Wall clock time and date at job start Tue Mar 31 2020 14:56:32
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 1.30635 * 1
3 3 Si 1.86791 * 120.00132 * 2 1
4 4 H 1.48498 * 109.47370 * 240.00408 * 3 2 1
5 5 H 1.48506 * 109.47020 * 0.02562 * 3 2 1
6 6 H 1.48505 * 109.47146 * 120.00054 * 3 2 1
7 7 C 1.40270 * 119.99910 * 180.02562 * 2 1 3
8 8 H 1.07998 * 120.00422 * 188.67951 * 7 2 1
9 9 C 1.40897 * 120.00185 * 8.68621 * 7 2 1
10 10 C 1.40710 * 120.32670 * 33.36344 * 9 7 2
11 11 C 1.37591 * 119.88057 * 180.02562 * 10 9 7
12 12 C 1.38828 * 120.57402 * 359.97438 * 11 10 9
13 13 C 1.38224 * 120.67315 * 0.02562 * 12 11 10
14 14 C 1.39226 * 120.09070 * 0.02562 * 13 12 11
15 15 C 1.47439 * 120.27893 * 180.02562 * 14 13 12
16 16 O 1.21607 * 119.99607 * 185.53805 * 15 14 13
17 17 N 1.34772 * 120.00136 * 5.53794 * 15 14 13
18 18 C 1.46496 * 120.00158 * 180.02562 * 17 15 14
19 19 C 1.50695 * 109.47619 * 179.97438 * 18 17 15
20 20 C 1.38284 * 119.98259 * 259.72480 * 19 18 17
21 21 C 1.38213 * 120.13791 * 179.67797 * 20 19 18
22 22 C 1.38282 * 120.14754 * 0.64637 * 21 20 19
23 23 C 1.38510 * 120.02362 * 359.64228 * 22 21 20
24 24 C 1.38502 * 119.98719 * 79.99696 * 19 18 17
25 25 O 1.36500 * 131.53725 * 0.02562 * 24 19 18
26 26 C 1.43987 * 105.48347 * 162.68226 * 25 24 19
27 27 O 1.36496 * 131.53621 * 180.02562 * 23 22 21
28 28 H 0.96995 * 120.00006 * 359.97438 * 1 2 3
29 29 H 1.08004 * 120.05739 * 0.02562 * 10 9 7
30 30 H 1.07999 * 119.71425 * 180.02562 * 11 10 9
31 31 H 1.07995 * 119.66504 * 179.74774 * 12 11 10
32 32 H 1.08002 * 119.95370 * 180.02562 * 13 12 11
33 33 H 0.97007 * 120.00067 * 359.97438 * 17 15 14
34 34 H 1.09008 * 109.47013 * 300.00212 * 18 17 15
35 35 H 1.09009 * 109.47077 * 59.99456 * 18 17 15
36 36 H 1.07995 * 119.93185 * 0.02562 * 20 19 18
37 37 H 1.08002 * 119.92745 * 180.29271 * 21 20 19
38 38 H 1.07994 * 119.98893 * 179.65799 * 22 21 20
39 39 H 1.08999 * 110.57024 * 268.56096 * 26 25 24
40 40 H 1.09008 * 110.69951 * 145.75533 * 26 25 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 1.3063 0.0000 0.0000
3 14 2.2403 1.6176 0.0000
4 1 3.0940 1.6964 -1.2125
5 1 1.2753 2.7464 0.0006
6 1 3.0941 1.6963 1.2125
7 6 2.0077 -1.2148 -0.0005
8 1 3.0784 -1.2203 0.1406
9 6 1.3153 -2.4279 -0.1854
10 6 0.1801 -2.4788 -1.0152
11 6 -0.4893 -3.6683 -1.1887
12 6 -0.0546 -4.8227 -0.5519
13 6 1.0577 -4.7993 0.2684
14 6 1.7555 -3.6106 0.4645
15 6 2.9428 -3.5810 1.3381
16 8 3.4886 -2.5231 1.5865
17 7 3.4231 -4.7263 1.8614
18 6 4.6025 -4.6969 2.7299
19 6 4.9309 -6.0974 3.1790
