63950 5.71810 5.85687 6.11902 6.18342 6.20621 6.23442 6.26818
6.33541 6.47982 6.65440 6.69530 6.82129 7.00057 7.08315 7.38454
7.56226 7.67267 7.88675 8.39224 8.90703 9.56980 11.05284
Molecular weight = 339.13amu
Principal moments of inertia in cm(-1)
A = 0.017793 B = 0.002255 C = 0.002188
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1573.275579 B =12414.253650 C =12792.536927
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.878 5.878
2 C 0.072 3.928
3 Si 0.889 3.111
4 H -0.282 1.282
5 H -0.285 1.285
6 H -0.272 1.272
7 C -0.493 4.493
8 H 0.060 0.940
9 C 0.034 3.966
10 C 0.154 3.846
11 N -1.092 6.092
12 S 2.617 3.383
13 O -0.968 6.968
14 O -0.945 6.945
15 C -0.643 4.643
16 C 0.077 3.923
17 O -0.371 6.371
18 C 0.096 3.904
19 C -0.090 4.090
20 C -0.098 4.098
21 C -0.124 4.124
22 C -0.115 4.115
23 C -0.124 4.124
24 C -0.099 4.099
25 C -0.212 4.212
26 C -0.145 4.145
27 H 0.261 0.739
28 H 0.083 0.917
29 H 0.034 0.966
30 H 0.417 0.583
31 H 0.140 0.860
32 H 0.138 0.862
33 H 0.064 0.936
34 H 0.066 0.934
35 H 0.062 0.938
36 H 0.062 0.938
37 H 0.125 0.875
38 H 0.124 0.876
39 H 0.122 0.878
40 H 0.123 0.877
41 H 0.124 0.876
42 H 0.078 0.922
43 H 0.065 0.935
44 H 0.063 0.937
45 H 0.086 0.914
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -3.724 -16.788 15.650 23.251
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 -0.515 5.515
2 C -0.132 4.132
3 Si 0.717 3.283
4 H -0.208 1.208
5 H -0.211 1.211
6 H -0.197 1.197
7 C -0.530 4.530
8 H 0.078 0.922
9 C 0.032 3.968
10 C 0.028 3.972
11 N -0.853 5.853
12 S 2.705 3.295
13 O -0.958 6.958
14 O -0.935 6.935
15 C -0.769 4.769
16 C -0.001 4.001
17 O -0.291 6.291
18 C 0.020 3.980
19 C -0.090 4.090
20 C -0.116 4.116
21 C -0.142 4.142
22 C -0.133 4.133
23 C -0.142 4.142
24 C -0.117 4.117
25 C -0.249 4.249
26 C -0.183 4.183
27 H 0.071 0.929
28 H 0.101 0.899
29 H 0.052 0.948
30 H 0.252 0.748
31 H 0.158 0.842
32 H 0.156 0.844
33 H 0.083 0.917
34 H 0.084 0.916
35 H 0.080 0.920
36 H 0.081 0.919
37 H 0.143 0.857
38 H 0.142 0.858
39 H 0.140 0.860
40 H 0.141 0.859
41 H 0.142 0.858
42 H 0.096 0.904
43 H 0.083 0.917
44 H 0.081 0.919
45 H 0.105 0.895
Dipole moment (debyes) X Y Z Total
from point charges -3.703 -16.154 16.271 23.225
hybrid contribution 0.270 0.354 -0.397 0.597
sum -3.432 -15.800 15.874 22.659
Atomic orbital electron populations
1.69964 1.05829 1.26856 1.48812 1.24962 0.94873 0.98987 0.94330
0.86634 0.80198 0.83575 0.77907 1.20804 1.21069 1.19686 1.20341
0.92709 0.88482 1.51487 0.92183 1.18930 0.99040 0.93420 0.85431
1.21031 0.82989 0.97408 0.95723 1.55115 1.19815 1.86433 1.23918
1.04754 0.74712 0.75938 0.74075 1.93566 1.32802 1.86198 1.83225
1.93632 1.79691 1.37545 1.82594 1.30971 1.19638 1.22952 1.03323
1.22030 0.94887 0.91198 0.92027 1.88025 1.67501 1.51443 1.22107
1.21396 0.97929 0.95959 0.82740 1.19602 0.94081 0.94199 1.01159
1.21122 0.92662 0.99515 0.98300 1.21177 0.99854 0.92773 1.00356
1.21220 0.95486 0.97105 0.99531 1.21160 0.93689 0.98935 1.00461
1.21099 1.00112 0.91975 0.98502 1.23031 1.00687 0.95528 1.05669
1.22501 0.90698 1.01397 1.03741 0.92933 0.89858 0.94803 0.74789
0.84210 0.84405 0.91744 0.91556 0.92017 0.91935 0.85742 0.85811
