Wall clock time and date at job start Tue Mar 31 2020 11:14:59
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 1.86797 * 120.00127 * 2 1
4 4 H 1.48496 * 109.47223 * 274.98801 * 3 2 1
5 5 H 1.48495 * 109.47033 * 34.98543 * 3 2 1
6 6 H 1.48503 * 109.47084 * 154.98914 * 3 2 1
7 7 C 1.38816 * 120.00091 * 180.02562 * 2 1 3
8 8 H 1.07995 * 120.00398 * 186.84746 * 7 2 1
9 9 N 1.36942 * 119.99858 * 6.84458 * 7 2 1
10 10 C 1.47026 * 125.64773 * 353.98235 * 9 7 2
11 11 C 1.54320 * 107.26860 * 181.02204 * 10 9 7
12 12 C 1.55151 * 102.94359 * 22.19490 * 11 10 9
13 13 H 1.09007 * 111.04051 * 82.58677 * 12 11 10
14 14 C 1.52998 * 111.00466 * 206.41991 * 12 11 10
15 15 N 1.46507 * 109.47339 * 178.64826 * 14 12 11
16 16 C 1.34773 * 119.99674 * 180.02562 * 15 14 12
17 17 O 1.21274 * 120.00637 * 359.97438 * 16 15 14
18 18 C 1.50705 * 119.99279 * 180.02562 * 16 15 14
19 19 H 1.08997 * 110.87044 * 297.96313 * 18 16 15
20 20 C 1.54424 * 110.80791 * 174.48667 * 18 16 15
21 21 C 1.51061 * 105.14722 * 215.61393 * 20 18 16
22 22 C 1.38622 * 131.51719 * 197.04073 * 21 20 18
23 23 C 1.38212 * 119.09735 * 180.02562 * 22 21 20
24 24 N 1.31893 * 120.70916 * 359.95529 * 23 22 21
25 25 C 1.31832 * 121.78505 * 0.03117 * 24 23 22
26 26 C 1.38338 * 120.75656 * 359.97438 * 25 24 23
27 27 C 1.51189 * 131.26509 * 179.97438 * 26 25 24
28 28 C 1.47422 * 125.64999 * 173.93940 * 9 7 2
29 29 H 0.97004 * 119.99889 * 359.97438 * 1 2 3
30 30 H 1.08998 * 109.88125 * 300.44340 * 10 9 7
31 31 H 1.09002 * 109.88167 * 61.44957 * 10 9 7
32 32 H 1.08999 * 110.72109 * 263.82353 * 11 10 9
33 33 H 1.09005 * 110.71835 * 140.56046 * 11 10 9
34 34 H 1.09000 * 109.46873 * 58.65017 * 14 12 11
35 35 H 1.08995 * 109.47496 * 298.65342 * 14 12 11
36 36 H 0.97003 * 119.99368 * 0.02562 * 15 14 12
37 37 H 1.09000 * 110.30474 * 334.53177 * 20 18 16
38 38 H 1.09000 * 110.31002 * 96.59651 * 20 18 16
39 39 H 1.08000 * 120.45199 * 359.97438 * 22 21 20
40 40 H 1.07995 * 119.64861 * 179.97438 * 23 22 21
41 41 H 1.08000 * 119.61817 * 180.02562 * 25 24 23
42 42 H 1.08996 * 110.29370 * 44.02041 * 27 26 25
43 43 H 1.09000 * 110.29539 * 281.88426 * 27 26 25
44 44 H 1.09003 * 110.36273 * 37.07288 * 28 9 7
45 45 H 1.08995 * 110.36741 * 274.74823 * 28 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 1.3161 0.0000 0.0000
3 14 2.2502 1.6177 0.0000
4 1 2.3923 2.1072 -1.3947
5 1 1.5043 2.6199 0.8027
6 1 3.5965 1.4119 0.5919
7 6 2.0102 -1.2022 -0.0005
8 1 3.0844 -1.2056 0.1110
9 7 1.3328 -2.3838 -0.1424
10 6 -0.1293 -2.5345 -0.1774
11 6 -0.4312 -4.0407 -0.3248
12 6 0.8656 -4.7085 0.2038
13 1 0.8575 -4.7721 1.2919
14 6 1.0652 -6.0903 -0.4219
15 7 2.3130 -6.6758 0.0748
16 6 2.6971 -7.8981 -0.3434
17 8 2.0097 -8.5136 -1.1304
18 6 3.9803 -8.5005 0.1680
