Wall clock time and date at job start Tue Mar 31 2020 02:25:38
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 1.31619 * 1
3 3 Si 1.86802 * 119.99828 * 2 1
4 4 H 1.48502 * 109.47157 * 180.02562 * 3 2 1
5 5 H 1.48495 * 109.47233 * 300.00288 * 3 2 1
6 6 H 1.48506 * 109.47111 * 60.00491 * 3 2 1
7 7 C 1.38807 * 120.00188 * 180.02562 * 2 1 3
8 8 H 1.08000 * 120.00170 * 194.54110 * 7 2 1
9 9 N 1.36935 * 120.00447 * 14.53639 * 7 2 1
10 10 C 1.43458 * 118.94752 * 205.20522 * 9 7 2
11 11 C 1.53797 * 107.96008 * 273.62986 * 10 9 7
12 12 C 1.47141 * 111.83996 * 281.66708 * 11 10 9
13 13 N 1.48298 * 110.34143 * 58.28951 * 12 11 10
14 14 C 1.34779 * 119.97972 * 102.51127 * 13 12 11
15 15 O 1.21280 * 120.00496 * 359.97438 * 14 13 12
16 16 C 1.50700 * 119.99452 * 179.97438 * 14 13 12
17 17 H 1.08997 * 110.50988 * 319.30503 * 16 14 13
18 18 C 1.54096 * 110.56077 * 82.04133 * 16 14 13
19 19 O 1.46054 * 103.84229 * 118.53218 * 18 16 14
20 20 C 1.33764 * 109.50865 * 0.11801 * 19 18 16
21 21 O 1.21515 * 123.07428 * 179.88250 * 20 19 18
22 22 N 1.34011 * 113.86049 * 359.92216 * 20 19 18
23 23 C 1.43619 * 120.04483 * 282.49477 * 13 12 11
24 24 C 1.48863 * 118.93556 * 25.18166 * 9 7 2
25 25 H 0.97002 * 120.00083 * 359.97438 * 1 2 3
26 26 H 1.09004 * 109.76666 * 154.00809 * 10 9 7
27 27 H 1.09006 * 109.80237 * 33.26593 * 10 9 7
28 28 H 1.08994 * 109.00880 * 42.27763 * 11 10 9
29 29 H 1.09001 * 109.00754 * 161.06406 * 11 10 9
30 30 H 1.09000 * 109.32780 * 178.56630 * 12 11 10
31 31 H 1.08998 * 109.32877 * 298.03518 * 12 11 10
32 32 H 1.08999 * 110.52196 * 237.20100 * 18 16 14
33 33 H 1.08995 * 110.52672 * 359.94181 * 18 16 14
34 34 H 0.96994 * 125.55919 * 179.97438 * 22 20 19
35 35 H 1.08997 * 108.87588 * 329.88155 * 23 13 12
36 36 H 1.08993 * 108.87623 * 211.44065 * 23 13 12
37 37 H 1.09005 * 109.47941 * 260.60495 * 24 9 7
38 38 H 1.09001 * 109.47823 * 20.62374 * 24 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 1.3162 0.0000 0.0000
3 14 2.2502 1.6178 0.0000
4 1 3.7102 1.3465 -0.0006
5 1 1.8914 2.3965 -1.2124
6 1 1.8915 2.3964 1.2126
7 6 2.0103 -1.2021 -0.0005
8 1 3.0643 -1.2172 0.2343
9 7 1.3586 -2.3689 -0.2987
10 6 1.8799 -3.6049 0.2099
11 6 2.9383 -4.1169 -0.7816
12 6 2.3242 -4.7512 -1.9587
13 7 1.4301 -3.7932 -2.6529
14 6 1.8416 -3.1862 -3.7838
15 8 2.9429 -3.4232 -4.2331
16 6 0.9331 -2.2130 -4.4899
17 1 -0.0936 -2.5790 -4.4885
18 6 1.0128 -0.8224 -3.8307
19 8 1.5117 0.0418 -4.8972
20 6 1.7010 -0.6815 -6.0065
21 8 2.1108 -0.2054 -7.0467
22 7 1.3964 -1.9789 -5.8662
23 6 0.1260 -3.5119 -2.1213
24 6 0.1316 -2.3140 -1.1398
25 1 -0.4850 0.8401 0.0004
26 1 1.0755 -4.3350 0.3001
27 1 2.3380 -3.4390 1.1850
28 1 3.5522 -3.2783 -1.1100
29 1 3.5743 -4.8446 -0.2776
30 1 3.1076 -5.0751 -2.6438
31 1 1.7457 -5.6185 -1.6405
32 1 0.0251 -0.4975 -3.5036
33 1 1.7087 -0.8363 -2.9921
34 1 1.4692 -2.6536 -6.5592
35 1 -0.2393 -4.3952 -1.5974
36 1 -0.5505 -3.2887 -2.9462
37 1 -0.7499 -2.3637 -0.5005
38 1 0.1192 -1.3815 -1.7040
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).
