Wall clock time and date at job start Tue Mar 31 2020 11:59:59
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 1.31519 * 1
3 3 Si 1.86800 * 120.00005 * 2 1
4 4 H 1.48505 * 109.46678 * 180.02562 * 3 2 1
5 5 H 1.48495 * 109.47258 * 299.99866 * 3 2 1
6 6 H 1.48493 * 109.47346 * 60.00472 * 3 2 1
7 7 C 1.37876 * 119.99563 * 180.02562 * 2 1 3
8 8 H 1.08006 * 119.99652 * 179.97438 * 7 2 1
9 9 C 1.50697 * 120.00428 * 359.97438 * 7 2 1
10 10 C 1.53001 * 109.47291 * 179.97438 * 9 7 2
11 11 C 1.53000 * 109.46886 * 179.97438 * 10 9 7
12 12 S 1.81404 * 109.46946 * 180.02562 * 11 10 9
13 13 O 1.42107 * 110.54111 * 291.62603 * 12 11 10
14 14 O 1.42102 * 110.54223 * 68.37613 * 12 11 10
15 15 N 1.65600 * 104.45074 * 180.02562 * 12 11 10
16 16 C 1.46923 * 120.65909 * 269.72562 * 15 12 11
17 17 C 1.52720 * 109.10467 * 233.87992 * 16 15 12
18 18 C 1.53098 * 109.36983 * 305.25225 * 17 16 15
19 19 C 1.52685 * 109.58740 * 60.62153 * 18 17 16
20 20 C 1.53971 * 109.81854 * 60.69154 * 19 18 17
21 21 C 1.54959 * 104.11730 * 95.92241 * 20 19 18
22 22 C 1.54909 * 102.78466 * 37.69585 * 21 20 19
23 23 C 1.53564 * 110.04787 * 178.12137 * 19 18 17
24 24 C 1.47004 * 120.65940 * 89.99437 * 15 12 11
25 25 H 0.97000 * 119.99425 * 359.97438 * 1 2 3
26 26 H 1.09001 * 109.46613 * 59.99978 * 9 7 2
27 27 H 1.09002 * 109.47120 * 300.00329 * 9 7 2
28 28 H 1.09001 * 109.46652 * 60.00253 * 10 9 7
29 29 H 1.08992 * 109.47514 * 300.00342 * 10 9 7
30 30 H 1.09002 * 109.47398 * 300.00496 * 11 10 9
31 31 H 1.09001 * 109.47194 * 60.00677 * 11 10 9
32 32 H 1.08998 * 109.57847 * 353.73835 * 16 15 12
33 33 H 1.08997 * 109.57860 * 114.12032 * 16 15 12
34 34 H 1.08999 * 109.57641 * 185.21341 * 17 16 15
35 35 H 1.08999 * 109.38470 * 65.16714 * 17 16 15
36 36 H 1.09003 * 109.45536 * 300.58673 * 18 17 16
37 37 H 1.08997 * 109.43459 * 180.64989 * 18 17 16
38 38 H 1.09004 * 110.49911 * 214.58065 * 20 19 18
39 39 H 1.09000 * 110.50263 * 337.26415 * 20 19 18
40 40 H 1.09002 * 110.75162 * 279.36898 * 21 20 19
41 41 H 1.09006 * 110.74893 * 156.02012 * 21 20 19
42 42 H 1.09002 * 110.48429 * 203.55146 * 22 21 20
43 43 H 1.09003 * 110.59669 * 80.96515 * 22 21 20
44 44 H 1.09004 * 110.05767 * 359.97438 * 23 19 18
45 45 H 1.08997 * 110.05743 * 121.47204 * 23 19 18
46 46 H 1.08998 * 109.58680 * 246.79870 * 24 15 12
47 47 H 1.09001 * 109.58313 * 7.21842 * 24 15 12
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 2.2492 1.6177 0.0000
4 1 3.7092 1.3463 -0.0006
5 1 1.8905 2.3964 -1.2125
6 1 1.8906 2.3964 1.2125
7 6 2.0045 -1.1941 -0.0005
8 1 3.0845 -1.1941 -0.0010
9 6 1.2510 -2.4992 -0.0005
10 6 2.2452 -3.6621 -0.0018
11 6 1.4801 -4.9871 -0.0012
12 16 2.6589 -6.3660 -0.0019
13 8 3.3548 -6.4264 -1.2395
14 8 3.3565 -6.4262 1.2346
15 7 1.7085 -7.7221 -0.0019
16 6 1.2840 -8.3394 1.2620
17 6 1.6723 -9.8164 1.2521
18 6 1.0880 -10.4867 0.0059