19 1 4.8370 -7.8909 -0.1194
20 6 4.1449 -9.9506 -0.3365
21 6 4.8107 -10.6907 0.7997
22 6 5.4799 -11.9041 0.8388
23 6 5.9987 -12.3471 2.0409
24 7 5.8627 -11.6288 3.1387
25 6 5.2327 -10.4708 3.1373
26 6 4.6872 -9.9636 1.9715
27 6 3.9283 -8.6845 1.6998
28 6 1.9488 -3.7154 -0.2863
29 1 -0.4850 0.8401 0.0004
30 1 -0.5629 -2.1584 0.7492
31 1 -0.5381 -1.9871 -1.0267
32 1 -0.6000 -4.2996 -1.3701
33 1 -1.2878 -4.3239 0.2868
34 1 1.1154 -5.9943 -1.5065
35 1 0.2288 -6.7353 -0.1527
36 1 2.8626 -6.1836 0.7046
37 1 3.1706 -10.3884 -0.5537
38 1 4.7755 -9.9727 -1.2253
39 1 5.5936 -12.4956 -0.0576
40 1 6.5213 -13.2913 2.0816
41 1 5.1421 -9.9113 4.0566
42 1 4.4119 -7.8447 2.1988
43 1 2.8951 -8.7797 2.0337
44 1 2.8409 -3.7899 0.3357
45 1 2.1959 -3.9083 -1.3302
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
ZINC001028799284.mol2 45
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 11:14:59
Heat of formation + Delta-G solvation = -5.729188 kcal
Electronic energy + Delta-G solvation = -25276.461822 eV
Core-core repulsion = 21678.897895 eV
Total energy + Delta-G solvation = -3597.563927 eV
No. of doubly occupied orbitals = 59
Molecular weight
(most abundant/longest-lived isotopes) = 315.169 amu
Computer time = 0.67 seconds
Orbital eigenvalues (eV)
-41.92887 -40.65366 -39.28197 -37.28353 -36.02921 -34.31267 -32.88546 -31.81426
-31.05407 -29.80555 -28.67601 -27.32477 -25.78248 -24.45432 -22.78000 -22.64525
-21.96028 -21.38284 -20.70223 -18.89096 -18.29217 -17.71179 -17.31577 -16.95373
-16.83150 -16.58555 -15.92866 -15.79419 -15.67204 -15.36191 -14.75860 -14.59305
-14.43293 -14.04907 -13.93524 -13.89786 -13.76673 -13.39623 -13.27400 -13.03301
-12.76359 -12.64828 -12.55562 -12.29328 -12.25565 -11.99858 -11.88195 -11.83253
-11.52777 -11.43379 -10.89289 -10.68425 -10.46861 -10.34627 -10.05583 -9.83129
-8.87797 -7.85717 -5.19769 0.17517 0.28883 1.46340 1.48329 1.56868
1.60781 2.16514 2.50046 2.83080 3.20321 3.33303 3.35056 3.62936
3.64427 3.79237 3.87446 3.94377 4.00977 4.05283 4.06559 4.14063
4.31243 4.47085 4.51211 4.55046 4.63744 4.69996 4.73727 4.81543
4.84017 4.90834 4.94734 4.99458 5.06612 5.08658 5.09656 5.11023
5.39164 5.39784 5.47323 5.50337 5.69374 5.77778 5.78723 6.21306
6.56472 7.03414 7.11077 7.23534 7.79445 8.44058 9.25412
Molecular weight = 315.17amu
Principal moments of inertia in cm(-1)
A = 0.023082 B = 0.002299 C = 0.002178
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1212.772385 B =12177.937188 C =12850.234380
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.951 5.951
2 C -0.069 4.069
3 Si 0.976 3.024
4 H -0.290 1.290
5 H -0.296 1.296
6 H -0.264 1.264
7 C -0.241 4.241
8 H 0.085 0.915
9 N -0.630 5.630
10 C 0.181 3.819
11 C -0.123 4.123
12 C -0.095 4.095
