Wall clock time and date at job start Mon Mar 30 2020 05:18:14
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.
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* 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 C
2 2 C 1.52997 * 1
3 3 C 1.52999 * 109.47317 * 2 1
4 4 H 1.08998 * 109.47565 * 305.00629 * 3 2 1
5 5 C 1.50695 * 109.47581 * 185.00152 * 3 2 1
6 6 H 1.08004 * 120.00025 * 240.00388 * 5 3 2
7 7 C 1.37880 * 120.00044 * 59.99984 * 5 3 2
8 8 N 1.31511 * 120.00046 * 0.02562 * 7 5 3
9 9 Si 1.86798 * 120.00012 * 180.02562 * 7 5 3
10 10 H 1.48504 * 109.47045 * 60.00218 * 9 7 5
11 11 H 1.48500 * 109.47106 * 180.02562 * 9 7 5
12 12 H 1.48503 * 109.47476 * 300.00224 * 9 7 5
13 13 N 1.46504 * 109.46822 * 64.99847 * 3 2 1
14 14 C 1.34773 * 120.00316 * 275.00099 * 13 3 2
15 15 O 1.21283 * 120.00233 * 0.02562 * 14 13 3
16 16 C 1.50697 * 120.00012 * 179.97438 * 14 13 3
17 17 H 1.09000 * 109.47471 * 320.00595 * 16 14 13
18 18 N 1.46902 * 109.47386 * 199.99836 * 16 14 13
19 19 C 1.50704 * 109.46939 * 80.00539 * 16 14 13
20 20 C 1.33395 * 125.20060 * 259.71923 * 19 16 14
21 21 C 1.38427 * 114.91736 * 179.86292 * 20 19 16
22 22 C 1.33386 * 114.92195 * 0.42535 * 21 20 19
23 23 S 1.75880 * 109.59431 * 359.77461 * 22 21 20
24 24 H 1.09002 * 109.47153 * 299.99641 * 1 2 3
25 25 H 1.09001 * 109.46832 * 179.97438 * 1 2 3
26 26 H 1.09004 * 109.47261 * 59.99813 * 1 2 3
27 27 H 1.08996 * 109.47853 * 120.00331 * 2 1 3
28 28 H 1.09002 * 109.47153 * 240.00359 * 2 1 3
29 29 H 0.96998 * 120.00524 * 180.02562 * 8 7 5
30 30 H 0.97003 * 119.99976 * 95.00125 * 13 3 2
31 31 H 1.00895 * 110.99987 * 176.04536 * 18 16 14
32 32 H 1.00898 * 111.00336 * 300.00901 * 18 16 14
33 33 H 1.07997 * 122.54062 * 0.02562 * 20 19 16
34 34 H 1.08002 * 122.53406 * 180.20075 * 21 20 19
35 35 H 1.07995 * 125.19943 * 179.75343 * 22 21 20
Note: An asterisk (*) indicates this parameter was or will be optimized.
Cartesian coordinates (angstroms)
NO. Atom X Y Z
1 6 0.0000 0.0000 0.0000
2 6 1.5300 0.0000 0.0000
3 6 2.0400 1.4425 0.0000
4 1 1.6054 1.9816 -0.8417
5 6 3.5419 1.4443 -0.1239
6 1 4.1472 1.8889 0.6523
7 6 4.1433 0.8785 -1.2280
8 7 3.4062 0.3375 -2.1734
9 14 6.0049 0.8802 -1.3812
10 1 6.5966 0.1453 -0.2344
11 1 6.3978 0.2169 -2.6505
12 1 6.5005 2.2801 -1.3808
13 7 1.6524 2.0974 1.2518
14 6 0.4351 2.6643 1.3670
15 8 -0.3397 2.6319 0.4345
16 6 0.0363 3.3375 2.6549
17 1 0.3958 2.7491 3.4991
18 7 -1.4275 3.4430 2.7195
19 6 0.6420 4.7164 2.7095
20 6 1.7399 5.0475 3.3910
21 6 2.1102 6.3775 3.2898
22 6 1.3081 7.1283 2.5334
23 16 0.0052 6.1368 1.8907
24 1 -0.3633 0.5138 0.8900
25 1 -0.3633 -1.0277 -0.0005
26 1 -0.3634 0.5139 -0.8900
27 1 1.8934 -0.5138 0.8899
28 1 1.8933 -0.5138 -0.8900
29 1 3.8292 -0.0609 -2.9500
30 1 2.2719 2.1231 1.9979
31 1 -1.7234 3.8324 3.6020
32 1 -1.7855 3.9844 1.9470
33 1 2.2991 4.3317 3.9751
34 1 2.9805 6.7777 3.7885
35 1 1.4385 8.1836 2.3448
RHF calculation, no. of doubly occupied orbitals= 47
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).
