Wall clock time and date at job start Tue Mar 31 2020 03:01:31
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 C
2 2 N 1.46499 * 1
3 3 C 1.46502 * 120.00062 * 2 1
4 4 C 1.50695 * 109.47115 * 84.99992 * 3 2 1
5 5 H 1.07995 * 120.00143 * 0.02562 * 4 3 2
6 6 C 1.37877 * 119.99827 * 179.97438 * 4 3 2
7 7 N 1.31512 * 119.99998 * 0.02562 * 6 4 3
8 8 Si 1.86803 * 119.99994 * 180.02562 * 6 4 3
9 9 H 1.48496 * 109.47037 * 0.02562 * 8 6 4
10 10 H 1.48503 * 109.47150 * 120.00254 * 8 6 4
11 11 H 1.48499 * 109.47304 * 240.00318 * 8 6 4
12 12 S 1.65606 * 120.00003 * 180.02562 * 2 1 3
13 13 O 1.42098 * 106.40010 * 203.53824 * 12 2 1
14 14 O 1.42094 * 106.39890 * 336.45188 * 12 2 1
15 15 N 1.65596 * 107.21969 * 89.99706 * 12 2 1
16 16 C 1.46495 * 120.00156 * 89.99975 * 15 12 2
17 17 C 1.46502 * 119.99713 * 269.99848 * 15 12 2
18 18 H 1.08994 * 109.52358 * 359.87790 * 17 15 12
19 19 C 1.53174 * 109.52131 * 239.68782 * 17 15 12
20 20 C 1.53173 * 109.03607 * 183.11743 * 19 17 15
21 21 C 1.53097 * 109.16762 * 56.97933 * 20 19 17
22 22 O 1.42903 * 109.40981 * 302.39368 * 21 20 19
23 23 C 1.42905 * 114.09763 * 61.15796 * 22 21 20
24 24 H 1.09002 * 109.47391 * 89.99876 * 1 2 3
25 25 H 1.09001 * 109.46813 * 329.99933 * 1 2 3
26 26 H 1.09004 * 109.47041 * 210.00060 * 1 2 3
27 27 H 1.08999 * 109.47026 * 205.00489 * 3 2 1
28 28 H 1.09005 * 109.46953 * 325.00115 * 3 2 1
29 29 H 0.97008 * 119.99992 * 179.97438 * 7 6 4
30 30 H 1.09006 * 109.47014 * 89.99927 * 16 15 12
31 31 H 1.09002 * 109.47259 * 209.99691 * 16 15 12
32 32 H 1.09002 * 109.47274 * 330.00413 * 16 15 12
33 33 H 1.09004 * 109.54583 * 302.97985 * 19 17 15
34 34 H 1.08994 * 109.54885 * 63.24600 * 19 17 15
35 35 H 1.09004 * 109.52248 * 297.07098 * 20 19 17
36 36 H 1.09001 * 109.57574 * 176.91287 * 20 19 17
37 37 H 1.08993 * 109.48457 * 182.40816 * 21 20 19
38 38 H 1.09002 * 109.47554 * 62.37173 * 21 20 19
39 39 H 1.09001 * 109.47714 * 178.85859 * 23 22 21
40 40 H 1.09000 * 109.49058 * 58.82845 * 23 22 21
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 7 1.4650 0.0000 0.0000
3 6 2.1975 1.2687 0.0000
4 6 2.3414 1.7657 1.4154
5 1 1.9289 1.1935 2.2331
6 6 3.0007 2.9503 1.6663
7 7 3.5034 3.6468 0.6705
8 14 3.1797 3.5660 3.4209
9 1 2.5322 2.6062 4.3508
10 1 4.6208 3.6862 3.7587
11 1 2.5290 4.8948 3.5481
12 16 2.2930 -1.4342 -0.0006
13 8 3.5759 -1.1570 0.5439
14 8 1.4114 -2.4067 0.5435
15 7 2.5381 -1.8581 -1.5826
16 6 3.7451 -1.4112 -2.2821
17 6 1.5477 -2.6800 -2.2825
18 1 0.7260 -2.9152 -1.6060
19 6 2.2058 -3.9776 -2.7613
20 6 1.1823 -4.7924 -3.5581
21 6 0.6586 -3.9436 -4.7196
22 8 0.0873 -2.7382 -4.2071
23 6 1.0099 -1.9127 -3.4932
24 1 -0.3634 0.0000 -1.0277
25 1 -0.3633 0.8900 0.5139
26 1 -0.3633 -0.8900 0.5139
27 1 3.1857 1.1177 -0.4344
28 1 1.6501 2.0043 -0.5895
29 1 3.9669 4.4805 0.8471
30 1 4.5354 -2.1507 -2.1517
31 1 3.5278 -1.2951 -3.3439
32 1 4.0705 -0.4555 -1.8711
33 1 3.0584 -3.7408 -3.3978
34 1 2.5414 -4.5556 -1.9003
35 1 0.3531 -5.0714 -2.9079
36 1 1.6569 -5.6922 -3.9496
37 1 -0.1015 -4.5030 -5.2648
38 1 1.4817 -3.6990 -5.3910
39 1 0.5028 -1.0092 -3.1549
40 1 1.8376 -1.6414 -4.1486
RHF calculation, no. of doubly occupied orbitals= 53
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
ZINC000352286916.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 03:01:31
Heat of formation + Delta-G solvation = -144.367570 kcal
Electronic energy + Delta-G solvation = -23279.523007 eV
Core-core repulsion = 19834.291744 eV
Total energy + Delta-G solvation = -3445.231262 eV
No. of doubly occupied orbitals = 53
Molecular weight
(most abundant/longest-lived isotopes) = 292.129 amu
Computer time = 0.43 seconds
Orbital eigenvalues (eV)
