Wall clock time and date at job start Wed Apr 1 2020 05:21:24
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 1.31630 * 1
3 3 Si 1.86800 * 120.00086 * 2 1
4 4 H 1.48501 * 109.46755 * 269.99737 * 3 2 1
5 5 H 1.48495 * 109.46931 * 29.99751 * 3 2 1
6 6 H 1.48500 * 109.46738 * 149.99993 * 3 2 1
7 7 C 1.38803 * 119.99849 * 179.97438 * 2 1 3
8 8 H 1.07999 * 120.00074 * 179.97438 * 7 2 1
9 9 S 1.76199 * 119.99949 * 0.02562 * 7 2 1
10 10 C 1.81002 * 100.00182 * 179.97438 * 9 7 2
11 11 C 1.50703 * 109.47349 * 180.02562 * 10 9 7
12 12 N 1.30961 * 126.43837 * 89.70984 * 11 10 9
13 13 C 1.35230 * 105.57803 * 179.86247 * 12 11 10
14 14 C 1.48386 * 126.41638 * 180.14940 * 13 12 11
15 15 C 1.39346 * 119.63682 * 180.02562 * 14 13 12
16 16 C 1.38260 * 119.15916 * 179.73228 * 15 14 13
17 17 C 1.39416 * 118.43778 * 0.52544 * 16 15 14
18 18 N 1.39480 * 120.40154 * 179.75054 * 17 16 15
19 19 C 1.47015 * 111.00359 * 303.61599 * 18 17 16
20 20 C 1.53096 * 109.25791 * 177.60567 * 19 18 17
21 21 O 1.43014 * 109.26016 * 56.85351 * 20 19 18
22 22 C 1.43022 * 113.73374 * 301.32820 * 21 20 19
23 23 C 1.47018 * 111.00203 * 179.97438 * 18 17 16
24 24 C 1.39102 * 119.19676 * 359.73526 * 17 16 15
25 25 N 1.31593 * 120.77061 * 359.97438 * 24 17 16
26 26 N 1.30777 * 107.17044 * 0.40773 * 13 12 11
27 27 O 1.21291 * 110.08932 * 359.74290 * 26 13 12
28 28 H 0.97005 * 119.99878 * 0.02562 * 1 2 3
29 29 H 1.09005 * 109.46889 * 299.99975 * 10 9 7
30 30 H 1.09000 * 109.47231 * 59.99947 * 10 9 7
31 31 H 1.08001 * 120.41982 * 0.02562 * 15 14 13
32 32 H 1.07999 * 120.78214 * 180.24161 * 16 15 14
33 33 H 1.08994 * 109.50796 * 297.54529 * 19 18 17
34 34 H 1.09007 * 109.50164 * 57.67361 * 19 18 17
35 35 H 1.09000 * 109.50690 * 296.91545 * 20 19 18
36 36 H 1.09007 * 109.50449 * 176.78521 * 20 19 18
37 37 H 1.09000 * 109.50341 * 298.73333 * 22 21 20
38 38 H 1.09000 * 109.53682 * 178.62710 * 22 21 20
39 39 H 1.09005 * 109.50594 * 302.33460 * 23 18 17
40 40 H 1.09002 * 109.50423 * 62.45551 * 23 18 17
41 41 H 1.08007 * 119.61370 * 179.97438 * 24 17 16
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 1.3163 0.0000 0.0000
3 14 2.2503 1.6177 0.0000
4 1 2.4978 2.0463 -1.4001
5 1 1.4478 2.6526 0.7000
6 1 3.5479 1.4400 0.7001
7 6 2.0103 -1.2021 0.0005
8 1 3.0903 -1.2021 0.0001
9 16 1.1292 -2.7280 0.0005
10 6 2.5157 -3.8915 0.0005
11 6 1.9872 -5.3028 -0.0001
12 7 1.7097 -6.0291 -1.0540
13 6 1.2716 -7.2146 -0.5730
14 6 0.8343 -8.3835 -1.3757
15 6 0.4065 -9.5417 -0.7298
16 6 -0.0041 -10.6230 -1.4873
17 6 0.0372 -10.5142 -2.8766
18 7 -0.3625 -11.5818 -3.6804