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
ZINC000981071580.mol2 38
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 02:25:38
Heat of formation + Delta-G solvation = -85.264202 kcal
Electronic energy + Delta-G solvation = -24437.503365 eV
Core-core repulsion = 20894.879817 eV
Total energy + Delta-G solvation = -3542.623548 eV
No. of doubly occupied orbitals = 53
Molecular weight
(most abundant/longest-lived isotopes) = 283.136 amu
Computer time = 0.47 seconds
Orbital eigenvalues (eV)
-42.96983 -40.98941 -38.67108 -38.35724 -36.00338 -35.85946 -34.37625 -32.71772
-30.81946 -29.27826 -27.36202 -25.63802 -25.29424 -23.61912 -23.37979 -21.43889
-20.23888 -19.40880 -19.08174 -18.48478 -17.84879 -17.50105 -17.15255 -16.72129
-16.15096 -15.73860 -15.56703 -15.45697 -15.22194 -15.00758 -14.73770 -14.36369
-13.98667 -13.90194 -13.43165 -13.25368 -13.07499 -12.85429 -12.49758 -12.31217
-12.10981 -12.02809 -11.99903 -11.67027 -11.63266 -11.48749 -11.35311 -10.51879
-10.27229 -9.59819 -8.57987 -7.83382 -5.23443 1.32501 1.34313 1.41212
1.50445 1.53367 1.59025 1.96106 2.49273 2.52580 3.02119 3.24282
3.31106 3.60697 3.79943 3.89913 4.14512 4.27724 4.29449 4.36715
4.49191 4.56672 4.63920 4.80235 4.88101 4.98645 5.08732 5.30415
5.34063 5.52023 5.62680 5.67937 5.78905 5.81889 6.01373 6.41847
6.45438 6.85940 7.06478 7.24671 8.01666 8.36774 9.20178
Molecular weight = 283.14amu
Principal moments of inertia in cm(-1)
A = 0.013682 B = 0.009286 C = 0.006453
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2045.931597 B = 3014.636649 C = 4337.954721
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.917 5.917
2 C -0.022 4.022
3 Si 0.924 3.076
4 H -0.286 1.286
5 H -0.289 1.289
6 H -0.293 1.293
7 C -0.252 4.252
8 H 0.046 0.954
9 N -0.604 5.604
10 C 0.158 3.842
11 C -0.157 4.157
12 C 0.127 3.873
13 N -0.572 5.572
14 C 0.504 3.496
15 O -0.576 6.576
16 C 0.087 3.913
17 H 0.176 0.824
18 C 0.057 3.943
19 O -0.344 6.344
20 C 0.648 3.352
21 O -0.566 6.566
22 N -0.692 5.692
23 C 0.075 3.925
24 C 0.154 3.846
25 H 0.251 0.749
26 H 0.063 0.937
27 H 0.031 0.969
28 H 0.025 0.975
29 H 0.082 0.918
30 H 0.071 0.929
31 H 0.105 0.895
32 H 0.145 0.855
33 H 0.094 0.906
34 H 0.448 0.552
35 H 0.097 0.903
36 H 0.107 0.893
37 H 0.029 0.971
38 H 0.066 0.934
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -5.109 -11.829 -4.278 13.577
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 -0.563 5.563
2 C -0.219 4.219
3 Si 0.755 3.245
4 H -0.211 1.211
5 H -0.216 1.216
6 H -0.220 1.220
7 C -0.383 4.383
8 H 0.064 0.936
9 N -0.326 5.326
10 C 0.031 3.969
11 C -0.198 4.198
12 C 0.006 3.994
13 N -0.302 5.302
14 C 0.290 3.710
15 O -0.456 6.456
16 C -0.022 4.022
17 H 0.193 0.807
18 C -0.017 4.017
19 O -0.254 6.254
20 C 0.401 3.599
21 O -0.455 6.455
22 N -0.365 5.365
23 C -0.050 4.050
24 C 0.029 3.971
25 H 0.061 0.939
26 H 0.081 0.919
27 H 0.049 0.951
28 H 0.044 0.956
29 H 0.101 0.899
30 H 0.089 0.911
31 H 0.123 0.877
32 H 0.163 0.837
33 H 0.112 0.888
34 H 0.294 0.706
35 H 0.115 0.885
36 H 0.125 0.875
37 H 0.047 0.953
38 H 0.084 0.916
Dipole moment (debyes) X Y Z Total
from point charges -4.433 -11.248 -4.835 13.021
hybrid contribution 0.897 1.095 0.263 1.440
sum -3.536 -10.153 -4.572 11.683
Atomic orbital electron populations
1.70055 1.05038 1.25304 1.55940 1.25162 0.95771 0.99044 1.01907
