Wall clock time and date at job start Mon Mar 30 2020 06:42:20
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 1.53000 * 1
3 3 C 1.53002 * 109.47025 * 2 1
4 4 N 1.46899 * 109.46867 * 119.99783 * 2 1 3
5 5 C 1.46896 * 110.99865 * 176.69487 * 4 2 1
6 6 C 1.50701 * 109.47316 * 293.95472 * 5 4 2
7 7 H 1.08007 * 119.99827 * 359.97438 * 6 5 4
8 8 C 1.37873 * 120.00504 * 180.02562 * 6 5 4
9 9 N 1.31523 * 119.99716 * 0.02562 * 8 6 5
10 10 Si 1.86794 * 120.00441 * 179.97438 * 8 6 5
11 11 H 1.48504 * 109.46828 * 0.02562 * 10 8 6
12 12 H 1.48502 * 109.47303 * 119.99932 * 10 8 6
13 13 H 1.48497 * 109.47606 * 240.00043 * 10 8 6
14 14 C 1.38765 * 111.00041 * 300.64497 * 4 2 1
15 15 N 1.30421 * 126.38851 * 355.16311 * 14 4 2
16 16 O 1.41334 * 109.63247 * 179.97438 * 15 14 4
17 17 C 1.34877 * 109.48425 * 0.02562 * 16 15 14
18 18 C 1.38986 * 133.32375 * 180.02562 * 17 16 15
19 19 C 1.37822 * 119.79483 * 179.97438 * 18 17 16
20 20 C 1.38738 * 120.57452 * 0.02562 * 19 18 17
21 21 C 1.36689 * 120.47662 * 359.74749 * 20 19 18
22 22 C 1.39502 * 119.81028 * 0.49353 * 21 20 19
23 23 H 1.09009 * 109.47436 * 300.00122 * 1 2 3
24 24 H 1.09001 * 109.47547 * 60.00076 * 1 2 3
25 25 H 1.09003 * 109.47237 * 180.02562 * 1 2 3
26 26 H 1.08999 * 109.46892 * 239.99791 * 2 1 3
27 27 H 1.09003 * 109.46808 * 184.93528 * 3 2 1
28 28 H 1.08998 * 109.46712 * 304.92890 * 3 2 1
29 29 H 1.09000 * 109.47327 * 64.92881 * 3 2 1
30 30 H 1.09001 * 109.47652 * 53.95384 * 5 4 2
31 31 H 1.09001 * 109.47776 * 173.95369 * 5 4 2
32 32 H 0.97001 * 119.99788 * 180.02562 * 9 8 6
33 33 H 1.08002 * 120.10156 * 0.02562 * 18 17 16
34 34 H 1.08006 * 119.71151 * 179.97438 * 19 18 17
35 35 H 1.07999 * 119.76147 * 179.97438 * 20 19 18
36 36 H 1.08004 * 120.08798 * 180.02562 * 21 20 19
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 7 2.0196 -0.6925 1.1995
5 6 3.4859 -0.7809 1.1946
6 6 3.9319 -1.6683 0.0611
7 1 3.1992 -2.1217 -0.5902
8 6 5.2750 -1.9024 -0.1438
9 7 6.1672 -1.3516 0.6503
10 14 5.8278 -3.0030 -1.5483
11 1 4.6384 -3.4959 -2.2884
12 1 6.6982 -2.2297 -2.4700
13 1 6.5860 -4.1577 -1.0035
14 6 1.5628 -0.0716 2.3534
15 7 0.8742 1.0342 2.4163
16 8 0.5965 1.3445 3.7669
17 6 1.1323 0.3985 4.5652
18 6 1.1579 0.2158 5.9427
19 6 1.8024 -0.8793 6.4765
20 6 2.4273 -1.8023 5.6504
21 6 2.4088 -1.6421 4.2930
22 6 1.7661 -0.5374 3.7338
23 1 -0.3634 0.5139 0.8900
24 1 -0.3634 0.5138 -0.8900
25 1 -0.3634 -1.0277 0.0005
26 1 1.8933 -0.5139 -0.8900
27 1 3.1264 1.4438 -0.0884
28 1 1.6063 1.9811 -0.8425
29 1 1.7505 1.9303 0.9308
30 1 3.9096 0.2149 1.0646
31 1 3.8279 -1.2005 2.1407
32 1 7.1122 -1.5160 0.5058
33 1 0.6736 0.9294 6.5929
34 1 1.8218 -1.0197 7.5472
35 1 2.9288 -2.6555 6.0827
36 1 2.8969 -2.3647 3.6558
RHF calculation, no. of doubly occupied orbitals= 48
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
ZINC000310209575.mol2 36
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 06:42:20
Heat of formation + Delta-G solvation = 62.100511 kcal
Electronic energy + Delta-G solvation = -19726.973231 eV
Core-core repulsion = 16792.615530 eV