19 6 0.4028 -12.7961 -3.3627
20 6 -0.1077 -13.9545 -4.2236
21 8 -0.0061 -13.5964 -5.6045
22 6 -0.7401 -12.4183 -5.9492
23 6 -0.2362 -11.2443 -5.1058
24 6 0.4816 -9.3281 -3.4515
25 7 0.8597 -8.3161 -2.7001
26 7 1.3002 -7.1360 0.7321
27 8 1.7080 -6.0464 1.0750
28 1 -0.4850 0.8401 -0.0004
29 1 3.1243 -3.7315 -0.8895
30 1 3.1244 -3.7315 0.8905
31 1 0.3913 -9.5924 0.3489
32 1 -0.3444 -11.5321 -1.0140
33 1 1.4590 -12.6256 -3.5711
34 1 0.2743 -13.0418 -2.3085
35 1 -1.1492 -14.1601 -3.9766
36 1 0.4945 -14.8428 -4.0327
37 1 -1.8000 -12.5793 -5.7523
38 1 -0.5960 -12.1953 -7.0064
39 1 -0.8311 -10.3574 -5.3240
40 1 0.8098 -11.0489 -5.3421
41 1 0.5168 -9.2366 -4.5271
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
ZINC000274144526.mol2 41
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Wed Apr 1 2020 05:21:24
Heat of formation + Delta-G solvation = 79.511806 kcal
Electronic energy + Delta-G solvation = -26272.965173 eV
Core-core repulsion = 22283.227054 eV
Total energy + Delta-G solvation = -3989.738118 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 348.104 amu
Computer time = 0.68 seconds
Orbital eigenvalues (eV)
-45.25760 -41.27700 -39.55555 -36.70429 -35.43241 -33.43646 -32.82213 -32.54624
-31.77843 -30.64835 -28.50103 -27.53565 -25.65449 -25.49783 -24.34323 -23.44797
-22.56193 -21.68193 -20.80877 -18.43675 -18.00076 -17.89242 -17.38388 -17.01494
-16.40480 -16.26909 -15.83003 -15.55250 -15.33967 -14.90646 -14.89141 -14.55652
-14.41751 -14.14245 -14.05440 -13.61708 -13.25863 -12.93616 -12.84214 -12.62223
-12.11929 -12.00434 -11.91916 -11.74664 -11.29884 -11.15717 -11.11380 -11.08419
-10.82932 -10.74023 -10.34299 -10.20994 -9.99420 -9.68265 -9.42580 -9.17239
-8.54957 -8.33151 -6.72273 -6.34506 -4.08981 0.36874 0.93712 1.41741
2.38424 2.93162 3.01458 3.18371 3.20033 3.25698 3.28073 3.32952
3.43674 3.62830 3.90699 4.08594 4.16711 4.24031 4.34139 4.37245
4.52954 4.62071 4.65417 4.70014 4.85119 4.91366 5.02772 5.03003
5.06186 5.14620 5.19916 5.29302 5.32400 5.33585 5.53278 5.57079
5.68355 5.88981 5.93752 6.12641 6.22609 6.24986 6.52774 6.53344
7.49749 7.65500 8.24163 8.36909 9.11377 10.73457
Molecular weight = 348.10amu
Principal moments of inertia in cm(-1)
A = 0.025319 B = 0.001771 C = 0.001695
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1105.611015 B =15802.738758 C =16516.465821
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.867 5.867
2 C 0.074 3.926
3 Si 0.925 3.075
4 H -0.275 1.275
5 H -0.281 1.281
6 H -0.270 1.270
7 C -0.526 4.526
8 H 0.081 0.919
