Wall clock time and date at job start Mon Mar 30 2020 04:08:55
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 N
2 2 C 1.30675 * 1
3 3 Si 1.86796 * 119.99679 * 2 1
4 4 H 1.48507 * 109.47282 * 269.99795 * 3 2 1
5 5 H 1.48501 * 109.47204 * 29.99965 * 3 2 1
6 6 H 1.48503 * 109.47424 * 150.00015 * 3 2 1
7 7 C 1.40040 * 120.00269 * 180.02562 * 2 1 3
8 8 H 1.07998 * 120.00265 * 179.97438 * 7 2 1
9 9 C 1.46376 * 120.00331 * 359.97438 * 7 2 1
10 10 O 1.21694 * 119.99591 * 0.02562 * 9 7 2
11 11 N 1.34777 * 120.00371 * 180.02562 * 9 7 2
12 12 C 1.46504 * 119.99813 * 180.02562 * 11 9 7
13 13 H 1.09000 * 110.35188 * 327.14114 * 12 11 9
14 14 C 1.54590 * 110.31021 * 89.28544 * 12 11 9
15 15 C 1.54936 * 102.92207 * 140.87017 * 14 12 11
16 16 N 1.48532 * 103.22946 * 322.58602 * 15 14 12
17 17 C 1.39668 * 111.00279 * 159.71614 * 16 15 14
18 18 C 1.38911 * 120.07600 * 296.63183 * 17 16 15
19 19 C 1.38108 * 119.92251 * 179.76833 * 18 17 16
20 20 C 1.38281 * 120.07537 * 0.50314 * 19 18 17
21 21 C 1.38295 * 120.15149 * 359.74595 * 20 19 18
22 22 C 1.38104 * 120.06969 * 0.02562 * 21 20 19
23 23 C 1.47909 * 105.81769 * 39.20592 * 16 15 14
24 24 H 0.96997 * 120.00410 * 0.02562 * 1 2 3
25 25 H 0.96995 * 119.99614 * 0.02562 * 11 9 7
26 26 H 1.08997 * 110.72755 * 259.22986 * 14 12 11
27 27 H 1.09008 * 110.72282 * 22.51585 * 14 12 11
28 28 H 1.08998 * 110.66368 * 81.02166 * 15 14 12
29 29 H 1.09004 * 110.66782 * 203.98208 * 15 14 12
30 30 H 1.07993 * 120.03710 * 359.97438 * 18 17 16
31 31 H 1.08000 * 119.96330 * 180.25057 * 19 18 17
32 32 H 1.08000 * 119.93003 * 179.72751 * 20 19 18
33 33 H 1.07999 * 119.96354 * 180.02562 * 21 20 19
34 34 H 1.08005 * 120.03186 * 180.02562 * 22 21 20
35 35 H 1.08996 * 109.91722 * 215.32001 * 23 16 15
36 36 H 1.08989 * 109.91529 * 94.02214 * 23 16 15
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 1.3068 0.0000 0.0000
3 14 2.2406 1.6178 0.0000
4 1 2.4882 2.0465 -1.4001
5 1 1.4380 2.6527 0.7000
6 1 3.5383 1.4403 0.7000
7 6 2.0070 -1.2127 -0.0005
8 1 3.0870 -1.2127 -0.0010
9 6 1.2753 -2.4805 -0.0005
10 8 0.0583 -2.4805 -0.0005
11 7 1.9492 -3.6476 -0.0005
12 6 1.2167 -4.9164 -0.0011
13 1 0.2835 -4.8156 0.5530
14 6 0.9333 -5.3717 -1.4510
15 6 1.1500 -6.9043 -1.3815
16 7 2.2985 -7.0433 -0.4499
17 6 2.3528 -8.3306 0.0892
18 6 1.3178 -8.7935 0.8918
19 6 1.3726 -10.0687 1.4193
20 6 2.4609 -10.8807 1.1578
21 6 3.4954 -10.4211 0.3634
22 6 3.4448 -9.1487 -0.1711
23 6 2.0828 -6.0338 0.6094
24 1 -0.4850 0.8400 -0.0004
25 1 2.9191 -3.6475 -0.0002
26 1 -0.0933 -5.1398 -1.7345
27 1 1.6389 -4.9135 -2.1441
28 1 0.2663 -7.3999 -0.9794
29 1 1.3988 -7.3027 -2.3651
30 1 0.4698 -8.1581 1.1003
31 1 0.5663 -10.4307 2.0401
32 1 2.5033 -11.8759 1.5751
33 1 4.3438 -11.0580 0.1608
34 1 4.2529 -8.7906 -0.7918
35 1 3.0400 -5.6261 0.9342
36 1 1.5634 -6.4868 1.4537
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
ZINC000082254931.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 04:08:55
Heat of formation + Delta-G solvation = -24.235903 kcal
Electronic energy + Delta-G solvation = -18745.869013 eV
Core-core repulsion = 15807.767483 eV
Total energy + Delta-G solvation = -2938.101530 eV
No. of doubly occupied orbitals = 48
Molecular weight
(most abundant/longest-lived isotopes) = 260.127 amu
Computer time = 0.38 seconds
Orbital eigenvalues (eV)
-41.32093 -39.58600 -38.27456 -35.11980 -34.39935 -32.36139 -31.82281 -29.78838
