Wall clock time and date at job start Wed Apr 1 2020 02:59:05
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 1.31614 * 1
3 3 Si 1.86806 * 120.00431 * 2 1
4 4 H 1.48497 * 109.47228 * 270.00269 * 3 2 1
5 5 H 1.48499 * 109.46828 * 30.00261 * 3 2 1
6 6 H 1.48502 * 109.47200 * 150.00174 * 3 2 1
7 7 C 1.38815 * 120.00195 * 180.02562 * 2 1 3
8 8 H 1.08004 * 119.99738 * 359.97438 * 7 2 1
9 9 N 1.36930 * 120.00439 * 179.97438 * 7 2 1
10 10 C 1.46506 * 120.00258 * 179.97438 * 9 7 2
11 11 C 1.52997 * 109.47289 * 180.02562 * 10 9 7
12 12 H 1.09005 * 110.43391 * 307.53554 * 11 10 9
13 13 C 1.54892 * 110.48790 * 70.22392 * 11 10 9
14 14 C 1.54892 * 102.74537 * 156.62129 * 13 11 10
15 15 C 1.54264 * 104.19740 * 322.05738 * 14 13 11
16 16 C 1.53873 * 106.59940 * 23.61232 * 15 14 13
17 17 H 1.08996 * 110.03379 * 119.28795 * 16 15 14
18 18 N 1.46504 * 110.03394 * 240.71488 * 16 15 14
19 19 C 1.34775 * 119.99895 * 272.16973 * 18 16 15
20 20 O 1.21588 * 120.00118 * 359.97438 * 19 18 16
21 21 C 1.47563 * 119.99655 * 179.97438 * 19 18 16
22 22 C 1.40116 * 120.58972 * 359.72447 * 21 19 18
23 23 N 1.30609 * 121.17093 * 179.71189 * 22 21 19
24 24 C 1.34913 * 122.44645 * 0.55506 * 23 22 21
25 25 C 1.40620 * 128.45903 * 179.71267 * 24 23 22
26 26 C 1.32283 * 115.90796 * 180.02562 * 25 24 23
27 27 S 1.75499 * 110.83790 * 0.02562 * 26 25 24
28 28 C 1.40099 * 119.27152 * 359.73556 * 24 23 22
29 29 C 1.39362 * 119.75118 * 359.97438 * 28 24 23
30 30 H 0.97000 * 119.99761 * 359.97438 * 1 2 3
31 31 H 0.97001 * 120.00490 * 359.97438 * 9 7 2
32 32 H 1.09001 * 109.47060 * 300.00287 * 10 9 7
33 33 H 1.09004 * 109.47073 * 59.99776 * 10 9 7
34 34 H 1.09004 * 110.75596 * 274.93646 * 13 11 10
35 35 H 1.08992 * 110.75389 * 38.30384 * 13 11 10
36 36 H 1.09000 * 110.48214 * 203.38065 * 14 13 11
37 37 H 1.09000 * 110.48593 * 80.74090 * 14 13 11
38 38 H 1.09001 * 110.02914 * 264.32888 * 15 14 13
39 39 H 1.08992 * 110.03108 * 142.89691 * 15 14 13
40 40 H 0.97003 * 119.99806 * 92.16440 * 18 16 15
41 41 H 1.07998 * 119.41563 * 359.97438 * 22 21 19
42 42 H 1.07998 * 122.04562 * 0.02562 * 25 24 23
43 43 H 1.08002 * 124.57829 * 180.02562 * 26 25 24
44 44 H 1.08003 * 120.73262 * 180.02562 * 29 28 24
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 1.3161 0.0000 0.0000
3 14 2.2503 1.6177 0.0000
4 1 2.4978 2.0464 -1.4000
5 1 1.4478 2.6526 0.7001
6 1 3.5479 1.4401 0.7000
7 6 2.0103 -1.2021 -0.0005
8 1 1.4702 -2.1375 -0.0005
9 7 3.3795 -1.2022 -0.0011
10 6 4.1121 -2.4710 -0.0011
11 6 5.6163 -2.1915 -0.0011
12 1 5.8768 -1.5101 -0.8111
13 6 6.0596 -1.6097 1.3643
14 6 7.5676 -1.9602 1.4116
15 6 7.6508 -3.3611 0.7712
16 6 6.4102 -3.5082 -0.1271
17 1 6.7148 -3.6630 -1.1621
18 7 5.5908 -4.6337 0.3292