9 S -0.081 6.081
10 C -0.043 4.043
11 C 0.228 3.772
12 N -0.450 5.450
13 C 0.211 3.789
14 C 0.182 3.818
15 C -0.107 4.107
16 C -0.096 4.096
17 C 0.067 3.933
18 N -0.481 5.481
19 C 0.018 3.982
20 C 0.063 3.937
21 O -0.383 6.383
22 C 0.064 3.936
23 C 0.006 3.994
24 C 0.062 3.938
25 N -0.418 5.418
26 N -0.377 5.377
27 O 0.086 5.914
28 H 0.270 0.730
29 H 0.113 0.887
30 H 0.104 0.896
31 H 0.147 0.853
32 H 0.144 0.856
33 H 0.057 0.943
34 H 0.095 0.905
35 H 0.063 0.937
36 H 0.104 0.896
37 H 0.063 0.937
38 H 0.106 0.894
39 H 0.100 0.900
40 H 0.062 0.938
41 H 0.165 0.835
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 0.242 -27.398 -7.038 28.288
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 -0.502 5.502
2 C -0.136 4.136
3 Si 0.751 3.249
4 H -0.201 1.201
5 H -0.207 1.207
6 H -0.195 1.195
7 C -0.674 4.674
8 H 0.099 0.901
9 S 0.145 5.855
10 C -0.192 4.192
11 C 0.007 3.993
12 N -0.184 5.184
13 C -0.059 4.059
14 C 0.043 3.957
15 C -0.130 4.130
16 C -0.124 4.124
17 C -0.034 4.034
18 N -0.197 5.197
19 C -0.108 4.108
20 C -0.014 4.014
21 O -0.301 6.301
22 C -0.014 4.014
23 C -0.121 4.121
24 C -0.101 4.101
25 N -0.127 5.127
26 N -0.086 5.086
27 O 0.024 5.976
28 H 0.080 0.920
29 H 0.131 0.869
30 H 0.122 0.878
31 H 0.165 0.835
32 H 0.162 0.838
33 H 0.075 0.925
34 H 0.113 0.887
35 H 0.082 0.918
36 H 0.122 0.878
37 H 0.082 0.918
38 H 0.124 0.876
39 H 0.118 0.882
40 H 0.080 0.920
41 H 0.182 0.818
Dipole moment (debyes) X Y Z Total
from point charges -1.415 -27.713 -7.419 28.724
hybrid contribution 1.973 1.105 0.520 2.320
sum 0.558 -26.609 -6.899 27.494
Atomic orbital electron populations
1.70003 1.06027 1.27814 1.46344 1.25032 0.95125 0.99238 0.94160
0.86065 0.79383 0.80998 0.78497 1.20122 1.20691 1.19460 1.22711
0.94888 0.90033 1.59759 0.90115 1.85233 1.05119 0.98225 1.96956
1.22011 1.04459 0.85612 1.07094 1.28303 0.94185 0.97006 0.79819
1.72181 1.17206 1.01334 1.27635 1.23295 1.01653 0.93638 0.87359
1.17777 0.99777 0.89387 0.88768 1.21912 0.97204 0.91927 1.01921
1.21111 1.00144 0.99651 0.91501 1.20083 0.96512 0.93379 0.93410
1.59185 1.52490 1.03328 1.04671 1.23012 0.96426 0.89519 1.01839
1.22717 1.01699 0.96117 0.80908 1.88028 1.72205 1.44364 1.25540
1.22719 0.95943 0.83523 0.99167 1.23086 1.02121 1.00477 0.86398
1.23031 0.97817 0.88832 1.00432 1.67414 1.11304 1.28948 1.05052
1.74801 1.18406 1.01061 1.14312 1.85278 1.58776 1.17660 1.35878
0.91967 0.86932 0.87752 0.83500 0.83809 0.92479 0.88696 0.91841
0.87794 0.91837 0.87618 0.88221 0.92011 0.81807
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 13.