-29.22418 -27.72967 -24.06256 -23.25686 -22.63269 -21.60614 -21.22507 -19.26608
-18.41598 -17.53241 -17.08260 -16.69999 -16.10487 -15.92984 -15.41305 -15.23388
-14.80006 -14.55405 -14.31270 -14.05856 -13.77978 -13.67308 -13.07618 -13.00690
-12.87712 -12.63968 -12.62731 -12.37227 -12.21358 -12.06841 -12.00582 -11.84785
-10.93015 -9.87782 -9.84089 -9.72110 -9.56256 -9.40810 -8.28862 -6.85327
0.33651 0.48730 1.40599 1.41998 1.57306 2.24960 2.47059 2.79718
2.81652 3.10442 3.53089 3.63209 3.94530 4.02238 4.08760 4.16691
4.19942 4.28438 4.35675 4.54733 4.57208 4.67874 4.77086 4.78615
4.87538 5.01249 5.13557 5.15823 5.32386 5.48745 5.56356 5.61387
5.63710 5.88799 5.93039 6.22961 6.29936 6.42819 6.87257 7.55037
8.49751 8.67769
Molecular weight = 260.13amu
Principal moments of inertia in cm(-1)
A = 0.049584 B = 0.003774 C = 0.003699
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 564.561298 B = 7417.799108 C = 7568.673113
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.822 5.822
2 C 0.028 3.972
3 Si 0.998 3.002
4 H -0.262 1.262
5 H -0.273 1.273
6 H -0.249 1.249
7 C -0.574 4.574
8 H 0.087 0.913
9 C 0.540 3.460
10 O -0.631 6.631
11 N -0.744 5.744
12 C 0.144 3.856
13 H 0.052 0.948
14 C -0.128 4.128
15 C 0.054 3.946
16 N -0.483 5.483
17 C 0.063 3.937
18 C -0.166 4.166
19 C -0.117 4.117
20 C -0.125 4.125
21 C -0.114 4.114
22 C -0.106 4.106
23 C 0.048 3.952
24 H 0.274 0.726
25 H 0.395 0.605
26 H 0.058 0.942
27 H 0.069 0.931
28 H 0.054 0.946
29 H 0.098 0.902
30 H 0.113 0.887
31 H 0.138 0.862
32 H 0.149 0.851
33 H 0.151 0.849
34 H 0.132 0.868
35 H 0.089 0.911
36 H 0.059 0.941
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 7.570 -19.174 0.743 20.627
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 -0.451 5.451
2 C -0.187 4.187
3 Si 0.818 3.182
4 H -0.186 1.186
5 H -0.198 1.198
6 H -0.172 1.172
7 C -0.610 4.610
8 H 0.105 0.895
9 C 0.344 3.656
10 O -0.518 6.518
11 N -0.398 5.398
12 C 0.037 3.963
13 H 0.070 0.930
14 C -0.168 4.168
15 C -0.072 4.072
16 N -0.205 5.205
17 C -0.031 4.031
18 C -0.186 4.186
19 C -0.135 4.135
20 C -0.143 4.143
21 C -0.132 4.132
22 C -0.125 4.125
23 C -0.079 4.079
24 H 0.084 0.916
25 H 0.229 0.771
26 H 0.077 0.923
27 H 0.088 0.912
28 H 0.072 0.928
29 H 0.116 0.884
30 H 0.131 0.869
31 H 0.156 0.844
32 H 0.167 0.833
33 H 0.169 0.831
34 H 0.150 0.850
35 H 0.107 0.893
36 H 0.078 0.922
Dipole moment (debyes) X Y Z Total
from point charges 7.022 -19.000 0.484 20.262
hybrid contribution -0.520 0.871 0.407 1.092
sum 6.502 -18.130 0.891 19.281
Atomic orbital electron populations
1.70187 1.09497 1.28900 1.36539 1.26968 0.95532 1.04947 0.91213
0.85013 0.78760 0.75077 0.79393 1.18649 1.19815 1.17247 1.21435
0.94730 0.90144 1.54715 0.89538 1.18585 0.86846 0.84278 0.75865
1.90547 1.16132 1.87904 1.57235 1.45876 1.09019 1.04171 1.80764
1.21382 0.94758 0.84328 0.95794 0.92957 1.22857 1.01231 0.95366
0.97305 1.23243 0.91374 0.94924 0.97693 1.62447 1.41829 1.01682
1.14523 1.19245 0.95468 0.90810 0.97566 1.21772 0.99069 0.97756
0.99958 1.21308 0.99334 0.93276 0.99598 1.21538 0.93585 1.00803
0.98364 1.21450 0.99628 0.95244 0.96898 1.21209 0.97124 0.93984
1.00186 1.23115 1.00144 0.91588 0.93093 0.91607 0.77084 0.92320
0.91226 0.92791 0.88379 0.86899 0.84376 0.83327 0.83145 0.84980
0.89293 0.92241
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 14.