19 6 5.8366 -5.8764 -0.1312
20 8 6.7380 -6.0632 -0.9255
21 6 5.0116 -7.0101 0.3288
22 6 3.9735 -6.8097 1.2482
23 7 3.2328 -7.8040 1.6588
24 6 3.4245 -9.0714 1.2380
25 6 2.7128 -10.2296 1.5979
26 6 3.1150 -11.3548 1.0304
27 16 4.4703 -11.0618 -0.0454
28 6 4.4501 -9.3415 0.3225
29 6 5.2553 -8.3024 -0.1403
30 1 -0.4850 0.8401 0.0004
31 1 3.8647 -0.3622 -0.0014
32 1 3.8491 -3.0424 0.8891
33 1 3.8484 -3.0428 -0.8908
34 1 5.9129 -0.5299 1.3901
35 1 5.5249 -2.0929 2.1819
36 1 7.9200 -1.9905 2.4426
37 1 8.1449 -1.2404 0.8312
38 1 7.6433 -4.1271 1.5466
39 1 8.5575 -3.4445 0.1721
40 1 4.8715 -4.4846 0.9626
41 1 3.7796 -5.8148 1.6208
42 1 1.8884 -10.2021 2.2949
43 1 2.6694 -12.3230 1.2054
44 1 6.0501 -8.4926 -0.8464
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=WATER
ZINC001496896682.mol2 44
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 02:59:05
Heat of formation + Delta-G solvation = 12.873244 kcal
Electronic energy + Delta-G solvation = -27114.812961 eV
Core-core repulsion = 23350.755662 eV
Total energy + Delta-G solvation = -3764.057299 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 345.125 amu
Computer time = 0.98 seconds
Orbital eigenvalues (eV)
-41.95420 -40.86367 -39.18645 -36.76558 -36.40263 -34.71498 -33.70588 -33.56754
-31.22741 -30.56776 -28.66237 -26.42347 -26.01276 -24.85991 -23.81711 -23.02228
-21.75959 -21.41183 -20.75887 -19.87990 -19.49648 -18.09181 -17.98287 -17.24210
-16.95095 -16.61560 -16.36399 -16.06383 -15.84145 -15.60678 -15.30069 -15.11490
-15.00387 -14.75533 -14.53014 -14.33604 -14.04691 -13.75388 -13.63137 -13.54018
-12.92448 -12.84907 -12.68284 -12.28569 -12.13459 -12.05424 -11.96974 -11.83007
-11.70913 -11.64202 -11.60099 -11.45873 -11.33911 -10.94715 -10.59586 -10.21428
-9.85069 -9.28906 -9.08216 -8.01430 -5.35117 -0.98929 -0.15137 0.27392
0.78341 0.81403 1.38856 1.42771 1.50112 1.79822 2.01153 2.49787
2.62822 2.92668 3.28622 3.33781 3.46032 3.53202 3.61821 3.66528
3.80139 3.91174 4.00544 4.02314 4.35785 4.38049 4.47327 4.53026
4.55723 4.62350 4.64391 4.70910 4.78547 4.84602 4.89042 5.02363
5.03121 5.11338 5.20486 5.24658 5.25794 5.33833 5.47960 5.53374
5.76810 6.22054 6.36863 6.59700 7.03003 7.09417 7.84853 8.04376
9.20070
Molecular weight = 345.13amu
Principal moments of inertia in cm(-1)
A = 0.012051 B = 0.002756 C = 0.002347
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2322.822225 B =10158.553843 C =11929.385346
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.985 5.985
2 C -0.065 4.065
3 Si 0.955 3.045
4 H -0.281 1.281
5 H -0.298 1.298
6 H -0.245 1.245
7 C -0.234 4.234
8 H 0.055 0.945
9 N -0.753 5.753
10 C 0.165 3.835
11 C -0.104 4.104
12 H 0.092 0.908
13 C -0.117 4.117
14 C -0.114 4.114
15 C -0.125 4.125