19 6 1.6499 -9.8177 -1.2463
20 6 3.1817 -9.9702 -1.2768
21 6 3.4199 -11.2147 -2.1689
22 6 2.3317 -11.0667 -3.2614
23 6 1.1066 -10.5127 -2.5033
24 6 1.2777 -8.3356 -1.2664
25 1 -0.4849 0.8401 0.0004
26 1 0.6240 -2.5566 -0.8903
27 1 0.6246 -2.5571 0.8897
28 1 2.8725 -3.6048 0.8878
29 1 2.8712 -3.6040 -0.8921
30 1 0.8543 -5.0449 0.8894
31 1 0.8525 -5.0447 -0.8905
32 1 1.7764 -7.8395 2.0961
33 1 0.2028 -8.2499 1.3671
34 1 1.2799 -10.3031 2.1450
35 1 2.7586 -9.9047 1.2372
36 1 0.0026 -10.3865 0.0149
37 1 1.3548 -11.5435 0.0037
38 1 3.6444 -9.0885 -1.7203
39 1 3.5685 -10.1411 -0.2722
40 1 3.2729 -12.1322 -1.5991
41 1 4.4163 -11.1885 -2.6103
42 1 2.1005 -12.0360 -3.7033
43 1 2.6536 -10.3648 -4.0307
44 1 0.4414 -11.3289 -2.2212
45 1 0.5744 -9.7946 -3.1270
46 1 0.1980 -8.2315 -1.3739
47 1 1.7790 -7.8443 -2.1003
RHF calculation, no. of doubly occupied orbitals= 58
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=WATER
ZINC000408440728.mol2 47
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 11:59:59
Heat of formation + Delta-G solvation = -125.847253 kcal
Electronic energy + Delta-G solvation = -25509.372880 eV
Core-core repulsion = 22009.751443 eV
Total energy + Delta-G solvation = -3499.621437 eV
No. of doubly occupied orbitals = 58
Molecular weight
(most abundant/longest-lived isotopes) = 315.166 amu
Computer time = 0.87 seconds
Orbital eigenvalues (eV)
-40.91253 -38.28623 -37.12644 -36.91373 -36.49261 -34.18782 -33.08711 -31.46765
-29.68999 -29.54648 -25.92988 -25.61736 -25.29963 -23.00893 -22.34972 -21.27609
-20.06302 -19.12352 -18.71145 -18.56191 -17.39395 -17.22949 -16.54957 -16.49778
-16.34377 -15.89775 -15.44292 -14.93156 -14.69995 -14.52111 -14.34845 -14.25521
-14.07631 -13.72511 -13.55481 -13.41311 -13.20803 -13.04983 -12.93123 -12.79144
-12.62964 -12.55580 -12.27263 -12.17244 -12.08935 -11.90872 -11.79830 -11.59743
-11.58843 -11.41299 -11.37979 -11.23294 -11.06957 -10.98406 -10.60196 -9.81295
-8.24847 -6.36123 -0.79105 1.38479 1.38974 1.52512 1.67145 2.38314
2.78710 3.08513 3.11834 3.50116 3.66374 3.73437 3.74967 3.87299
4.03651 4.17476 4.21737 4.33749 4.35734 4.44225 4.51217 4.59893
4.63585 4.65289 4.76035 4.82360 4.87077 4.90197 4.91334 4.93541
5.01349 5.02434 5.09745 5.16074 5.22092 5.27390 5.29423 5.40724
5.42246 5.53906 5.55746 5.58934 5.59895 5.72044 5.76681 6.17134
6.79284 7.33360 8.86925
Molecular weight = 315.17amu
Principal moments of inertia in cm(-1)
A = 0.026910 B = 0.002886 C = 0.002833
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1040.251582 B = 9701.096015 C = 9879.721046
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.929 5.929
2 C 0.003 3.997
3 Si 0.964 3.036
4 H -0.264 1.264
5 H -0.276 1.276
6 H -0.275 1.275
7 C -0.553 4.553
8 H 0.059 0.941
9 C 0.032 3.968
10 C -0.106 4.106
11 C -0.610 4.610
12 S 2.617 3.383