20 6 4.5512 -6.5265 4.4375
21 6 4.8449 -7.8124 4.8502
22 6 5.5314 -8.6712 4.0114
23 6 5.9200 -8.2462 2.7517
24 6 5.6178 -6.9524 2.3331
25 8 6.1024 -6.7786 1.0689
26 6 7.0583 -7.8378 0.8748
27 8 6.5937 -8.8827 1.7496
28 1 -0.4850 0.8400 0.0004
29 1 -0.1651 -1.5858 -1.5150
30 1 -1.3601 -3.7043 -1.8266
31 1 -0.5935 -5.7475 -0.6953
32 1 1.3860 -5.7044 0.7578
33 1 2.9874 -5.5702 1.6636
34 1 5.4482 -4.2834 2.1803
35 1 4.3966 -4.0751 3.6013
36 1 4.0192 -5.8572 5.0973
37 1 4.5426 -8.1455 5.8321
38 1 5.7643 -9.6737 4.3386
39 1 8.0566 -7.5107 1.1653
40 1 7.0538 -8.1757 -0.1616
RHF calculation, no. of doubly occupied orbitals= 59
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
ZINC001361895264.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 14:56:32
Heat of formation + Delta-G solvation = -66.648417 kcal
Electronic energy + Delta-G solvation = -26431.016408 eV
Core-core repulsion = 22561.770318 eV
Total energy + Delta-G solvation = -3869.246090 eV
No. of doubly occupied orbitals = 59
Molecular weight
(most abundant/longest-lived isotopes) = 325.115 amu
Computer time = 0.74 seconds
Orbital eigenvalues (eV)
-43.18661 -40.74967 -39.18545 -38.46874 -37.37436 -35.90603 -35.34583 -32.57832
-31.72670 -31.04278 -30.92462 -27.72034 -26.84167 -26.73344 -23.99574 -23.90566
-22.92171 -22.42163 -21.15131 -19.46918 -19.06168 -18.67302 -18.40441 -17.80820
-17.18980 -17.11316 -16.74137 -16.02001 -15.96528 -15.56348 -15.47464 -15.27026
-15.01129 -14.78421 -14.48355 -14.27220 -14.04441 -13.95899 -13.70486 -13.62064
-13.35977 -12.99344 -12.84616 -12.77434 -12.52025 -12.31106 -12.07950 -11.93658
-11.86690 -11.49444 -11.14211 -10.38601 -10.01633 -9.78721 -9.40238 -9.24038
-9.09922 -8.67094 -6.36698 0.06241 0.14236 0.51464 1.01759 1.33546
1.45291 1.51617 1.79579 2.21373 2.32948 2.35056 2.50829 2.76965
2.80680 3.28729 3.72063 3.76501 3.80675 3.94831 4.14629 4.20463
4.27346 4.32036 4.36053 4.42000 4.56071 4.57665 4.68627 4.91978
4.96250 5.09558 5.11088 5.24358 5.33328 5.33996 5.41108 5.48936
5.58777 5.61698 5.82292 6.04935 6.09992 6.10713 6.33885 6.62798
6.77713 6.91104 6.99835 7.62768 8.29769
Molecular weight = 325.11amu
Principal moments of inertia in cm(-1)
A = 0.016190 B = 0.003229 C = 0.003023
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1729.069423 B = 8668.895413 C = 9261.473071
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.821 5.821
2 C 0.032 3.968
3 Si 0.980 3.020
4 H -0.258 1.258
5 H -0.258 1.258
6 H -0.273 1.273
7 C -0.458 4.458
8 H 0.081 0.919
9 C 0.116 3.884
10 C -0.177 4.177