16 C 0.153 3.847
17 H 0.084 0.916
18 N -0.705 5.705
19 C 0.572 3.428
20 O -0.567 6.567
21 C -0.192 4.192
22 C 0.159 3.841
23 N -0.483 5.483
24 C 0.131 3.869
25 C -0.145 4.145
26 C -0.138 4.138
27 S 0.154 5.846
28 C -0.235 4.235
29 C 0.029 3.971
30 H 0.257 0.743
31 H 0.367 0.633
32 H 0.032 0.968
33 H 0.016 0.984
34 H 0.064 0.936
35 H 0.068 0.932
36 H 0.079 0.921
37 H 0.076 0.924
38 H 0.069 0.931
39 H 0.076 0.924
40 H 0.409 0.591
41 H 0.178 0.822
42 H 0.168 0.832
43 H 0.219 0.781
44 H 0.158 0.842
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 16.029 -21.331 4.150 27.003
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 -0.635 5.635
2 C -0.256 4.256
3 Si 0.782 3.218
4 H -0.208 1.208
5 H -0.225 1.225
6 H -0.169 1.169
7 C -0.365 4.365
8 H 0.073 0.927
9 N -0.399 5.399
10 C 0.038 3.962
11 C -0.123 4.123
12 H 0.110 0.890
13 C -0.154 4.154
14 C -0.151 4.151
15 C -0.163 4.163
16 C 0.048 3.952
17 H 0.102 0.898
18 N -0.358 5.358
19 C 0.359 3.641
20 O -0.448 6.448
21 C -0.201 4.201
22 C -0.013 4.013
23 N -0.192 5.192
24 C -0.003 4.003
25 C -0.175 4.175
26 C -0.275 4.275
27 S 0.418 5.582
28 C -0.352 4.352
29 C 0.000 4.000
30 H 0.066 0.934
31 H 0.201 0.799
32 H 0.050 0.950
33 H 0.034 0.966
34 H 0.083 0.917
35 H 0.087 0.913
36 H 0.098 0.902
37 H 0.095 0.905
38 H 0.088 0.912
39 H 0.095 0.905
40 H 0.248 0.752
41 H 0.194 0.806
42 H 0.186 0.814
43 H 0.235 0.765
44 H 0.175 0.825
Dipole moment (debyes) X Y Z Total
from point charges 16.622 -22.472 3.283 28.143
hybrid contribution -0.853 2.108 0.387 2.307
sum 15.769 -20.364 3.670 26.016
Atomic orbital electron populations
1.69891 1.07255 1.26673 1.59710 1.25524 0.96091 1.01360 1.02624
0.85415 0.78950 0.79472 0.78003 1.20756 1.22458 1.16872 1.19018
0.82774 0.93404 1.41265 0.92662 1.42645 1.02330 1.04093 1.90825
1.20722 0.90050 0.87512 0.97870 1.22450 0.93501 0.96344 1.00038
0.89015 1.22554 0.96413 1.00821 0.95657 1.22328 0.95376 0.95859
1.01566 1.22523 0.96873 0.98180 0.98761 1.21625 0.90541 0.83837
0.99216 0.89833 1.46139 1.36439 1.06397 1.46803 1.17903 0.82888
0.82995 0.80349 1.90752 1.33268 1.85025 1.35733 1.20797 1.01098
0.94548 1.03617 1.23079 0.88594 0.98485 0.91164 1.67610 1.27118
0.99009 1.25456 1.19813 0.93752 0.92789 0.93965 1.19873 1.03477
0.89211 1.04937 1.25957 0.99144 1.03698 0.98673 1.84252 1.32674
0.95054 1.46226 1.23797 1.03651 1.01440 1.06272 1.21101 0.95366
0.89317 0.94256 0.93394 0.79931 0.94987 0.96606 0.91708 0.91318
0.90241 0.90485 0.91215 0.90493 0.75218 0.80551 0.81445 0.76455
0.82453
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 -0.98 -63.11 13.97 21.65 0.30 -62.81 16
2 C -0.06 -3.78 5.50 84.86 0.47 -3.31 16
3 Si 0.95 44.70 27.73 68.60 1.90 46.60 16
4 H -0.28 -12.97 7.11 99.48 0.71 -12.26 16