0.85990 0.85871 0.85845 0.90355 0.91656 0.91860 0.89499
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 N -0.88 -24.42 12.66 55.43 0.70 -23.72 16
2 C 0.07 1.96 5.43 -17.82 -0.10 1.86 16
3 Si 0.89 21.42 29.54 -169.99 -5.02 16.40 16
4 H -0.28 -6.65 7.11 56.52 0.40 -6.25 16
5 H -0.29 -6.89 7.11 56.52 0.40 -6.49 16
6 H -0.27 -6.56 7.11 56.52 0.40 -6.16 16
7 C -0.49 -12.97 8.75 -34.44 -0.30 -13.27 16
8 H 0.06 1.58 7.82 -52.49 -0.41 1.17 16
9 C 0.03 0.78 1.49 -155.66 -0.23 0.55 16
10 C 0.15 3.12 6.00 -4.04 -0.02 3.10 16
11 N -1.09 -19.35 5.77 -10.61 -0.06 -19.42 16
12 S 2.62 42.43 5.46 -107.50 -0.59 41.84 16
13 O -0.97 -17.33 18.08 -57.54 -1.04 -18.37 16
14 O -0.94 -19.12 17.43 -57.54 -1.00 -20.12 16
15 C -0.64 -7.96 6.44 37.16 0.24 -7.73 16
16 C 0.08 0.90 5.95 37.16 0.22 1.12 16
17 O -0.37 -4.57 10.33 -35.23 -0.36 -4.93 16
18 C 0.10 0.93 6.06 36.00 0.22 1.15 16
19 C -0.09 -0.89 5.51 -104.63 -0.58 -1.47 16
20 C -0.10 -0.90 9.70 -39.58 -0.38 -1.29 16
21 C -0.12 -1.01 10.05 -39.58 -0.40 -1.41 16
22 C -0.12 -0.89 10.05 -39.58 -0.40 -1.28 16
23 C -0.12 -0.99 10.05 -39.58 -0.40 -1.39 16
24 C -0.10 -0.89 9.70 -39.58 -0.38 -1.27 16
25 C -0.21 -4.25 9.96 -26.69 -0.27 -4.52 16
26 C -0.14 -3.19 9.15 -26.69 -0.24 -3.44 16
27 H 0.26 6.99 8.32 -40.82 -0.34 6.65 16
28 H 0.08 1.90 7.60 -51.93 -0.39 1.50 16
29 H 0.03 0.58 8.09 -51.93 -0.42 0.16 16
30 H 0.42 7.06 8.66 -34.48 -0.30 6.76 16
31 H 0.14 1.67 8.14 -51.92 -0.42 1.24 16
32 H 0.14 1.48 8.14 -51.93 -0.42 1.06 16
33 H 0.06 0.65 8.14 -51.93 -0.42 0.23 16
34 H 0.07 0.71 8.14 -51.92 -0.42 0.29 16
35 H 0.06 0.49 8.09 -51.93 -0.42 0.07 16
36 H 0.06 0.52 8.08 -51.93 -0.42 0.10 16
37 H 0.12 1.00 8.06 -52.49 -0.42 0.58 16
38 H 0.12 0.76 8.06 -52.48 -0.42 0.33 16
39 H 0.12 0.66 8.06 -52.49 -0.42 0.24 16
40 H 0.12 0.71 8.06 -52.49 -0.42 0.29 16
41 H 0.12 0.93 8.06 -52.49 -0.42 0.51 16
42 H 0.08 1.58 8.14 -51.93 -0.42 1.16 16
43 H 0.06 1.15 8.14 -51.93 -0.42 0.73 16
44 H 0.06 1.29 8.14 -51.93 -0.42 0.86 16
45 H 0.09 2.09 8.14 -51.93 -0.42 1.67 16
LS Contribution 396.93 15.07 5.98 5.98
Total: -1.00 -33.51 396.93 -11.41 -44.92
By element:
Atomic # 1 Polarization: 13.70 SS G_CDS: -6.99 Total: 6.71 kcal
Atomic # 6 Polarization: -26.26 SS G_CDS: -3.02 Total: -29.29 kcal
Atomic # 7 Polarization: -43.77 SS G_CDS: 0.64 Total: -43.13 kcal
Atomic # 8 Polarization: -41.02 SS G_CDS: -2.41 Total: -43.43 kcal
Atomic # 14 Polarization: 21.42 SS G_CDS: -5.02 Total: 16.40 kcal
Atomic # 16 Polarization: 42.43 SS G_CDS: -0.59 Total: 41.84 kcal
Total LS contribution 5.98 Total: 5.98 kcal
Total: -33.51 -11.41 -44.92 kcal
The number of atoms in the molecule is 45
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.
ZINC000451490935.mol2 45
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 -24.405 kcal
(2) G-P(sol) polarization free energy of solvation -33.508 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -57.913 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -11.411 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -44.919 kcal
(6) G-S(sol) free energy of system = (1) + (5) -69.324 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.60 seconds