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 -50.75 11.83 21.83 0.26 -50.49 16
2 C 0.03 1.60 5.50 85.30 0.47 2.07 16
3 Si 1.00 41.32 29.56 68.60 2.03 43.35 16
4 H -0.26 -10.34 7.11 99.48 0.71 -9.63 16
5 H -0.27 -10.92 7.11 99.48 0.71 -10.21 16
6 H -0.25 -9.59 7.11 99.48 0.71 -8.88 16
7 C -0.57 -32.86 9.54 24.83 0.24 -32.63 16
8 H 0.09 4.45 7.85 -2.91 -0.02 4.43 16
9 C 0.54 31.64 7.75 86.36 0.67 32.31 16
10 O -0.63 -42.54 14.67 -4.33 -0.06 -42.60 16
11 N -0.74 -34.09 5.05 -442.64 -2.24 -36.33 16
12 C 0.14 5.72 3.34 45.87 0.15 5.88 16
13 H 0.05 2.40 7.56 -2.39 -0.02 2.38 16
14 C -0.13 -4.59 6.78 31.80 0.22 -4.38 16
15 C 0.05 1.51 6.43 86.65 0.56 2.07 16
16 N -0.48 -13.63 5.28 -682.79 -3.60 -17.23 16
17 C 0.06 1.58 4.86 38.22 0.19 1.76 16
18 C -0.17 -3.87 7.91 22.40 0.18 -3.69 16
19 C -0.12 -2.16 10.04 22.25 0.22 -1.94 16
20 C -0.13 -1.96 10.04 22.29 0.22 -1.73 16
21 C -0.11 -1.87 10.04 22.25 0.22 -1.64 16
22 C -0.11 -2.25 9.97 22.40 0.22 -2.03 16
23 C 0.05 1.49 6.26 86.45 0.54 2.04 16
24 H 0.27 15.32 8.29 -92.71 -0.77 14.55 16
25 H 0.39 15.92 8.33 -92.71 -0.77 15.15 16
26 H 0.06 2.25 8.14 -2.39 -0.02 2.23 16
27 H 0.07 2.60 8.06 -2.38 -0.02 2.58 16
28 H 0.05 1.45 7.04 -2.39 -0.02 1.43 16
29 H 0.10 2.44 8.14 -2.38 -0.02 2.42 16
30 H 0.11 2.75 7.04 -2.91 -0.02 2.73 16
31 H 0.14 1.97 8.06 -2.91 -0.02 1.95 16
32 H 0.15 1.45 8.06 -2.91 -0.02 1.42 16
33 H 0.15 1.59 8.06 -2.91 -0.02 1.57 16
34 H 0.13 2.62 8.06 -2.91 -0.02 2.60 16
35 H 0.09 2.73 7.65 -2.39 -0.02 2.71 16
36 H 0.06 1.78 6.29 -2.39 -0.02 1.77 16
Total: -1.00 -74.83 302.77 0.80 -74.04
By element:
Atomic # 1 Polarization: 30.88 SS G_CDS: 0.32 Total: 31.20 kcal
Atomic # 6 Polarization: -6.02 SS G_CDS: 4.10 Total: -1.92 kcal
Atomic # 7 Polarization: -98.47 SS G_CDS: -5.58 Total: -104.06 kcal
Atomic # 8 Polarization: -42.54 SS G_CDS: -0.06 Total: -42.60 kcal
Atomic # 14 Polarization: 41.32 SS G_CDS: 2.03 Total: 43.35 kcal
Total: -74.83 0.80 -74.04 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.
ZINC000082254931.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 49.800 kcal
(2) G-P(sol) polarization free energy of solvation -74.835 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -25.035 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.799 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -74.036 kcal
(6) G-S(sol) free energy of system = (1) + (5) -24.236 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.38 seconds