11 C -0.091 4.091
12 C -0.237 4.237
13 C -0.055 4.055
14 C -0.282 4.282
15 C 0.561 3.439
16 O -0.578 6.578
17 N -0.723 5.723
18 C 0.172 3.828
19 C -0.097 4.097
20 C -0.092 4.092
21 C -0.097 4.097
22 C -0.092 4.092
23 C 0.011 3.989
24 C 0.027 3.973
25 O -0.330 6.330
26 C 0.204 3.796
27 O -0.320 6.320
28 H 0.290 0.710
29 H 0.103 0.897
30 H 0.121 0.879
31 H 0.132 0.868
32 H 0.125 0.875
33 H 0.402 0.598
34 H 0.050 0.950
35 H 0.076 0.924
36 H 0.156 0.844
37 H 0.178 0.822
38 H 0.162 0.838
39 H 0.102 0.898
40 H 0.155 0.845
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 9.440 -16.628 7.567 20.564
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 -0.448 5.448
2 C -0.183 4.183
3 Si 0.801 3.199
4 H -0.182 1.182
5 H -0.181 1.181
6 H -0.198 1.198
7 C -0.487 4.487
8 H 0.099 0.901
9 C 0.112 3.888
10 C -0.196 4.196
11 C -0.110 4.110
12 C -0.256 4.256
13 C -0.073 4.073
14 C -0.287 4.287
15 C 0.355 3.645
16 O -0.460 6.460
17 N -0.377 5.377
18 C 0.049 3.951
19 C -0.098 4.098
20 C -0.110 4.110
21 C -0.115 4.115
22 C -0.111 4.111
23 C -0.033 4.033
24 C -0.017 4.017
25 O -0.246 6.246
26 C 0.093 3.907
27 O -0.237 6.237
28 H 0.101 0.899
29 H 0.121 0.879
30 H 0.139 0.861
31 H 0.149 0.851
32 H 0.143 0.857
33 H 0.238 0.762
34 H 0.068 0.932
35 H 0.094 0.906
36 H 0.174 0.826
37 H 0.196 0.804
38 H 0.179 0.821
39 H 0.120 0.880
40 H 0.173 0.827
Dipole moment (debyes) X Y Z Total
from point charges 9.651 -15.783 7.527 19.973
hybrid contribution 0.285 0.671 -0.567 0.924
sum 9.936 -15.112 6.960 19.379
Atomic orbital electron populations
1.69735 1.08605 1.30737 1.35682 1.26804 0.95637 1.04328 0.91498
0.85298 0.78890 0.76008 0.79729 1.18245 1.18134 1.19775 1.20143
0.96538 0.91202 1.40783 0.90068 1.17850 0.91110 0.92121 0.87744
1.21336 0.99244 0.97291 1.01765 1.21179 0.98429 0.92859 0.98510
1.20778 1.00837 0.98369 1.05621 1.21019 0.94621 0.95277 0.96399
1.19815 1.02902 0.96797 1.09169 1.18456 0.83810 0.82980 0.79301
1.90644 1.61562 1.31381 1.62379 1.45824 1.31126 1.09232 1.51496
1.19915 0.87855 0.93245 0.94081 1.18988 1.02533 0.94008 0.94276
1.21239 0.98688 0.97564 0.93551 1.21350 0.97028 0.91996 1.01116
1.20568 0.99563 1.02616 0.88317 1.20127 1.00863 0.90070 0.92226
1.19880 1.01663 0.95068 0.85135 1.87431 1.57016 1.52036 1.28127
1.26053 0.92187 0.74534 0.97884 1.87319 1.69771 1.32044 1.34542
0.89927 0.87863 0.86094 0.85061 0.85718 0.76184 0.93156 0.90579
0.82600 0.80438 0.82081 0.88006 0.82747
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 -0.82 -44.50 11.05 21.88 0.24 -44.26 16