13 H 0.091 0.909
14 C 0.144 3.856
15 N -0.713 5.713
16 C 0.524 3.476
17 O -0.581 6.581
18 C -0.104 4.104
19 H 0.133 0.867
20 C -0.067 4.067
21 C -0.063 4.063
22 C -0.161 4.161
23 C 0.086 3.914
24 N -0.512 5.512
25 C 0.102 3.898
26 C -0.154 4.154
27 C -0.062 4.062
28 C 0.138 3.862
29 H 0.246 0.754
30 H 0.008 0.992
31 H 0.005 0.995
32 H 0.069 0.931
33 H 0.085 0.915
34 H 0.058 0.942
35 H 0.073 0.927
36 H 0.415 0.585
37 H 0.087 0.913
38 H 0.095 0.905
39 H 0.155 0.845
40 H 0.180 0.820
41 H 0.171 0.829
42 H 0.113 0.887
43 H 0.087 0.913
44 H 0.052 0.948
45 H 0.018 0.982
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 10.243 -23.200 3.361 25.582
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 -0.600 5.600
2 C -0.262 4.262
3 Si 0.804 3.196
4 H -0.217 1.217
5 H -0.223 1.223
6 H -0.189 1.189
7 C -0.370 4.370
8 H 0.103 0.897
9 N -0.356 5.356
10 C 0.056 3.944
11 C -0.162 4.162
12 C -0.114 4.114
13 H 0.110 0.890
14 C 0.020 3.980
15 N -0.365 5.365
16 C 0.311 3.689
17 O -0.461 6.461
18 C -0.125 4.125
19 H 0.150 0.850
20 C -0.104 4.104
21 C -0.071 4.071
22 C -0.181 4.181
23 C -0.070 4.070
24 N -0.220 5.220
25 C -0.055 4.055
26 C -0.156 4.156
27 C -0.100 4.100
28 C 0.013 3.987
29 H 0.055 0.945
30 H 0.027 0.973
31 H 0.023 0.977
32 H 0.088 0.912
33 H 0.103 0.897
34 H 0.076 0.924
35 H 0.092 0.908
36 H 0.251 0.749
37 H 0.105 0.895
38 H 0.114 0.886
39 H 0.173 0.827
40 H 0.197 0.803
41 H 0.188 0.812
42 H 0.131 0.869
43 H 0.105 0.895
44 H 0.070 0.930
45 H 0.036 0.964
Dipole moment (debyes) X Y Z Total
from point charges 10.072 -23.728 3.609 26.028
hybrid contribution -0.130 1.829 -0.695 1.961
sum 9.943 -21.898 2.913 24.226
Atomic orbital electron populations
1.70199 1.06384 1.25217 1.58202 1.25683 0.96582 1.01118 1.02782
0.85091 0.78008 0.79325 0.77130 1.21745 1.22311 1.18888 1.19478
0.91695 0.83870 1.41915 0.89704 1.44815 1.02447 1.02552 1.85775
1.20929 0.83994 0.91936 0.97513 1.22715 0.97413 0.94746 1.01337
1.22421 0.95793 0.92502 1.00732 0.89039 1.21149 0.86493 0.92214
0.98190 1.45956 1.24851 1.18034 1.47613 1.20656 0.87069 0.80880
0.80299 1.90691 1.56698 1.62202 1.36506 1.22019 0.96104 0.97508
0.96872 0.84963 1.20892 1.01278 0.92034 0.96222 1.21066 0.95080
0.94627 0.96322 1.21915 0.99198 0.96188 1.00773 1.23160 0.96623
0.99680 0.87499 1.67758 1.15956 1.06895 1.31440 1.22556 0.93066
0.91972 0.97879 1.21613 1.00423 0.98754 0.94834 1.20934 1.00672
0.95342 0.93078 1.21759 0.95348 0.84218 0.97379 0.94487 0.97344
0.97654 0.91210 0.89667 0.92390 0.90825 0.74872 0.89510 0.88633
0.82707 0.80268 0.81235 0.86895 0.89498 0.92993 0.96425
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 -0.95 -57.10 10.36 21.65 0.22 -56.88 16
2 C -0.07 -3.88 5.48 84.86 0.47 -3.41 16
3 Si 0.98 45.20 29.56 68.60 2.03 47.23 16
