Wall clock time and date at job start Tue Mar 31 2020 02:26:56
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 1.31514 * 1
3 3 Si 1.86802 * 119.99934 * 2 1
4 4 H 1.48498 * 109.47493 * 265.00075 * 3 2 1
5 5 H 1.48501 * 109.47059 * 25.00420 * 3 2 1
6 6 H 1.48496 * 109.46991 * 145.00105 * 3 2 1
7 7 C 1.37881 * 120.00145 * 180.02562 * 2 1 3
8 8 H 1.07998 * 119.99547 * 184.91661 * 7 2 1
9 9 C 1.50697 * 119.99877 * 4.91987 * 7 2 1
10 10 O 1.42904 * 110.88657 * 63.74821 * 9 7 2
11 11 C 1.55158 * 111.00373 * 299.86876 * 9 7 2
12 12 C 1.54428 * 102.89598 * 206.40781 * 11 9 7
13 13 N 1.47024 * 107.28023 * 22.18651 * 12 11 9
14 14 C 1.34778 * 125.65047 * 181.09566 * 13 12 11
15 15 O 1.21276 * 119.99792 * 184.96390 * 14 13 12
16 16 C 1.50701 * 119.99702 * 4.96096 * 14 13 12
17 17 O 1.42895 * 109.54673 * 321.83663 * 16 14 13
18 18 C 1.53177 * 109.54155 * 201.65366 * 16 14 13
19 19 C 1.53104 * 109.15542 * 183.24512 * 18 16 14
20 20 O 1.42895 * 109.48989 * 57.47619 * 19 18 16
21 21 C 1.42904 * 114.09923 * 298.88922 * 20 19 18
22 22 C 1.53096 * 109.41406 * 61.15386 * 21 20 19
23 23 C 1.47430 * 108.70271 * 1.06100 * 13 12 11
24 24 H 0.96999 * 119.99836 * 359.97438 * 1 2 3
25 25 H 0.96695 * 114.00453 * 295.62347 * 10 9 7
26 26 H 1.09002 * 110.71850 * 324.75286 * 11 9 7
27 27 H 1.09002 * 110.72168 * 88.02485 * 11 9 7
28 28 H 1.09002 * 109.87527 * 262.76654 * 12 11 9
29 29 H 1.08998 * 110.00699 * 141.68040 * 12 11 9
30 30 H 0.96703 * 113.99451 * 304.31739 * 17 16 14
31 31 H 1.08998 * 109.52047 * 303.06211 * 18 16 14
32 32 H 1.08996 * 109.51971 * 63.25300 * 18 16 14
33 33 H 1.08998 * 109.40439 * 297.49391 * 19 18 16
34 34 H 1.09004 * 109.48286 * 177.50784 * 19 18 16
35 35 H 1.09000 * 109.48144 * 301.17851 * 21 20 19
36 36 H 1.08999 * 109.48590 * 181.14165 * 21 20 19
37 37 H 1.09007 * 109.52291 * 182.48521 * 22 21 20
38 38 H 1.09003 * 109.57262 * 62.33185 * 22 21 20
39 39 H 1.09002 * 110.36640 * 217.03559 * 23 13 12
40 40 H 1.08997 * 110.36998 * 94.70930 * 23 13 12
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 1.3151 0.0000 0.0000
3 14 2.2491 1.6178 0.0000
4 1 2.6023 1.9855 -1.3947
5 1 1.3977 2.6809 0.5918
6 1 3.4898 1.4730 0.8030
7 6 2.0046 -1.1941 -0.0005
8 1 3.0816 -1.1957 0.0796
9 6 1.2553 -2.4967 -0.1130
10 8 0.5804 -2.5894 -1.3693
11 6 0.2619 -2.6705 1.0661
12 6 0.1316 -4.2047 1.1838
13 7 1.3295 -4.7933 0.5671
14 6 1.5854 -6.1113 0.4493
15 8 2.6492 -6.4849 0.0024
16 6 0.5498 -7.1207 0.8731
17 8 -0.1105 -6.6612 2.0541
18 6 1.2293 -8.4642 1.1556
19 6 0.1612 -9.5034 1.5065
20 8 -0.7782 -9.6023 0.4342
21 6 -1.4783 -8.3876 0.1579
22 6 -0.4764 -7.3040 -0.2492
23 6 2.2040 -3.7030 0.0980
24 1 -0.4850 0.8400 0.0004
25 1 -0.1146 -1.9284 -1.4922
26 1 0.6731 -2.2468 1.9824
27 1 -0.7011 -2.2181 0.8290
28 1 -0.7607 -4.5424 0.6566
29 1 0.0742 -4.4948 2.2329
30 1 0.4880 -6.4630 2.7874
31 1 1.7753 -8.7895 0.2701
32 1 1.9206 -8.3541 1.9911
33 1 -0.3562 -9.1982 2.4160
34 1 0.6349 -10.4722 1.6653
35 1 -2.0171 -8.0676 1.0498
36 1 -2.1858 -8.5524 -0.6547
37 1 -1.0037 -6.3650 -0.4177
38 1 0.0343 -7.6042 -1.1643
39 1 2.6825 -3.9782 -0.8419
40 1 2.9548 -3.4676 0.8523
RHF calculation, no. of doubly occupied orbitals= 54
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
ZINC001299889860.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 02:26:56