Total energy + Delta-G solvation = -2934.357702 eV
No. of doubly occupied orbitals = 48
Molecular weight
(most abundant/longest-lived isotopes) = 260.127 amu
Computer time = 0.43 seconds
Orbital eigenvalues (eV)
-42.79138 -39.85070 -38.54531 -35.08970 -34.05052 -32.55285 -31.39524 -30.85523
-28.83522 -28.04765 -24.56602 -24.26612 -23.48988 -23.22649 -20.47315 -18.67027
-18.45703 -17.97348 -17.08657 -16.69002 -16.39565 -16.25823 -15.95768 -15.20021
-15.08692 -14.76384 -14.40645 -14.19681 -13.69810 -13.39175 -13.23439 -13.14662
-13.02849 -12.78764 -12.73423 -12.64465 -12.26849 -12.06799 -11.95182 -11.82766
-11.45503 -11.27839 -10.69255 -9.94889 -9.79959 -9.26402 -8.27441 -6.38575
-0.30376 0.33660 1.05512 1.41674 1.43091 1.55720 1.65571 2.35744
2.56208 2.70378 3.07442 3.34264 3.59080 3.70256 4.04694 4.12223
4.12535 4.30376 4.38845 4.48436 4.55978 4.67481 4.76650 4.79454
4.92064 4.92986 5.00033 5.05068 5.18478 5.31305 5.33622 5.34932
5.44971 5.57180 5.65074 5.87298 5.88212 6.32871 6.41935 6.72878
7.30791 8.84154
Molecular weight = 260.13amu
Principal moments of inertia in cm(-1)
A = 0.019879 B = 0.007221 C = 0.005726
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1408.158169 B = 3876.836494 C = 4888.912582
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.147 4.147
2 C 0.076 3.924
3 C -0.182 4.182
4 N -0.447 5.447
5 C 0.215 3.785
6 C -0.528 4.528
7 H 0.069 0.931
8 C 0.013 3.987
9 N -0.927 5.927
10 Si 0.971 3.029
11 H -0.262 1.262
12 H -0.280 1.280
13 H -0.277 1.277
14 C 0.308 3.692
15 N -0.351 5.351
16 O -0.125 6.125
17 C 0.067 3.933
18 C -0.135 4.135
19 C -0.044 4.044
20 C -0.149 4.149
21 C -0.049 4.049
22 C -0.217 4.217
23 H 0.061 0.939
24 H 0.085 0.915
25 H 0.056 0.944
26 H 0.095 0.905
27 H 0.037 0.963
28 H 0.084 0.916
29 H 0.068 0.932
30 H -0.014 1.014
31 H 0.024 0.976
32 H 0.267 0.733
33 H 0.166 0.834
34 H 0.187 0.813
35 H 0.163 0.837
36 H 0.120 0.880
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -8.304 0.041 8.731 12.050
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 -0.204 4.204
2 C -0.030 4.030
3 C -0.240 4.240
4 N -0.170 5.170
5 C 0.092 3.908
6 C -0.567 4.567
7 H 0.087 0.913
8 C -0.187 4.187
9 N -0.566 5.566
10 Si 0.795 3.205
11 H -0.186 1.186
12 H -0.205 1.205
13 H -0.202 1.202
14 C 0.039 3.961
15 N -0.111 5.111
16 O -0.129 6.129
17 C 0.014 3.986
18 C -0.154 4.154
19 C -0.063 4.063
20 C -0.166 4.166
21 C -0.069 4.069
22 C -0.221 4.221
23 H 0.080 0.920
24 H 0.103 0.897
25 H 0.075 0.925
26 H 0.113 0.887
27 H 0.056 0.944
28 H 0.103 0.897
29 H 0.086 0.914
30 H 0.003 0.997
31 H 0.042 0.958
32 H 0.076 0.924
33 H 0.184 0.816
34 H 0.204 0.796
35 H 0.181 0.819
36 H 0.138 0.862
Dipole moment (debyes) X Y Z Total
from point charges -8.901 0.600 8.172 12.098
hybrid contribution 1.298 -0.292 -0.695 1.501
sum -7.603 0.308 7.477 10.668
Atomic orbital electron populations
1.21997 0.92829 1.02220 1.03404 1.21861 0.96372 0.93002 0.91775
1.22502 1.00465 0.97396 1.03668 1.59347 1.14114 1.44818 0.98708
1.19636 0.77279 0.95613 0.98293 1.21308 0.92312 1.29423 1.13613