13 O -0.985 6.985
14 O -0.988 6.988
15 N -0.993 5.993
16 C 0.108 3.892
17 C -0.134 4.134
18 C -0.097 4.097
19 C -0.070 4.070
20 C -0.129 4.129
21 C -0.122 4.122
22 C -0.125 4.125
23 C -0.111 4.111
24 C 0.120 3.880
25 H 0.265 0.735
26 H 0.003 0.997
27 H 0.003 0.997
28 H 0.064 0.936
29 H 0.064 0.936
30 H 0.143 0.857
31 H 0.143 0.857
32 H 0.083 0.917
33 H 0.092 0.908
34 H 0.095 0.905
35 H 0.055 0.945
36 H 0.079 0.921
37 H 0.075 0.925
38 H 0.045 0.955
39 H 0.063 0.937
40 H 0.076 0.924
41 H 0.059 0.941
42 H 0.077 0.923
43 H 0.057 0.943
44 H 0.083 0.917
45 H 0.070 0.930
46 H 0.091 0.909
47 H 0.080 0.920
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -0.725 -26.760 -1.900 26.837
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 -0.569 5.569
2 C -0.196 4.196
3 Si 0.788 3.212
4 H -0.188 1.188
5 H -0.201 1.201
6 H -0.201 1.201
7 C -0.591 4.591
8 H 0.077 0.923
9 C -0.006 4.006
10 C -0.145 4.145
11 C -0.740 4.740
12 S 2.714 3.286
13 O -0.975 6.975
14 O -0.978 6.978
15 N -0.832 5.832
16 C -0.017 4.017
17 C -0.173 4.173
18 C -0.134 4.134
19 C -0.072 4.072
20 C -0.166 4.166
21 C -0.159 4.159
22 C -0.162 4.162
23 C -0.149 4.149
24 C -0.005 4.005
25 H 0.074 0.926
26 H 0.021 0.979
27 H 0.022 0.978
28 H 0.082 0.918
29 H 0.083 0.917
30 H 0.161 0.839
31 H 0.161 0.839
32 H 0.101 0.899
33 H 0.111 0.889
34 H 0.113 0.887
35 H 0.074 0.926
36 H 0.098 0.902
37 H 0.093 0.907
38 H 0.064 0.936
39 H 0.081 0.919
40 H 0.095 0.905
41 H 0.078 0.922
42 H 0.096 0.904
43 H 0.075 0.925
44 H 0.102 0.898
45 H 0.089 0.911
46 H 0.109 0.891
47 H 0.098 0.902
Dipole moment (debyes) X Y Z Total
from point charges 0.079 -26.645 -1.890 26.712
hybrid contribution -0.181 1.586 0.012 1.597
sum -0.102 -25.058 -1.879 25.129
Atomic orbital electron populations
1.70079 1.07626 1.27890 1.51336 1.25946 0.95843 1.03262 0.94500
0.85413 0.79034 0.78735 0.77996 1.18828 1.20115 1.20090 1.21759
0.93704 0.92520 1.51121 0.92261 1.18955 0.93960 0.91795 0.95915
1.21313 0.98704 0.92668 1.01859 1.30575 1.16716 1.13862 1.12844
1.04574 0.75727 0.75321 0.72944 1.93514 1.71395 1.86367 1.46227
1.93509 1.71375 1.86461 1.46449 1.57533 1.70757 1.41866 1.13065
1.21601 1.01424 0.94775 0.83858 1.21896 1.01224 0.94494 0.99719
1.21500 1.00656 0.99264 0.92012 1.21260 0.95095 0.93950 0.96916
1.22596 0.95721 0.98268 1.00060 1.22496 0.98820 0.97638 0.96954
1.22382 0.95185 1.01239 0.97442 1.22180 0.97789 1.00151 0.94776
1.21830 1.00994 0.93640 0.84047 0.92568 0.97870 0.97848 0.91759
0.91741 0.83860 0.83918 0.89912 0.88944 0.88691 0.92615 0.90243
0.90675 0.93603 0.91863 0.90516 0.92228 0.90428 0.92461 0.89792
0.91097 0.89061 0.90150
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 -0.93 -56.04 13.29 21.45 0.28 -55.75 16
2 C 0.00 0.16 5.46 84.65 0.46 0.62 16
3 Si 0.96 44.53 29.54 68.60 2.03 46.55 16
4 H -0.26 -11.79 7.11 99.48 0.71 -11.08 16