Heat of formation + Delta-G solvation = -201.514199 kcal
Electronic energy + Delta-G solvation = -24318.602166 eV
Core-core repulsion = 20711.333410 eV
Total energy + Delta-G solvation = -3607.268756 eV
No. of doubly occupied orbitals = 54
Molecular weight
(most abundant/longest-lived isotopes) = 285.145 amu
Computer time = 0.44 seconds
Orbital eigenvalues (eV)
-41.88864 -40.06483 -38.87303 -37.42235 -36.04392 -34.26871 -33.11125 -32.20410
-31.46145 -30.06161 -27.61907 -26.16370 -24.71177 -23.84986 -21.86972 -21.33958
-20.82922 -19.15955 -18.67526 -17.60902 -17.07773 -17.03174 -16.90947 -16.70447
-16.43114 -16.01079 -15.79034 -15.17579 -15.12235 -14.57755 -14.41596 -13.96885
-13.85679 -13.65285 -13.34096 -13.28120 -13.23239 -13.00916 -12.71238 -12.61743
-12.44905 -12.28980 -12.24650 -11.87203 -11.62641 -11.40030 -11.27310 -10.86381
-10.69957 -10.29067 -10.15406 -9.62947 -8.24130 -6.39647 1.36020 1.41460
1.45013 1.52262 1.91820 2.39153 2.89784 2.99901 3.02981 3.31290
3.57191 3.66910 3.76967 3.93655 4.03257 4.25924 4.30065 4.39051
4.39633 4.47212 4.55058 4.58924 4.69318 4.74426 4.77492 4.89693
4.99159 5.02578 5.14079 5.16764 5.24274 5.45082 5.56536 5.76947
6.07738 6.22564 6.40389 6.58107 6.64053 7.00125 7.28824 7.35287
8.80582
Molecular weight = 285.15amu
Principal moments of inertia in cm(-1)
A = 0.038499 B = 0.004311 C = 0.004171
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 727.119538 B = 6493.702865 C = 6710.841229
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.902 5.902
2 C 0.041 3.959
3 Si 0.957 3.043
4 H -0.280 1.280
5 H -0.278 1.278
6 H -0.273 1.273
7 C -0.565 4.565
8 H 0.052 0.948
9 C 0.235 3.765
10 O -0.592 6.592
11 C -0.126 4.126
12 C 0.118 3.882
13 N -0.598 5.598
14 C 0.492 3.508
15 O -0.586 6.586
16 C 0.141 3.859
17 O -0.538 6.538
18 C -0.161 4.161
19 C 0.070 3.930
20 O -0.399 6.399
21 C 0.074 3.926
22 C -0.140 4.140
23 C 0.122 3.878
24 H 0.270 0.730
25 H 0.376 0.624
26 H 0.060 0.940
27 H 0.076 0.924
28 H 0.065 0.935
29 H 0.095 0.905
30 H 0.394 0.606
31 H 0.071 0.929
32 H 0.090 0.910
33 H 0.072 0.928
34 H 0.114 0.886
35 H 0.071 0.929
36 H 0.112 0.888
37 H 0.082 0.918
38 H 0.074 0.926
39 H 0.043 0.957
40 H 0.073 0.927
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -4.683 -13.218 6.418 15.422
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 -0.540 5.540
2 C -0.161 4.161
3 Si 0.782 3.218
4 H -0.206 1.206
5 H -0.203 1.203
6 H -0.197 1.197
7 C -0.603 4.603
8 H 0.071 0.929
9 C 0.195 3.805
10 O -0.400 6.400
11 C -0.164 4.164
12 C -0.004 4.004
13 N -0.329 5.329
14 C 0.280 3.720
15 O -0.467 6.467
16 C 0.097 3.903
17 O -0.346 6.346
18 C -0.200 4.200
19 C -0.007 4.007
20 O -0.318 6.318
21 C -0.002 4.002
22 C -0.178 4.178
23 C 0.000 4.000
24 H 0.080 0.920
25 H 0.224 0.776
26 H 0.079 0.921
27 H 0.094 0.906
28 H 0.084 0.916
29 H 0.113 0.887
30 H 0.244 0.756
31 H 0.090 0.910
32 H 0.109 0.891
33 H 0.090 0.910
34 H 0.132 0.868
35 H 0.089 0.911
36 H 0.130 0.870
37 H 0.101 0.899
38 H 0.092 0.908
39 H 0.062 0.938
40 H 0.091 0.909
Dipole moment (debyes) X Y Z Total
from point charges -4.427 -14.120 5.656 15.842
hybrid contribution 0.997 2.218 0.138 2.435
sum -3.430 -11.902 5.794 13.675
Atomic orbital electron populations
1.69851 1.06525 1.28289 1.49329 1.25555 0.95810 1.01815 0.92964
0.85600 0.78759 0.79231 0.78175 1.20599 1.20269 1.19734 1.21631