0.91275 1.25819 0.96393 0.97330 0.99150 1.70084 1.01941 1.45043
1.39558 0.85307 0.78420 0.78240 0.78530 1.18614 1.20525 1.20221
1.23259 0.92051 0.88315 0.92462 1.80221 1.27200 1.13697 0.90025
1.88997 1.67918 1.42396 1.13567 1.20748 0.94452 0.88802 0.94611
1.20527 1.05011 1.01824 0.88048 1.21659 0.91808 0.90578 1.02258
1.21216 1.01896 1.02051 0.91487 1.20726 0.94744 0.94488 0.96905
1.20663 1.09670 1.01902 0.89880 0.92009 0.89652 0.92463 0.88722
0.94397 0.89725 0.91394 0.99657 0.95772 0.92378 0.81643 0.79592
0.81930 0.86199
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 -0.15 -5.01 9.01 71.98 0.65 -4.36 16
2 C 0.08 3.09 2.78 44.92 0.12 3.22 16
3 C -0.18 -7.19 8.50 71.98 0.61 -6.58 16
4 N -0.45 -20.30 4.60 -675.43 -3.11 -23.41 16
5 C 0.22 11.23 4.46 85.56 0.38 11.61 16
6 C -0.53 -28.52 8.47 25.60 0.22 -28.30 16
7 H 0.07 3.65 7.12 -2.91 -0.02 3.63 16
8 C 0.01 0.68 5.46 84.65 0.46 1.14 16
9 N -0.93 -53.27 13.29 21.45 0.28 -52.98 16
10 Si 0.97 42.31 29.54 68.60 2.03 44.34 16
11 H -0.26 -10.98 7.11 99.48 0.71 -10.28 16
12 H -0.28 -11.97 7.11 99.48 0.71 -11.26 16
13 H -0.28 -11.76 7.11 99.48 0.71 -11.05 16
14 C 0.31 13.39 5.71 135.84 0.78 14.17 16
15 N -0.35 -14.78 7.34 -51.04 -0.37 -15.15 16
16 O -0.12 -4.93 12.06 29.35 0.35 -4.57 16
17 C 0.07 2.37 7.47 22.95 0.17 2.54 16
18 C -0.13 -3.30 10.07 22.35 0.23 -3.07 16
19 C -0.04 -0.87 10.02 22.29 0.22 -0.64 16
20 C -0.15 -3.61 9.98 22.03 0.22 -3.39 16
21 C -0.05 -1.68 9.32 22.21 0.21 -1.47 16
22 C -0.22 -8.53 6.02 -20.14 -0.12 -8.65 16
23 H 0.06 2.26 5.56 -2.38 -0.01 2.24 16
24 H 0.08 2.40 8.14 -2.39 -0.02 2.38 16
25 H 0.06 1.90 8.14 -2.39 -0.02 1.88 16
26 H 0.09 3.96 6.77 -2.39 -0.02 3.94 16
27 H 0.04 1.67 6.60 -2.39 -0.02 1.65 16
28 H 0.08 2.78 8.14 -2.39 -0.02 2.77 16
29 H 0.07 2.82 5.22 -2.39 -0.01 2.81 16
30 H -0.01 -0.82 6.21 -2.39 -0.01 -0.83 16
31 H 0.02 1.34 6.25 -2.39 -0.01 1.32 16
32 H 0.27 14.42 8.31 -92.71 -0.77 13.65 16
33 H 0.17 2.91 8.06 -2.91 -0.02 2.88 16
34 H 0.19 1.77 8.06 -2.91 -0.02 1.75 16
35 H 0.16 2.86 8.06 -2.91 -0.02 2.84 16
36 H 0.12 4.48 7.35 -2.91 -0.02 4.46 16
Total: -1.00 -65.22 293.40 4.42 -60.80
By element:
Atomic # 1 Polarization: 13.69 SS G_CDS: 1.09 Total: 14.78 kcal
Atomic # 6 Polarization: -27.94 SS G_CDS: 4.15 Total: -23.79 kcal
Atomic # 7 Polarization: -88.35 SS G_CDS: -3.20 Total: -91.55 kcal
Atomic # 8 Polarization: -4.93 SS G_CDS: 0.35 Total: -4.57 kcal
Atomic # 14 Polarization: 42.31 SS G_CDS: 2.03 Total: 44.34 kcal
Total: -65.22 4.42 -60.80 kcal
The number of atoms in the molecule is 36
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.
ZINC000310209575.mol2 36
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 122.896 kcal
(2) G-P(sol) polarization free energy of solvation -65.216 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 57.680 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.420 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -60.796 kcal
(6) G-S(sol) free energy of system = (1) + (5) 62.101 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.43 seconds