0.85886 0.78604 0.83011 0.77029 1.21138 1.21595 1.22043 1.19240
0.91627 0.86307 1.41094 0.93610 1.43865 1.29535 1.01971 1.57234
1.20428 0.94739 0.87806 0.93943 1.21691 1.00113 0.99916 0.98053
1.20734 0.94141 0.91067 0.93411 1.47535 1.17639 1.42137 1.22895
1.20722 0.87177 0.81241 0.81834 1.90691 1.22632 1.64494 1.67751
1.22544 1.01877 0.95499 0.82265 0.80695 1.24678 1.04157 0.84886
0.87977 1.87338 1.79466 1.36726 1.21854 1.18606 0.76447 0.81673
0.83189 1.91004 1.52198 1.75306 1.26970 1.45535 1.69068 1.08781
1.13096 1.22371 0.82806 1.00788 0.99041 1.22074 0.87550 0.96140
0.91318 0.93910 0.91875 0.95073 0.95646 0.89916 0.91088 0.87738
0.83731 0.88788 0.70649 0.88465 0.87513 0.95306 0.91582
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 -0.92 -45.79 10.91 21.65 0.24 -45.55 16
2 C -0.02 -1.10 4.95 84.86 0.42 -0.68 16
3 Si 0.92 42.89 29.58 68.60 2.03 44.92 16
4 H -0.29 -13.50 7.11 99.48 0.71 -12.79 16
5 H -0.29 -13.59 7.11 99.48 0.71 -12.88 16
6 H -0.29 -13.72 7.11 99.48 0.71 -13.01 16
7 C -0.25 -12.31 9.27 84.03 0.78 -11.53 16
8 H 0.05 2.38 7.87 -2.91 -0.02 2.36 16
9 N -0.60 -24.44 2.54 -698.06 -1.77 -26.22 16
10 C 0.16 5.28 5.63 87.21 0.49 5.78 16
11 C -0.16 -4.69 5.64 29.04 0.16 -4.52 16
12 C 0.13 3.20 5.70 84.21 0.48 3.68 16
13 N -0.57 -15.01 2.46 -831.00 -2.04 -17.05 16
14 C 0.50 15.03 6.79 87.66 0.59 15.62 16
15 O -0.58 -21.74 16.02 -3.03 -0.05 -21.79 16
16 C 0.09 2.13 3.33 44.50 0.15 2.27 16
17 H 0.18 2.47 6.39 -2.39 -0.02 2.46 16
18 C 0.06 1.78 6.11 72.35 0.44 2.22 16
19 O -0.34 -12.76 11.10 -47.25 -0.52 -13.28 16
20 C 0.65 23.18 9.16 129.91 1.19 24.37 16
21 O -0.57 -23.95 18.04 19.64 0.35 -23.60 16
22 N -0.69 -18.48 5.64 -573.41 -3.24 -21.72 16
23 C 0.07 1.68 5.00 87.55 0.44 2.12 16
24 C 0.15 5.31 4.96 86.56 0.43 5.74 16
25 H 0.25 12.43 8.31 -92.71 -0.77 11.66 16
26 H 0.06 1.77 7.59 -2.38 -0.02 1.75 16
27 H 0.03 1.13 8.02 -2.38 -0.02 1.11 16
28 H 0.02 0.97 7.91 -2.39 -0.02 0.95 16
29 H 0.08 2.05 8.14 -2.39 -0.02 2.03 16
30 H 0.07 1.94 7.13 -2.39 -0.02 1.93 16
31 H 0.10 1.88 8.06 -2.39 -0.02 1.86 16
32 H 0.15 3.81 7.42 -2.39 -0.02 3.79 16
33 H 0.09 3.62 7.31 -2.39 -0.02 3.61 16
34 H 0.45 9.75 8.96 -92.71 -0.83 8.92 16
35 H 0.10 1.77 7.73 -2.39 -0.02 1.75 16
36 H 0.11 1.61 5.93 -2.39 -0.01 1.60 16
37 H 0.03 1.10 8.00 -2.38 -0.02 1.08 16
38 H 0.07 2.47 3.58 -2.39 -0.01 2.46 16
Total: -1.00 -69.43 302.49 0.85 -68.59
By element:
Atomic # 1 Polarization: 10.37 SS G_CDS: 0.27 Total: 10.64 kcal
Atomic # 6 Polarization: 39.48 SS G_CDS: 5.58 Total: 45.06 kcal
Atomic # 7 Polarization: -103.72 SS G_CDS: -6.81 Total: -110.54 kcal
Atomic # 8 Polarization: -58.45 SS G_CDS: -0.22 Total: -58.67 kcal
Atomic # 14 Polarization: 42.89 SS G_CDS: 2.03 Total: 44.92 kcal
Total: -69.43 0.85 -68.59 kcal
The number of atoms in the molecule is 38
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.
ZINC000981071580.mol2 38
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 -16.676 kcal
(2) G-P(sol) polarization free energy of solvation -69.435 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -86.111 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.847 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.588 kcal
(6) G-S(sol) free energy of system = (1) + (5) -85.264 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.48 seconds