4 H -0.29 -13.39 7.11 99.48 0.71 -12.69 16
5 H -0.30 -13.85 7.11 99.48 0.71 -13.15 16
6 H -0.26 -11.40 7.11 99.48 0.71 -10.69 16
7 C -0.24 -13.16 10.26 84.03 0.86 -12.30 16
8 H 0.09 4.38 7.84 -2.91 -0.02 4.36 16
9 N -0.63 -31.20 3.39 -692.00 -2.35 -33.55 16
10 C 0.18 8.75 5.38 86.73 0.47 9.22 16
11 C -0.12 -4.18 6.42 31.78 0.20 -3.98 16
12 C -0.09 -2.74 3.10 -9.41 -0.03 -2.77 16
13 H 0.09 2.49 8.14 -2.38 -0.02 2.47 16
14 C 0.14 3.47 5.12 86.38 0.44 3.92 16
15 N -0.71 -14.02 5.35 -463.06 -2.48 -16.50 16
16 C 0.52 11.08 7.06 87.66 0.62 11.70 16
17 O -0.58 -17.10 15.56 -3.01 -0.05 -17.15 16
18 C -0.10 -1.51 3.47 -10.59 -0.04 -1.54 16
19 H 0.13 1.43 8.14 -2.39 -0.02 1.41 16
20 C -0.07 -1.06 6.06 30.45 0.18 -0.88 16
21 C -0.06 -1.00 6.20 -19.60 -0.12 -1.12 16
22 C -0.16 -2.24 10.12 22.36 0.23 -2.01 16
23 C 0.09 1.29 11.19 84.68 0.95 2.24 16
24 N -0.51 -9.69 10.36 -195.74 -2.03 -11.72 16
25 C 0.10 1.68 11.19 84.72 0.95 2.62 16
26 C -0.15 -2.39 6.19 -19.63 -0.12 -2.51 16
27 C -0.06 -0.77 6.26 30.47 0.19 -0.58 16
28 C 0.14 5.04 6.41 86.85 0.56 5.60 16
29 H 0.25 14.39 8.31 -92.71 -0.77 13.62 16
30 H 0.01 0.45 7.54 -2.39 -0.02 0.43 16
31 H 0.01 0.29 7.36 -2.39 -0.02 0.27 16
32 H 0.07 2.24 8.04 -2.39 -0.02 2.22 16
33 H 0.08 2.52 8.14 -2.38 -0.02 2.50 16
34 H 0.06 1.57 8.10 -2.39 -0.02 1.56 16
35 H 0.07 1.73 8.14 -2.39 -0.02 1.71 16
36 H 0.41 6.34 8.33 -92.71 -0.77 5.57 16
37 H 0.09 1.72 7.07 -2.39 -0.02 1.70 16
38 H 0.10 1.30 8.14 -2.39 -0.02 1.28 16
39 H 0.16 1.38 8.06 -2.91 -0.02 1.36 16
40 H 0.18 1.61 8.06 -2.91 -0.02 1.59 16
41 H 0.17 2.03 8.06 -2.91 -0.02 2.01 16
42 H 0.11 0.89 8.14 -2.39 -0.02 0.87 16
43 H 0.09 1.15 7.88 -2.39 -0.02 1.13 16
44 H 0.05 1.72 8.14 -2.39 -0.02 1.70 16
45 H 0.02 0.67 8.00 -2.39 -0.02 0.65 16
Total: -1.00 -73.86 365.45 1.37 -72.49
By element:
Atomic # 1 Polarization: 11.68 SS G_CDS: 0.22 Total: 11.89 kcal
Atomic # 6 Polarization: -1.62 SS G_CDS: 5.80 Total: 4.19 kcal
Atomic # 7 Polarization: -112.02 SS G_CDS: -6.63 Total: -118.65 kcal
Atomic # 8 Polarization: -17.10 SS G_CDS: -0.05 Total: -17.15 kcal
Atomic # 14 Polarization: 45.20 SS G_CDS: 2.03 Total: 47.23 kcal
Total: -73.86 1.37 -72.49 kcal
The number of atoms in the molecule is 45
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.
ZINC001028799284.mol2 45
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 66.758 kcal
(2) G-P(sol) polarization free energy of solvation -73.861 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -7.103 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.374 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.487 kcal
(6) G-S(sol) free energy of system = (1) + (5) -5.729 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.67 seconds