S: (AM1): M.J.S. DEWAR, Y.-C. YUAN, INORGANIC CHEM., 29, 589 (1990)
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
ZINC000134027141.mol2 35
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Mon Mar 30 2020 05:18:14
Heat of formation + Delta-G solvation = -29.914378 kcal
Electronic energy + Delta-G solvation = -18539.988819 eV
Core-core repulsion = 15663.481820 eV
Total energy + Delta-G solvation = -2876.506999 eV
No. of doubly occupied orbitals = 47
Molecular weight
(most abundant/longest-lived isotopes) = 268.099 amu
Computer time = 0.70 seconds
Orbital eigenvalues (eV)
-40.90173 -38.74959 -37.06146 -35.46348 -34.27275 -32.73642 -30.36966 -29.06641
-26.73869 -25.01198 -24.15500 -21.95373 -21.11064 -20.29401 -19.27877 -18.24978
-17.72616 -17.23134 -16.61777 -16.24561 -15.94324 -15.68808 -15.14368 -14.56151
-14.31312 -14.11398 -13.78773 -13.59720 -13.42337 -13.29250 -13.14575 -12.93344
-12.78140 -12.64219 -12.18082 -12.03788 -11.69609 -11.55976 -11.05358 -10.90202
-10.52274 -9.97106 -9.62727 -9.54432 -9.42162 -8.14968 -6.32369 -0.02096
0.63310 1.05711 1.44453 1.46201 1.53931 1.72378 1.94372 2.35236
2.60952 3.14163 3.67399 3.71651 4.00536 4.21412 4.24953 4.51261
4.60140 4.61088 4.68626 4.79068 5.08776 5.13205 5.28290 5.31220
5.46130 5.53441 5.57608 5.63786 5.80869 5.88129 5.97500 6.18526
6.43759 6.75662 7.01002 7.34626 7.60125 8.90193
Molecular weight = 268.10amu
Principal moments of inertia in cm(-1)
A = 0.019549 B = 0.006244 C = 0.005126
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1431.922799 B = 4483.446210 C = 5460.848999
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.123 4.123
2 C -0.120 4.120
3 C 0.282 3.718
4 H -0.005 1.005
5 C -0.548 4.548
6 H 0.071 0.929
7 C 0.016 3.984
8 N -0.915 5.915
9 Si 0.968 3.032
10 H -0.263 1.263
11 H -0.287 1.287
12 H -0.272 1.272
13 N -0.700 5.700
14 C 0.508 3.492
15 O -0.574 6.574
16 C 0.158 3.842
17 H 0.137 0.863
18 N -0.822 5.822
19 C -0.231 4.231
20 C -0.120 4.120
21 C -0.141 4.141
22 C -0.209 4.209
23 S 0.075 5.925
24 H 0.046 0.954
25 H 0.044 0.956
26 H 0.023 0.977
27 H 0.042 0.958
28 H 0.071 0.929
29 H 0.265 0.735
30 H 0.402 0.598
31 H 0.363 0.637
32 H 0.345 0.655
33 H 0.163 0.837
34 H 0.167 0.833
35 H 0.187 0.813
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -2.677 10.615 14.017 17.786
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 C -0.180 4.180
2 C -0.160 4.160
3 C 0.179 3.821
4 H 0.013 0.987
5 C -0.586 4.586
6 H 0.089 0.911
7 C -0.184 4.184
8 N -0.554 5.554
9 Si 0.792 3.208
10 H -0.188 1.188
11 H -0.212 1.212
12 H -0.198 1.198
13 N -0.349 5.349
14 C 0.293 3.707
15 O -0.454 6.454
16 C 0.041 3.959
17 H 0.155 0.845
18 N -0.354 5.354
19 C -0.351 4.351
20 C -0.151 4.151
21 C -0.171 4.171
22 C -0.345 4.345
23 S 0.339 5.661
24 H 0.065 0.935
25 H 0.063 0.937
26 H 0.042 0.958
27 H 0.060 0.940
28 H 0.089 0.911
29 H 0.074 0.926
30 H 0.236 0.764
31 H 0.179 0.821
32 H 0.159 0.841
33 H 0.181 0.819
34 H 0.184 0.816
35 H 0.204 0.796
Dipole moment (debyes) X Y Z Total
from point charges -4.477 9.974 12.157 16.350
hybrid contribution 2.401 0.674 0.568 2.558
sum -2.076 10.648 12.725 16.722
Atomic orbital electron populations
1.21670 0.96965 0.99052 1.00309 1.21784 0.93715 0.99192 1.01264
