Wall clock time and date at job start Tue Mar 31 2020 22:20:41
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 1.31550 * 1
3 3 Si 1.86803 * 120.00259 * 2 1
4 4 H 1.48501 * 109.47052 * 180.02562 * 3 2 1
5 5 H 1.48500 * 109.46862 * 300.00319 * 3 2 1
6 6 H 1.48501 * 109.46886 * 60.00359 * 3 2 1
7 7 C 1.38657 * 119.99877 * 180.02562 * 2 1 3
8 8 H 1.08003 * 119.99763 * 179.97438 * 7 2 1
9 9 O 1.34830 * 119.99899 * 359.97438 * 7 2 1
10 10 C 1.35751 * 116.99785 * 185.06085 * 9 7 2
11 11 C 1.38898 * 120.07006 * 354.48697 * 10 9 7
12 12 C 1.38082 * 119.93032 * 179.97438 * 11 10 9
13 13 C 1.38322 * 120.06866 * 359.74298 * 12 11 10
14 14 C 1.38279 * 120.13832 * 0.51414 * 13 12 11
15 15 C 1.50699 * 119.96830 * 179.76236 * 14 13 12
16 16 N 1.46503 * 109.47060 * 269.72530 * 15 14 13
17 17 C 1.34777 * 120.00027 * 180.02562 * 16 15 14
18 18 O 1.21510 * 119.99518 * 359.97438 * 17 16 15
19 19 C 1.48236 * 120.00370 * 180.02562 * 17 16 15
20 20 C 1.36485 * 120.34795 * 179.97438 * 19 17 16
21 21 C 1.51462 * 132.04494 * 359.97438 * 20 19 17
22 22 C 1.54031 * 103.05914 * 179.97438 * 21 20 19
23 23 N 1.46436 * 105.13404 * 0.07631 * 22 21 20
24 24 C 1.31198 * 111.73059 * 359.94638 * 23 22 21
25 25 N 1.38251 * 129.20676 * 180.02562 * 24 23 22
26 26 C 1.36135 * 120.86201 * 179.97438 * 25 24 23
27 27 C 1.34736 * 121.27926 * 359.97438 * 26 25 24
28 28 C 1.38124 * 120.06771 * 359.48956 * 14 13 12
29 29 H 0.97008 * 119.99622 * 359.97438 * 1 2 3
30 30 H 1.08001 * 120.03565 * 0.02562 * 11 10 9
31 31 H 1.07997 * 119.96357 * 180.02562 * 12 11 10
32 32 H 1.07996 * 119.93595 * 180.27350 * 13 12 11
33 33 H 1.09003 * 109.47618 * 149.72483 * 15 14 13
34 34 H 1.09003 * 109.46831 * 29.72298 * 15 14 13
35 35 H 0.96996 * 120.00364 * 359.97438 * 16 15 14
36 36 H 1.08999 * 110.70842 * 61.56164 * 21 20 19
37 37 H 1.09002 * 110.75166 * 298.32726 * 21 20 19
38 38 H 1.09001 * 110.33068 * 241.13056 * 22 21 20
39 39 H 1.09007 * 110.32679 * 119.02107 * 22 21 20
40 40 H 0.97006 * 119.56341 * 359.95876 * 25 24 23
41 41 H 1.08002 * 119.35985 * 179.97438 * 26 25 24
42 42 H 1.07999 * 120.06155 * 180.02562 * 27 26 25
43 43 H 1.08007 * 120.03679 * 180.23572 * 28 14 13
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 1.3155 0.0000 0.0000
3 14 2.2496 1.6177 0.0000
4 1 3.7096 1.3463 -0.0006
5 1 1.8908 2.3964 -1.2125
6 1 1.8909 2.3964 1.2126
7 6 2.0088 -1.2008 -0.0005
8 1 3.0888 -1.2008 -0.0010
9 8 1.3346 -2.3685 -0.0005
10 6 2.0699 -3.5046 0.1056
11 6 3.4573 -3.4395 0.0927
12 6 4.2024 -4.5969 0.2014
13 6 3.5686 -5.8198 0.3284
14 6 2.1875 -5.8885 0.3363
15 6 1.5010 -7.2234 0.4695
16 7 1.2715 -7.7896 -0.8621
17 6 0.6662 -8.9869 -0.9901
18 8 0.3111 -9.5970 -0.0010