-40.54422 -38.37562 -37.23873 -37.16977 -36.87000 -34.51619 -33.80537 -30.98679
-29.67840 -27.39388 -26.80052 -26.01102 -24.26165 -23.85966 -21.05990 -20.00043
-19.08009 -18.46655 -18.26569 -17.72888 -17.00797 -16.98146 -16.48893 -15.95647
-15.60552 -15.18317 -15.14468 -14.91878 -14.32972 -14.26546 -14.08206 -13.97688
-13.65456 -13.58299 -13.34362 -13.11852 -13.04938 -12.95920 -12.77676 -12.52292
-12.48386 -12.39281 -12.08925 -12.00393 -11.75682 -11.70549 -11.40939 -10.76255
-10.59492 -9.90690 -9.78306 -8.21627 -6.33223 -0.41591 1.37669 1.40156
1.51705 1.93687 2.38194 2.50793 2.98162 3.09374 3.33706 3.56622
3.80908 3.90824 3.98664 4.07612 4.14241 4.24469 4.48020 4.52722
4.61173 4.63907 4.73351 4.74741 4.81895 4.87594 4.93047 4.98723
5.04097 5.06573 5.17563 5.19254 5.35082 5.41189 5.56024 5.69442
5.92839 6.09845 6.25159 6.74768 7.35717 8.85974
Molecular weight = 292.13amu
Principal moments of inertia in cm(-1)
A = 0.030926 B = 0.004662 C = 0.004588
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 905.168201 B = 6005.114262 C = 6101.654558
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.089 3.911
2 N -1.004 6.004
3 C 0.273 3.727
4 C -0.551 4.551
5 H 0.049 0.951
6 C 0.015 3.985
7 N -0.922 5.922
8 Si 0.955 3.045
9 H -0.272 1.272
10 H -0.278 1.278
11 H -0.269 1.269
12 S 2.790 3.210
13 O -1.004 7.004
14 O -1.008 7.008
15 N -0.998 5.998
16 C 0.087 3.913
17 C 0.111 3.889
18 H 0.090 0.910
19 C -0.130 4.130
20 C -0.150 4.150
21 C 0.051 3.949
22 O -0.395 6.395
23 C 0.056 3.944
24 H 0.071 0.929
25 H 0.071 0.929
26 H 0.072 0.928
27 H 0.019 0.981
28 H 0.029 0.971
29 H 0.268 0.732
30 H 0.068 0.932
31 H 0.101 0.899
32 H 0.056 0.944
33 H 0.086 0.914
34 H 0.063 0.937
35 H 0.066 0.934
36 H 0.101 0.899
37 H 0.112 0.888
38 H 0.065 0.935
39 H 0.093 0.907
40 H 0.073 0.927
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -4.409 -14.042 -13.134 19.726
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 -0.056 4.056
2 N -0.845 5.845
3 C 0.149 3.851
4 C -0.590 4.590
5 H 0.067 0.933
6 C -0.185 4.185
7 N -0.562 5.562
8 Si 0.780 3.220
9 H -0.196 1.196
10 H -0.204 1.204
11 H -0.194 1.194
12 S 2.800 3.200
13 O -0.988 6.988
14 O -0.992 6.992
15 N -0.839 5.839
16 C -0.058 4.058
17 C 0.005 3.995
18 H 0.108 0.892
19 C -0.169 4.169
20 C -0.188 4.188
21 C -0.025 4.025
22 O -0.313 6.313
23 C -0.023 4.023
24 H 0.089 0.911
25 H 0.090 0.910
26 H 0.090 0.910
27 H 0.037 0.963
28 H 0.047 0.953
29 H 0.077 0.923
30 H 0.086 0.914
31 H 0.120 0.880
32 H 0.075 0.925
33 H 0.104 0.896
34 H 0.082 0.918
35 H 0.085 0.915
36 H 0.119 0.881
37 H 0.130 0.870
38 H 0.083 0.917
39 H 0.111 0.889
40 H 0.091 0.909
Dipole moment (debyes) X Y Z Total
from point charges -4.235 -14.304 -12.445 19.427
hybrid contribution 0.485 0.812 0.937 1.332
sum -3.750 -13.492 -11.508 18.125
Atomic orbital electron populations
1.21549 0.78241 1.03472 1.02344 1.57587 1.15654 1.22086 1.89180
1.18634 0.90414 0.80181 0.95855 1.21854 1.36275 1.06692 0.94187
0.93298 1.25700 0.94743 0.96686 1.01355 1.70001 1.37811 1.15731
1.32612 0.85561 0.78083 0.78419 0.79977 1.19647 1.20391 1.19388
1.01512 0.72373 0.72416 0.73720 1.93562 1.42515 1.85412 1.77265
1.93482 1.67529 1.60484 1.77657 1.57844 1.29987 1.64787 1.31321
1.21632 0.85273 0.99632 0.99233 1.21670 0.90663 0.91679 0.95522
0.89200 1.21976 0.99431 0.94648 1.00883 1.22211 0.99035 0.99571
0.97971 1.22867 0.99754 0.84902 0.95007 1.87956 1.37256 1.33983
1.72071 1.22903 0.93968 0.93266 0.92116 0.91100 0.90975 0.90981
0.96257 0.95311 0.92316 0.91352 0.88040 0.92548 0.89557 0.91794
0.91477 0.88106 0.86996 0.91656 0.88900 0.90881
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 18.