1.18315 0.93529 0.89050 0.81248 0.98744 1.21547 0.91450 1.38885
1.06685 0.91072 1.25757 1.03213 0.94414 0.95033 1.70043 1.37114
1.38356 1.09859 0.85466 0.79263 0.78402 0.77622 1.18762 1.21228
1.19771 1.46168 1.15269 1.55898 1.17553 1.20755 0.81867 0.78465
0.89583 1.90647 1.52147 1.60778 1.41786 1.19806 0.89614 0.89930
0.96587 0.84512 1.58542 1.06261 1.61548 1.09096 1.25330 1.04053
0.99192 1.06516 1.20523 0.95858 0.97714 1.01048 1.20504 1.02105
0.93102 1.01402 1.26015 0.99387 1.04744 1.04352 1.84470 1.30087
1.00610 1.50967 0.93517 0.93739 0.95798 0.93971 0.91108 0.92627
0.76396 0.82128 0.84076 0.81942 0.81568 0.79559
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 C -0.12 -5.68 8.51 71.98 0.61 -5.07 16
2 C -0.12 -6.02 5.45 30.59 0.17 -5.85 16
3 C 0.28 14.53 2.24 44.24 0.10 14.63 16
4 H -0.01 -0.33 7.58 -2.39 -0.02 -0.35 16
5 C -0.55 -28.96 8.73 25.60 0.22 -28.74 16
6 H 0.07 3.51 7.74 -2.91 -0.02 3.49 16
7 C 0.02 0.86 5.29 84.66 0.45 1.31 16
8 N -0.92 -52.73 11.29 21.45 0.24 -52.49 16
9 Si 0.97 42.04 29.54 68.60 2.03 44.07 16
10 H -0.26 -10.81 7.11 99.48 0.71 -10.11 16
11 H -0.29 -12.41 7.11 99.48 0.71 -11.70 16
12 H -0.27 -11.57 7.11 99.48 0.71 -10.86 16
13 N -0.70 -28.74 5.02 -446.11 -2.24 -30.97 16
14 C 0.51 19.98 5.63 87.66 0.49 20.47 16
15 O -0.57 -27.37 13.39 -3.04 -0.04 -27.41 16
16 C 0.16 4.42 3.59 43.42 0.16 4.58 16
17 H 0.14 3.10 8.12 -2.39 -0.02 3.08 16
18 N -0.82 -21.65 8.91 -174.95 -1.56 -23.21 16
19 C -0.23 -5.95 5.43 24.59 0.13 -5.82 16
20 C -0.12 -2.61 10.04 21.22 0.21 -2.40 16
21 C -0.14 -2.77 10.18 21.22 0.22 -2.56 16
22 C -0.21 -4.29 11.23 66.72 0.75 -3.54 16
23 S 0.08 1.91 22.54 -56.49 -1.27 0.64 16
24 H 0.05 2.10 5.64 -2.39 -0.01 2.09 16
25 H 0.04 1.82 8.14 -2.39 -0.02 1.80 16
26 H 0.02 1.18 7.85 -2.38 -0.02 1.16 16
27 H 0.04 1.97 8.14 -2.39 -0.02 1.95 16
28 H 0.07 3.95 5.95 -2.39 -0.01 3.94 16
29 H 0.26 14.49 8.31 -92.71 -0.77 13.72 16
30 H 0.40 13.93 8.54 -92.71 -0.79 13.14 16
31 H 0.36 7.09 9.06 -89.70 -0.81 6.28 16
32 H 0.35 9.98 7.91 -89.70 -0.71 9.27 16
33 H 0.16 2.78 8.06 -2.91 -0.02 2.75 16
34 H 0.17 2.33 8.06 -2.91 -0.02 2.31 16
35 H 0.19 2.77 8.06 -2.91 -0.02 2.75 16
Total: -1.00 -67.15 305.48 -0.51 -67.66
By element:
Atomic # 1 Polarization: 35.89 SS G_CDS: -1.18 Total: 34.71 kcal
Atomic # 6 Polarization: -16.50 SS G_CDS: 3.51 Total: -12.99 kcal
Atomic # 7 Polarization: -103.12 SS G_CDS: -3.56 Total: -106.68 kcal
Atomic # 8 Polarization: -27.37 SS G_CDS: -0.04 Total: -27.41 kcal
Atomic # 14 Polarization: 42.04 SS G_CDS: 2.03 Total: 44.07 kcal
Atomic # 16 Polarization: 1.91 SS G_CDS: -1.27 Total: 0.64 kcal
Total: -67.15 -0.51 -67.66 kcal
The number of atoms in the molecule is 35
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.
ZINC000134027141.mol2 35
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 37.745 kcal
(2) G-P(sol) polarization free energy of solvation -67.147 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -29.402 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.512 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.659 kcal
(6) G-S(sol) free energy of system = (1) + (5) -29.914 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.70 seconds