19 6 0.4345 -9.5601 -2.3374
20 6 -0.1774 -10.7723 -2.4751
21 6 -0.7233 -11.7543 -1.4594
22 6 -1.2675 -12.8969 -2.3374
23 7 -0.9938 -12.4837 -3.7154
24 6 -0.3963 -11.3166 -3.7630
25 7 0.0224 -10.5935 -4.8644
26 6 0.6315 -9.3851 -4.7159
27 6 0.8457 -8.8548 -3.4960
28 6 1.4366 -4.7343 0.2279
29 1 -0.4850 0.8401 0.0004
30 1 3.9527 -2.4845 -0.0015
31 1 5.2811 -4.5469 0.1918
32 1 4.1534 -6.7233 0.4177
33 1 0.5457 -7.0917 0.9778
34 1 2.1303 -7.8995 1.0483
35 1 1.5546 -7.3025 -1.6516
36 1 -1.5250 -11.3005 -0.8768
37 1 0.0710 -12.1163 -0.8066
38 1 -2.3401 -13.0148 -2.1835
39 1 -0.7486 -13.8284 -2.1112
40 1 -0.1195 -10.9520 -5.7545
41 1 0.9493 -8.8409 -5.5931
42 1 1.3304 -7.8943 -3.4011
43 1 0.3579 -4.7882 0.2379
RHF calculation, no. of doubly occupied orbitals= 62
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC001580051900.mol2 43
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 22:20:41
Heat of formation + Delta-G solvation = 25.430550 kcal
Electronic energy + Delta-G solvation = -27395.942697 eV
Core-core repulsion = 23407.444582 eV
Total energy + Delta-G solvation = -3988.498115 eV
No. of doubly occupied orbitals = 62
Molecular weight
(most abundant/longest-lived isotopes) = 339.137 amu
Computer time = 0.78 seconds
Orbital eigenvalues (eV)
-41.30901 -39.58920 -38.96087 -37.26614 -36.84879 -34.60941 -33.86939 -32.37360
-30.86812 -29.82027 -29.34101 -29.11019 -26.59197 -25.40729 -24.44507 -22.57945
-22.20736 -21.74702 -20.85476 -20.54205 -18.17595 -17.90010 -17.54622 -17.25375
-16.64556 -16.02226 -15.92542 -15.54539 -15.36994 -15.03759 -14.51566 -14.44753
-14.05551 -13.96966 -13.65906 -13.58301 -13.53668 -13.22696 -12.78054 -12.46828
-12.40056 -12.31293 -12.03196 -11.92123 -11.71314 -11.42882 -10.99551 -10.86270
-10.74361 -10.63488 -10.49605 -10.33940 -10.06589 -9.77947 -9.44849 -9.05348
-8.93397 -8.29657 -7.47531 -7.37548 -6.53012 -4.12553 0.32928 1.44161
1.84367 2.22089 2.39192 2.62814 3.05932 3.08572 3.14056 3.22748
3.45324 3.89081 4.03274 4.33736 4.45601 4.52813 4.61879 4.75100
4.88152 4.96008 5.02721 5.07433 5.21035 5.28000 5.47768 5.52436
5.69242 5.70175 5.79149 5.81517 5.85704 5.86303 5.94685 6.00445
6.03542 6.20827 6.38479 6.50386 6.52140 6.73991 6.76961 6.95384
7.13782 7.22787 7.31328 7.48454 7.53160 7.66606 7.91089 8.13536
8.92483 9.60740 10.64722
Molecular weight = 339.14amu
Principal moments of inertia in cm(-1)
A = 0.018721 B = 0.002093 C = 0.002024
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1495.295745 B =13373.350160 C =13833.853835
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.860 5.860
2 C 0.040 3.960
3 Si 0.941 3.059
4 H -0.267 1.267
5 H -0.276 1.276
6 H -0.275 1.275
7 C -0.393 4.393