2 C 0.03 1.75 5.27 85.36 0.45 2.20 16
3 Si 0.98 42.34 29.57 68.60 2.03 44.37 16
4 H -0.26 -10.80 7.11 99.48 0.71 -10.09 16
5 H -0.26 -10.07 7.11 99.48 0.71 -9.36 16
6 H -0.27 -12.13 7.11 99.48 0.71 -11.43 16
7 C -0.46 -27.05 7.71 23.42 0.18 -26.87 16
8 H 0.08 5.05 5.86 -2.91 -0.02 5.03 16
9 C 0.12 6.56 5.52 -21.11 -0.12 6.44 16
10 C -0.18 -9.35 8.62 22.72 0.20 -9.16 16
11 C -0.09 -4.06 10.01 22.26 0.22 -3.84 16
12 C -0.24 -9.63 10.03 22.41 0.22 -9.41 16
13 C -0.05 -2.31 9.52 22.50 0.21 -2.09 16
14 C -0.28 -14.37 5.92 -19.70 -0.12 -14.49 16
15 C 0.56 27.52 7.72 86.67 0.67 28.19 16
16 O -0.58 -32.65 13.57 -4.05 -0.06 -32.70 16
17 N -0.72 -27.25 5.50 -470.09 -2.58 -29.83 16
18 C 0.17 5.62 5.80 85.63 0.50 6.11 16
19 C -0.10 -2.47 5.26 -19.79 -0.10 -2.57 16
20 C -0.09 -1.69 9.66 22.27 0.22 -1.48 16
21 C -0.10 -1.31 10.04 22.27 0.22 -1.08 16
22 C -0.09 -1.46 10.06 22.35 0.22 -1.24 16
23 C 0.01 0.25 7.15 22.59 0.16 0.41 16
24 C 0.03 0.73 6.85 22.59 0.15 0.88 16
25 O -0.33 -9.23 11.39 -76.05 -0.87 -10.10 16
26 C 0.20 3.83 8.89 113.37 1.01 4.84 16
27 O -0.32 -7.04 11.40 -76.01 -0.87 -7.90 16
28 H 0.29 14.16 8.29 -92.71 -0.77 13.39 16
29 H 0.10 5.66 6.51 -2.91 -0.02 5.64 16
30 H 0.12 4.58 8.06 -2.91 -0.02 4.55 16
31 H 0.13 4.30 8.06 -2.91 -0.02 4.27 16
32 H 0.13 4.28 6.43 -2.91 -0.02 4.26 16
33 H 0.40 13.38 6.53 -92.70 -0.60 12.77 16
34 H 0.05 1.84 8.14 -2.38 -0.02 1.82 16
35 H 0.08 2.42 8.00 -2.38 -0.02 2.41 16
36 H 0.16 2.34 8.03 -2.91 -0.02 2.32 16
37 H 0.18 1.04 8.06 -2.91 -0.02 1.02 16
38 H 0.16 1.66 8.06 -2.91 -0.02 1.63 16
39 H 0.10 1.45 8.14 -2.39 -0.02 1.43 16
40 H 0.16 1.99 8.14 -2.38 -0.02 1.97 16
Total: -1.00 -74.64 344.16 2.70 -71.94
By element:
Atomic # 1 Polarization: 31.14 SS G_CDS: 0.50 Total: 31.64 kcal
Atomic # 6 Polarization: -27.46 SS G_CDS: 4.30 Total: -23.15 kcal
Atomic # 7 Polarization: -71.74 SS G_CDS: -2.34 Total: -74.09 kcal
Atomic # 8 Polarization: -48.92 SS G_CDS: -1.79 Total: -50.70 kcal
Atomic # 14 Polarization: 42.34 SS G_CDS: 2.03 Total: 44.37 kcal
Total: -74.64 2.70 -71.94 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.
ZINC001361895264.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 5.287 kcal
(2) G-P(sol) polarization free energy of solvation -74.635 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -69.348 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.700 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -71.935 kcal
(6) G-S(sol) free energy of system = (1) + (5) -66.648 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.74 seconds