0.93798 0.91885 1.53007 0.92948 1.19756 0.88788 0.90532 0.81430
1.86152 1.54881 1.59301 1.39679 1.23019 1.01286 0.92622 0.99518
1.22288 0.86236 0.93430 0.98453 1.48726 1.22405 1.04668 1.57150
1.21812 0.88651 0.82658 0.78846 1.90648 1.27533 1.79875 1.48639
1.21169 0.90462 0.90754 0.87943 1.86566 1.37673 1.87635 1.22740
1.22636 0.99424 0.94000 1.03938 1.22645 0.88914 0.99387 0.89731
1.87896 1.55694 1.33723 1.54473 1.22552 0.92731 0.82842 1.02096
1.22186 0.97614 1.02006 0.96036 1.22179 0.93482 0.86499 0.97880
0.92011 0.77594 0.92117 0.90582 0.91634 0.88685 0.75574 0.91049
0.89148 0.91024 0.86814 0.91114 0.86971 0.89930 0.90761 0.93821
0.90908
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 -0.90 -45.23 10.78 21.45 0.23 -45.00 16
2 C 0.04 2.05 5.30 84.66 0.45 2.50 16
3 Si 0.96 40.71 29.54 68.60 2.03 42.74 16
4 H -0.28 -12.00 7.11 99.48 0.71 -11.29 16
5 H -0.28 -11.40 7.11 99.48 0.71 -10.69 16
6 H -0.27 -11.50 7.11 99.48 0.71 -10.79 16
7 C -0.57 -29.42 8.27 25.60 0.21 -29.21 16
8 H 0.05 2.76 7.79 -2.91 -0.02 2.74 16
9 C 0.23 11.22 0.87 -10.15 -0.01 11.21 16
10 O -0.59 -29.87 13.16 -148.98 -1.96 -31.83 16
11 C -0.13 -5.23 5.25 31.82 0.17 -5.06 16
12 C 0.12 3.95 5.51 86.76 0.48 4.43 16
13 N -0.60 -22.60 3.33 -811.57 -2.70 -25.30 16
14 C 0.49 17.64 6.75 87.66 0.59 18.23 16
15 O -0.59 -25.22 16.29 -3.02 -0.05 -25.27 16
16 C 0.14 3.68 0.68 -11.42 -0.01 3.68 16
17 O -0.54 -11.32 9.24 -148.98 -1.38 -12.70 16
18 C -0.16 -3.69 4.70 30.69 0.14 -3.55 16
19 C 0.07 1.28 6.69 72.02 0.48 1.76 16
20 O -0.40 -9.03 10.77 -148.98 -1.60 -10.63 16
21 C 0.07 1.53 6.70 72.01 0.48 2.01 16
22 C -0.14 -3.60 5.13 30.69 0.16 -3.44 16
23 C 0.12 5.49 6.07 86.85 0.53 6.02 16
24 H 0.27 12.95 8.31 -92.71 -0.77 12.18 16
25 H 0.38 18.71 7.89 -74.06 -0.58 18.12 16
26 H 0.06 2.57 8.03 -2.39 -0.02 2.55 16
27 H 0.08 3.34 7.41 -2.39 -0.02 3.33 16
28 H 0.07 2.15 7.12 -2.39 -0.02 2.13 16
29 H 0.10 2.58 6.55 -2.39 -0.02 2.56 16
30 H 0.39 6.12 8.58 -74.06 -0.64 5.48 16
31 H 0.07 1.95 7.78 -2.39 -0.02 1.93 16
32 H 0.09 1.83 8.14 -2.39 -0.02 1.81 16
33 H 0.07 1.14 7.82 -2.39 -0.02 1.12 16
34 H 0.11 1.65 8.14 -2.39 -0.02 1.63 16
35 H 0.07 1.36 7.82 -2.39 -0.02 1.34 16
36 H 0.11 1.92 8.14 -2.39 -0.02 1.91 16
37 H 0.08 2.22 7.12 -2.38 -0.02 2.21 16
38 H 0.07 2.09 8.14 -2.39 -0.02 2.07 16
39 H 0.04 2.14 8.09 -2.39 -0.02 2.12 16
40 H 0.07 3.20 8.03 -2.39 -0.02 3.18 16
Total: -1.00 -61.87 317.25 -1.91 -63.78
By element:
Atomic # 1 Polarization: 35.78 SS G_CDS: -0.15 Total: 35.63 kcal
Atomic # 6 Polarization: 4.91 SS G_CDS: 3.67 Total: 8.58 kcal
Atomic # 7 Polarization: -67.83 SS G_CDS: -2.47 Total: -70.30 kcal
Atomic # 8 Polarization: -75.44 SS G_CDS: -4.99 Total: -80.43 kcal
Atomic # 14 Polarization: 40.71 SS G_CDS: 2.03 Total: 42.74 kcal
Total: -61.87 -1.91 -63.78 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.
ZINC001299889860.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 -137.731 kcal
(2) G-P(sol) polarization free energy of solvation -61.873 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -199.605 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.909 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -63.783 kcal
(6) G-S(sol) free energy of system = (1) + (5) -201.514 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.44 seconds