8 H 0.093 0.907
9 O -0.176 6.176
10 C 0.150 3.850
11 C -0.225 4.225
12 C -0.076 4.076
13 C -0.195 4.195
14 C -0.074 4.074
15 C 0.168 3.832
16 N -0.711 5.711
17 C 0.552 3.448
18 O -0.533 6.533
19 C -0.045 4.045
20 C -0.116 4.116
21 C -0.096 4.096
22 C 0.046 3.954
23 N -0.582 5.582
24 C 0.373 3.627
25 N -0.594 5.594
26 C 0.139 3.861
27 C -0.220 4.220
28 C -0.171 4.171
29 H 0.270 0.730
30 H 0.128 0.872
31 H 0.109 0.891
32 H 0.107 0.893
33 H 0.075 0.925
34 H 0.074 0.926
35 H 0.404 0.596
36 H 0.095 0.905
37 H 0.094 0.906
38 H 0.084 0.916
39 H 0.083 0.917
40 H 0.419 0.581
41 H 0.172 0.828
42 H 0.148 0.852
43 H 0.118 0.882
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 3.351 -17.747 -8.557 19.985
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 -0.495 5.495
2 C -0.165 4.165
3 Si 0.766 3.234
4 H -0.191 1.191
5 H -0.201 1.201
6 H -0.201 1.201
7 C -0.469 4.469
8 H 0.110 0.890
9 O -0.079 6.079
10 C 0.096 3.904
11 C -0.244 4.244
12 C -0.094 4.094
13 C -0.214 4.214
14 C -0.075 4.075
15 C 0.045 3.955
16 N -0.362 5.362
17 C 0.338 3.662
18 O -0.411 6.411
19 C -0.054 4.054
20 C -0.123 4.123
21 C -0.134 4.134
22 C -0.085 4.085
23 N -0.308 5.308
24 C 0.104 3.896
25 N -0.210 5.210
26 C 0.014 3.986
27 C -0.246 4.246
28 C -0.191 4.191
29 H 0.080 0.920
30 H 0.146 0.854
31 H 0.127 0.873
32 H 0.125 0.875
33 H 0.094 0.906
34 H 0.093 0.907
35 H 0.240 0.760
36 H 0.113 0.887
37 H 0.112 0.888
38 H 0.102 0.898
39 H 0.101 0.899
40 H 0.255 0.745
41 H 0.189 0.811
42 H 0.165 0.835
43 H 0.136 0.864
Dipole moment (debyes) X Y Z Total
from point charges 2.250 -18.788 -8.327 20.673
hybrid contribution 0.905 1.667 -0.067 1.898
sum 3.155 -17.121 -8.394 19.327
Atomic orbital electron populations
1.70044 1.05981 1.27694 1.45753 1.25304 0.95852 0.98886 0.96452
0.85643 0.79125 0.80312 0.78325 1.19077 1.20106 1.20085 1.21373
0.91822 0.80730 1.53005 0.88962 1.83984 1.34292 1.11419 1.78223
1.19322 0.90258 0.88077 0.92713 1.21252 0.93840 0.99107 1.10231
1.20749 0.98588 0.92248 0.97848 1.20481 0.93314 0.97164 1.10459
1.19246 0.93493 0.92757 1.01970 1.20194 1.00268 0.91466 0.83548
1.46036 1.60112 1.19966 1.10115 1.18309 0.78162 0.81252 0.88433
1.90756 1.50865 1.60479 1.38990 1.19357 0.98488 0.93876 0.93661
1.21476 1.00357 0.95620 0.94800 1.21470 1.01553 0.93699 0.96688
1.22725 1.01371 0.98006 0.86426 1.74021 1.23396 1.11303 1.22079
1.19636 0.92929 0.91456 0.85621 1.41014 1.54162 1.17369 1.08455
1.21560 0.92699 0.84717 0.99651 1.20466 1.10793 1.03120 0.90267
1.20091 0.99452 0.89831 1.09695 0.91969 0.85449 0.87269 0.87476
0.90631 0.90730 0.76020 0.88690 0.88763 0.89836 0.89875 0.74511
0.81088 0.83463 0.86366
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 15.