5 H -0.28 -12.33 7.11 99.48 0.71 -11.62 16
6 H -0.28 -12.31 7.11 99.48 0.71 -11.60 16
7 C -0.55 -31.94 9.11 25.60 0.23 -31.70 16
8 H 0.06 3.32 7.74 -2.91 -0.02 3.29 16
9 C 0.03 1.68 4.97 29.85 0.15 1.83 16
10 C -0.11 -4.47 5.16 30.59 0.16 -4.32 16
11 C -0.61 -19.20 6.18 71.98 0.44 -18.75 16
12 S 2.62 79.71 5.46 -56.49 -0.31 79.40 16
13 O -0.98 -35.17 16.59 -127.65 -2.12 -37.28 16
14 O -0.99 -35.38 16.59 -127.65 -2.12 -37.50 16
15 N -0.99 -21.96 3.01 -514.40 -1.55 -23.51 16
16 C 0.11 1.91 6.39 86.21 0.55 2.46 16
17 C -0.13 -1.97 5.84 30.53 0.18 -1.80 16
18 C -0.10 -1.20 4.45 30.52 0.14 -1.06 16
19 C -0.07 -1.13 0.63 -51.83 -0.03 -1.16 16
20 C -0.13 -2.59 5.49 31.59 0.17 -2.41 16
21 C -0.12 -1.90 6.91 31.92 0.22 -1.68 16
22 C -0.12 -1.71 6.84 31.71 0.22 -1.49 16
23 C -0.11 -1.40 6.11 31.24 0.19 -1.21 16
24 C 0.12 2.26 4.78 86.23 0.41 2.67 16
25 H 0.27 14.93 8.31 -92.71 -0.77 14.16 16
26 H 0.00 0.16 8.14 -2.39 -0.02 0.14 16
27 H 0.00 0.17 8.14 -2.39 -0.02 0.15 16
28 H 0.06 2.67 8.14 -2.39 -0.02 2.65 16
29 H 0.06 2.67 8.14 -2.39 -0.02 2.65 16
30 H 0.14 3.99 8.14 -2.39 -0.02 3.97 16
31 H 0.14 3.99 8.14 -2.39 -0.02 3.97 16
32 H 0.08 1.66 6.86 -2.39 -0.02 1.65 16
33 H 0.09 1.19 8.14 -2.39 -0.02 1.17 16
34 H 0.09 1.00 8.14 -2.39 -0.02 0.98 16
35 H 0.06 1.01 6.10 -2.39 -0.01 0.99 16
36 H 0.08 0.78 8.14 -2.39 -0.02 0.77 16
37 H 0.07 0.80 8.14 -2.39 -0.02 0.78 16
38 H 0.05 1.18 7.74 -2.38 -0.02 1.16 16
39 H 0.06 1.31 5.76 -2.39 -0.01 1.30 16
40 H 0.08 1.00 8.14 -2.39 -0.02 0.98 16
41 H 0.06 0.97 8.14 -2.38 -0.02 0.95 16
42 H 0.08 0.83 8.14 -2.39 -0.02 0.81 16
43 H 0.06 0.89 8.14 -2.39 -0.02 0.87 16
44 H 0.08 0.80 7.67 -2.38 -0.02 0.78 16
45 H 0.07 0.86 7.67 -2.39 -0.02 0.84 16
46 H 0.09 1.29 8.14 -2.39 -0.02 1.27 16
47 H 0.08 1.77 6.71 -2.39 -0.02 1.75 16
Total: -1.00 -72.99 370.78 0.63 -72.35
By element:
Atomic # 1 Polarization: 12.81 SS G_CDS: 0.92 Total: 13.73 kcal
Atomic # 6 Polarization: -61.48 SS G_CDS: 3.49 Total: -57.99 kcal
Atomic # 7 Polarization: -78.00 SS G_CDS: -1.26 Total: -79.27 kcal
Atomic # 8 Polarization: -70.55 SS G_CDS: -4.23 Total: -74.78 kcal
Atomic # 14 Polarization: 44.53 SS G_CDS: 2.03 Total: 46.55 kcal
Atomic # 16 Polarization: 79.71 SS G_CDS: -0.31 Total: 79.40 kcal
Total: -72.99 0.63 -72.35 kcal
The number of atoms in the molecule is 47
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.
ZINC000408440728.mol2 47
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 -53.494 kcal
(2) G-P(sol) polarization free energy of solvation -72.985 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -126.479 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.632 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.354 kcal
(6) G-S(sol) free energy of system = (1) + (5) -125.847 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.87 seconds