5 H -0.30 -14.21 7.11 99.48 0.71 -13.51 16
6 H -0.24 -10.04 6.52 99.48 0.65 -9.39 16
7 C -0.23 -13.13 10.47 84.04 0.88 -12.25 16
8 H 0.06 3.42 8.06 -2.91 -0.02 3.40 16
9 N -0.75 -33.68 5.30 -343.44 -1.82 -35.50 16
10 C 0.16 5.79 4.73 86.38 0.41 6.20 16
11 C -0.10 -2.75 2.84 -9.72 -0.03 -2.78 16
12 H 0.09 2.42 8.14 -2.38 -0.02 2.40 16
13 C -0.12 -2.73 6.19 31.89 0.20 -2.53 16
14 C -0.11 -2.04 6.83 31.67 0.22 -1.82 16
15 C -0.12 -2.45 6.59 31.32 0.21 -2.24 16
16 C 0.15 3.64 3.12 45.71 0.14 3.79 16
17 H 0.08 2.19 7.56 -2.39 -0.02 2.18 16
18 N -0.71 -17.03 4.30 -442.23 -1.90 -18.93 16
19 C 0.57 15.34 7.77 86.70 0.67 16.02 16
20 O -0.57 -18.11 16.06 -3.99 -0.06 -18.17 16
21 C -0.19 -4.78 5.89 -20.03 -0.12 -4.90 16
22 C 0.16 3.93 10.69 85.33 0.91 4.84 16
23 N -0.48 -12.91 10.39 -188.73 -1.96 -14.87 16
24 C 0.13 3.05 6.97 39.70 0.28 3.33 16
25 C -0.15 -2.40 10.16 21.79 0.22 -2.18 16
26 C -0.14 -1.49 11.08 66.76 0.74 -0.75 16
27 S 0.15 2.14 23.29 -56.49 -1.32 0.83 16
28 C -0.23 -5.02 6.49 22.99 0.15 -4.87 16
29 C 0.03 0.68 9.73 22.88 0.22 0.91 16
30 H 0.26 15.72 8.31 -92.71 -0.77 14.95 16
31 H 0.37 15.56 5.50 -92.71 -0.51 15.05 16
32 H 0.03 1.08 6.41 -2.39 -0.02 1.06 16
33 H 0.02 0.61 8.14 -2.38 -0.02 0.59 16
34 H 0.06 1.61 8.14 -2.38 -0.02 1.59 16
35 H 0.07 1.65 7.96 -2.39 -0.02 1.63 16
36 H 0.08 1.24 8.14 -2.39 -0.02 1.22 16
37 H 0.08 1.25 8.14 -2.39 -0.02 1.23 16
38 H 0.07 1.38 7.92 -2.39 -0.02 1.36 16
39 H 0.08 1.43 8.14 -2.39 -0.02 1.42 16
40 H 0.41 9.16 4.62 -92.71 -0.43 8.73 16
41 H 0.18 3.71 6.41 -2.91 -0.02 3.69 16
42 H 0.17 2.27 8.06 -2.91 -0.02 2.25 16
43 H 0.22 0.52 8.06 -2.91 -0.02 0.50 16
44 H 0.16 3.34 7.72 -2.91 -0.02 3.32 16
Total: -1.00 -74.78 372.26 0.77 -74.01
By element:
Atomic # 1 Polarization: 31.36 SS G_CDS: 0.05 Total: 31.41 kcal
Atomic # 6 Polarization: -8.13 SS G_CDS: 5.57 Total: -2.56 kcal
Atomic # 7 Polarization: -126.74 SS G_CDS: -5.38 Total: -132.12 kcal
Atomic # 8 Polarization: -18.11 SS G_CDS: -0.06 Total: -18.17 kcal
Atomic # 14 Polarization: 44.70 SS G_CDS: 1.90 Total: 46.60 kcal
Atomic # 16 Polarization: 2.14 SS G_CDS: -1.32 Total: 0.83 kcal
Total: -74.78 0.77 -74.01 kcal
The number of atoms in the molecule is 44
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.
ZINC001496896682.mol2 44
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 86.883 kcal
(2) G-P(sol) polarization free energy of solvation -74.778 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 12.105 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.768 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -74.010 kcal
(6) G-S(sol) free energy of system = (1) + (5) 12.873 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.98 seconds