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 -0.87 -25.09 13.22 55.49 0.73 -24.35 16
2 C 0.07 2.03 5.49 -17.43 -0.10 1.93 16
3 Si 0.92 20.66 29.55 -169.99 -5.02 15.63 16
4 H -0.28 -6.08 7.11 56.52 0.40 -5.68 16
5 H -0.28 -6.21 7.11 56.52 0.40 -5.80 16
6 H -0.27 -5.84 7.11 56.52 0.40 -5.44 16
7 C -0.53 -14.19 9.50 30.94 0.29 -13.89 16
8 H 0.08 2.05 7.80 -52.49 -0.41 1.64 16
9 S -0.08 -2.05 21.42 -107.50 -2.30 -4.35 16
10 C -0.04 -0.84 6.30 36.01 0.23 -0.61 16
11 C 0.23 4.36 7.75 -12.99 -0.10 4.26 16
12 N -0.45 -9.04 11.56 -9.88 -0.11 -9.16 16
13 C 0.21 3.85 7.90 -156.11 -1.23 2.61 16
14 C 0.18 2.82 6.75 -82.93 -0.56 2.26 16
15 C -0.11 -1.27 9.72 -39.16 -0.38 -1.65 16
16 C -0.10 -0.90 9.31 -39.13 -0.36 -1.26 16
17 C 0.07 0.64 5.65 -83.62 -0.47 0.17 16
18 N -0.48 -3.63 4.77 -170.65 -0.81 -4.44 16
19 C 0.02 0.10 5.41 -3.71 -0.02 0.08 16
20 C 0.06 0.33 7.01 37.21 0.26 0.59 16
21 O -0.38 -2.80 10.83 -35.23 -0.38 -3.18 16
22 C 0.06 0.35 7.01 37.20 0.26 0.61 16
23 C 0.01 0.04 4.33 -3.71 -0.02 0.02 16
24 C 0.06 0.71 9.99 -17.33 -0.17 0.53 16
25 N -0.42 -6.45 10.28 -9.59 -0.10 -6.55 16
26 N -0.38 -6.70 11.83 30.97 0.37 -6.33 16
27 O 0.09 1.57 11.29 18.03 0.20 1.77 16
28 H 0.27 7.29 8.31 -40.82 -0.34 6.95 16
29 H 0.11 2.09 8.14 -51.91 -0.42 1.67 16
30 H 0.10 1.79 8.14 -51.92 -0.42 1.37 16
31 H 0.15 1.57 7.85 -52.49 -0.41 1.15 16
32 H 0.14 0.93 7.27 -52.49 -0.38 0.55 16
33 H 0.06 0.38 8.14 -51.93 -0.42 -0.04 16
34 H 0.09 0.44 6.91 -51.92 -0.36 0.08 16
35 H 0.06 0.31 8.14 -51.93 -0.42 -0.11 16
36 H 0.10 0.37 8.14 -51.93 -0.42 -0.06 16
37 H 0.06 0.34 8.14 -51.93 -0.42 -0.09 16
38 H 0.11 0.42 8.14 -51.93 -0.42 -0.01 16
39 H 0.10 0.57 7.24 -51.93 -0.38 0.19 16
40 H 0.06 0.40 7.55 -51.93 -0.39 0.01 16
41 H 0.16 1.48 5.82 -52.48 -0.31 1.17 16
LS Contribution 363.94 15.07 5.48 5.48
Total: -1.00 -33.22 363.94 -9.05 -42.27
By element:
Atomic # 1 Polarization: 2.28 SS G_CDS: -4.73 Total: -2.45 kcal
Atomic # 6 Polarization: -1.97 SS G_CDS: -2.37 Total: -4.34 kcal
Atomic # 7 Polarization: -50.91 SS G_CDS: 0.07 Total: -50.84 kcal
Atomic # 8 Polarization: -1.24 SS G_CDS: -0.18 Total: -1.41 kcal
Atomic # 14 Polarization: 20.66 SS G_CDS: -5.02 Total: 15.63 kcal
Atomic # 16 Polarization: -2.05 SS G_CDS: -2.30 Total: -4.35 kcal
Total LS contribution 5.48 Total: 5.48 kcal
Total: -33.22 -9.05 -42.27 kcal
The number of atoms in the molecule is 41
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.
ZINC000274144526.mol2 41
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 121.786 kcal
(2) G-P(sol) polarization free energy of solvation -33.224 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 88.561 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -9.050 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -42.274 kcal
(6) G-S(sol) free energy of system = (1) + (5) 79.512 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.68 seconds