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 0.09 3.07 10.68 127.77 1.36 4.43 16
2 N -1.00 -42.13 3.23 -543.22 -1.75 -43.88 16
3 C 0.27 13.82 5.08 85.63 0.43 14.26 16
4 C -0.55 -31.48 9.38 25.60 0.24 -31.24 16
5 H 0.05 2.83 7.81 -2.91 -0.02 2.81 16
6 C 0.01 0.84 5.46 84.65 0.46 1.31 16
7 N -0.92 -53.72 13.29 21.45 0.28 -53.44 16
8 Si 0.95 44.84 29.54 68.60 2.03 46.87 16
9 H -0.27 -12.66 7.11 99.48 0.71 -11.95 16
10 H -0.28 -12.84 7.11 99.48 0.71 -12.13 16
11 H -0.27 -11.93 7.11 99.48 0.71 -11.22 16
12 S 2.79 113.05 6.01 -56.49 -0.34 112.71 16
13 O -1.00 -49.27 16.18 -128.00 -2.07 -51.34 16
14 O -1.01 -42.32 15.31 -128.00 -1.96 -44.28 16
15 N -1.00 -29.64 3.14 -516.06 -1.62 -31.26 16
16 C 0.09 2.22 9.29 127.77 1.19 3.41 16
17 C 0.11 2.73 2.71 45.08 0.12 2.85 16
18 H 0.09 2.50 6.91 -2.39 -0.02 2.49 16
19 C -0.13 -2.50 5.35 30.71 0.16 -2.34 16
20 C -0.15 -2.20 6.14 30.68 0.19 -2.01 16
21 C 0.05 0.73 6.84 72.01 0.49 1.22 16
22 O -0.39 -8.41 10.77 -148.98 -1.60 -10.01 16
23 C 0.06 1.20 6.15 72.01 0.44 1.64 16
24 H 0.07 1.96 8.14 -2.39 -0.02 1.94 16
25 H 0.07 2.55 8.07 -2.39 -0.02 2.53 16
26 H 0.07 2.36 7.02 -2.38 -0.02 2.35 16
27 H 0.02 1.04 7.26 -2.39 -0.02 1.03 16
28 H 0.03 1.48 8.11 -2.38 -0.02 1.46 16
29 H 0.27 14.62 8.31 -92.70 -0.77 13.85 16
30 H 0.07 1.56 8.14 -2.38 -0.02 1.54 16
31 H 0.10 1.86 6.39 -2.39 -0.02 1.84 16
32 H 0.06 1.73 7.44 -2.39 -0.02 1.71 16
33 H 0.09 1.38 7.58 -2.39 -0.02 1.36 16
34 H 0.06 1.35 8.14 -2.39 -0.02 1.33 16
35 H 0.07 1.11 8.14 -2.39 -0.02 1.09 16
36 H 0.10 1.02 8.14 -2.39 -0.02 1.00 16
37 H 0.11 1.21 8.14 -2.39 -0.02 1.19 16
38 H 0.07 0.77 8.14 -2.39 -0.02 0.75 16
39 H 0.09 2.11 8.14 -2.39 -0.02 2.09 16
40 H 0.07 1.33 6.57 -2.39 -0.02 1.31 16
Total: -1.00 -71.82 332.46 -0.92 -72.74
By element:
Atomic # 1 Polarization: 7.35 SS G_CDS: 1.02 Total: 8.36 kcal
Atomic # 6 Polarization: -11.56 SS G_CDS: 5.10 Total: -6.46 kcal
Atomic # 7 Polarization: -125.49 SS G_CDS: -3.09 Total: -128.58 kcal
Atomic # 8 Polarization: -100.00 SS G_CDS: -5.63 Total: -105.64 kcal
Atomic # 14 Polarization: 44.84 SS G_CDS: 2.03 Total: 46.87 kcal
Atomic # 16 Polarization: 113.05 SS G_CDS: -0.34 Total: 112.71 kcal
Total: -71.82 -0.92 -72.74 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.
ZINC000352286916.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 -71.628 kcal
(2) G-P(sol) polarization free energy of solvation -71.822 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -143.450 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.918 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.739 kcal
(6) G-S(sol) free energy of system = (1) + (5) -144.368 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.43 seconds