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 -0.86 -24.51 13.67 55.48 0.76 -23.76 16
2 C 0.04 1.06 5.49 -17.52 -0.10 0.96 16
3 Si 0.94 19.81 29.55 -169.99 -5.02 14.78 16
4 H -0.27 -5.35 7.11 56.52 0.40 -4.95 16
5 H -0.28 -5.68 7.11 56.52 0.40 -5.28 16
6 H -0.28 -5.71 7.11 56.52 0.40 -5.31 16
7 C -0.39 -10.53 9.49 30.89 0.29 -10.24 16
8 H 0.09 2.28 5.20 -52.48 -0.27 2.00 16
9 O -0.18 -4.78 9.76 0.04 0.00 -4.78 16
10 C 0.15 3.39 6.65 -39.11 -0.26 3.13 16
11 C -0.22 -4.52 9.17 -39.39 -0.36 -4.88 16
12 C -0.08 -1.27 10.04 -39.61 -0.40 -1.67 16
13 C -0.19 -3.02 9.70 -39.54 -0.38 -3.40 16
14 C -0.07 -1.19 5.25 -104.65 -0.55 -1.73 16
15 C 0.17 2.34 5.80 -5.19 -0.03 2.31 16
16 N -0.71 -8.87 5.51 -62.30 -0.34 -9.21 16
17 C 0.55 7.46 7.79 -12.15 -0.09 7.36 16
18 O -0.53 -8.68 15.33 5.36 0.08 -8.59 16
19 C -0.05 -0.52 5.86 -105.08 -0.62 -1.13 16
20 C -0.12 -1.38 6.12 -103.63 -0.63 -2.02 16
21 C -0.10 -1.09 5.54 -26.97 -0.15 -1.24 16
22 C 0.05 0.48 7.96 -3.54 -0.03 0.45 16
23 N -0.58 -7.05 11.60 -59.70 -0.69 -7.74 16
24 C 0.37 4.11 8.18 -155.85 -1.28 2.84 16
25 N -0.59 -4.33 5.39 -12.14 -0.07 -4.40 16
26 C 0.14 0.82 11.14 -16.88 -0.19 0.63 16
27 C -0.22 -1.81 9.50 -39.48 -0.38 -2.18 16
28 C -0.17 -3.31 9.65 -39.39 -0.38 -3.69 16
29 H 0.27 7.05 8.31 -40.82 -0.34 6.71 16
30 H 0.13 2.59 5.64 -52.49 -0.30 2.29 16
31 H 0.11 1.52 8.06 -52.49 -0.42 1.10 16
32 H 0.11 1.42 8.06 -52.49 -0.42 0.99 16
33 H 0.08 1.11 8.08 -51.93 -0.42 0.69 16
34 H 0.07 1.00 8.08 -51.93 -0.42 0.59 16
35 H 0.40 4.35 6.55 -40.82 -0.27 4.09 16
36 H 0.09 1.11 8.11 -51.93 -0.42 0.69 16
37 H 0.09 1.07 8.11 -51.93 -0.42 0.65 16
38 H 0.08 0.79 8.14 -51.93 -0.42 0.37 16
39 H 0.08 0.77 8.14 -51.93 -0.42 0.35 16
40 H 0.42 1.97 8.92 -40.82 -0.36 1.60 16
41 H 0.17 0.28 8.06 -52.49 -0.42 -0.14 16
42 H 0.15 0.96 6.48 -52.49 -0.34 0.62 16
43 H 0.12 2.28 8.06 -52.48 -0.42 1.86 16
LS Contribution 367.46 15.07 5.54 5.54
Total: -1.00 -33.57 367.46 -10.16 -43.74
By element:
Atomic # 1 Polarization: 13.82 SS G_CDS: -4.89 Total: 8.92 kcal
Atomic # 6 Polarization: -8.98 SS G_CDS: -5.52 Total: -14.50 kcal
Atomic # 7 Polarization: -44.76 SS G_CDS: -0.34 Total: -45.10 kcal
Atomic # 8 Polarization: -13.46 SS G_CDS: 0.08 Total: -13.38 kcal
Atomic # 14 Polarization: 19.81 SS G_CDS: -5.02 Total: 14.78 kcal
Total LS contribution 5.54 Total: 5.54 kcal
Total: -33.57 -10.16 -43.74 kcal
The number of atoms in the molecule is 43
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.
ZINC001580051900.mol2 43
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 69.168 kcal
(2) G-P(sol) polarization free energy of solvation -33.572 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 35.595 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -10.165 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -43.737 kcal
(6) G-S(sol) free energy of system = (1) + (5) 25.431 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.79 seconds