Wall clock time and date at job start Sun Mar 29 2020 22:10:35
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 1.52999 * 1
3 3 H 1.09002 * 109.48490 * 2 1
4 4 C 1.53092 * 109.47979 * 120.02496 * 2 1 3
5 5 C 1.53178 * 109.16414 * 62.38175 * 4 2 1
6 6 N 1.46906 * 109.54376 * 176.85112 * 5 4 2
7 7 C 1.46902 * 110.99573 * 298.95419 * 6 5 4
8 8 C 1.46898 * 110.99888 * 175.00053 * 6 5 4
9 9 C 1.50702 * 109.46796 * 189.99926 * 8 6 5
10 10 H 1.08003 * 119.99822 * 359.97438 * 9 8 6
11 11 C 1.37873 * 119.99809 * 180.02562 * 9 8 6
12 12 N 1.31523 * 120.00246 * 179.97438 * 11 9 8
13 13 Si 1.86802 * 120.00116 * 359.97438 * 11 9 8
14 14 H 1.48496 * 109.47222 * 90.00275 * 13 11 9
15 15 H 1.48496 * 109.47118 * 210.00206 * 13 11 9
16 16 H 1.48501 * 109.47094 * 329.99916 * 13 11 9
17 17 C 1.53176 * 109.03584 * 56.98551 * 5 4 2
18 18 C 1.53095 * 109.16061 * 303.01516 * 17 5 4
19 19 H 1.08996 * 109.48222 * 297.62774 * 18 17 5
20 20 C 1.53005 * 109.48911 * 177.59597 * 18 17 5
21 21 O 1.42904 * 109.49042 * 239.96676 * 2 1 3
22 22 H 1.08995 * 109.47336 * 299.98184 * 1 2 3
23 23 H 1.09005 * 109.46418 * 59.97623 * 1 2 3
24 24 H 1.08997 * 109.47303 * 179.97438 * 1 2 3
25 25 H 1.09001 * 109.51812 * 302.47669 * 4 2 1
26 26 H 1.08999 * 109.57880 * 182.32223 * 4 2 1
27 27 H 1.08999 * 109.54154 * 297.02322 * 5 4 2
28 28 H 1.09004 * 109.47457 * 60.00221 * 7 6 5
29 29 H 1.09001 * 109.46615 * 179.97438 * 7 6 5
30 30 H 1.08990 * 109.47358 * 299.99539 * 7 6 5
31 31 H 1.08999 * 109.46988 * 309.99510 * 8 6 5
32 32 H 1.08996 * 109.46945 * 69.99996 * 8 6 5
33 33 H 0.96996 * 119.99953 * 179.97438 * 12 11 9
34 34 H 1.08995 * 109.52370 * 62.92619 * 17 5 4
35 35 H 1.09004 * 109.52067 * 183.11389 * 17 5 4
36 36 H 1.09002 * 109.46959 * 300.05671 * 20 18 17
37 37 H 1.08999 * 109.46722 * 60.05100 * 20 18 17
38 38 H 1.09000 * 109.47022 * 180.02562 * 20 18 17
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 1 1.8936 1.0276 0.0000
4 6 2.0405 -0.7222 1.2496
5 6 1.5758 -2.1813 1.2122
6 7 2.1240 -2.9015 2.3694
7 6 3.5928 -2.8966 2.3448
8 6 1.6030 -4.2736 2.4306
9 6 1.9857 -4.8978 3.7478
10 1 2.5589 -4.3319 4.4672
11 6 1.6048 -6.1916 4.0339
12 7 1.9391 -6.7367 5.1832
13 14 0.6139 -7.1706 2.7892
14 1 1.5381 -7.9056 1.8887
15 1 -0.2574 -8.1391 3.5017
16 1 -0.2266 -6.2452 1.9876
17 6 2.0768 -2.8322 -0.0807
18 6 1.5649 -2.0286 -1.2790
19 1 0.4754 -2.0553 -1.2958
20 6 2.1103 -2.6373 -2.5724
21 8 2.0068 -0.6743 -1.1663
22 1 -0.3634 0.5135 0.8901
23 1 -0.3632 0.5142 -0.8898
24 1 -0.3634 -1.0276 -0.0005
25 1 1.6419 -0.2356 2.1398
26 1 3.1297 -0.6872 1.2723
27 1 0.4869 -2.2181 1.2424
28 1 3.9533 -1.8682 2.3704
29 1 3.9725 -3.4359 3.2126
30 1 3.9426 -3.3816 1.4336
31 1 0.5170 -4.2542 2.3395
32 1 2.0258 -4.8594 1.6144
33 1 1.6709 -7.6468 5.3846
34 1 3.1668 -2.8399 -0.0860
35 1 1.7042 -3.8547 -0.1419
36 1 3.1999 -2.6109 -2.5552
37 1 1.7732 -3.6703 -2.6581
38 1 1.7460 -2.0646 -3.4253
RHF calculation, no. of doubly occupied orbitals= 44
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
ZINC001257085919.mol2 38
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Sun Mar 29 2020 22:10:35
Heat of formation + Delta-G solvation = -69.416155 kcal
Electronic energy + Delta-G solvation = -16970.328749 eV
Core-core repulsion = 14425.749432 eV
Total energy + Delta-G solvation = -2544.579317 eV
No. of doubly occupied orbitals = 44
Molecular weight
(most abundant/longest-lived isotopes) = 227.163 amu
Computer time = 0.31 seconds
Orbital eigenvalues (eV)
-41.21237 -38.19498 -34.86714 -34.30704 -32.99123 -30.41400 -29.23303 -27.66254
-26.82382 -24.21980 -23.07600 -21.63294 -19.98467 -19.04136 -17.29165 -17.09105
-16.74651 -16.34305 -15.92407 -15.17097 -15.09568 -14.66359 -14.54971 -14.31619
-13.87721 -13.48829 -13.22071 -13.08440 -12.90339 -12.76543 -12.71682 -12.47201
-12.25280 -12.10582 -11.83859 -11.75088 -11.65703 -11.43373 -10.93513 -10.78864
-10.42358 -8.97197 -8.30294 -6.33612 1.31550 1.33534 1.44297 2.32051
2.82590 3.02271 3.21442 3.73624 3.77881 3.94800 4.12721 4.17954
4.29918 4.40175 4.44239 4.52575 4.52839 4.60411 4.66865 4.76443
4.82617 4.90546 4.98460 5.02233 5.04244 5.06790 5.17017 5.23295
5.26324 5.30699 5.42046 5.52727 5.98395 6.34361 6.35435 6.65026
6.72868 7.30015 8.86433
Molecular weight = 227.16amu
Principal moments of inertia in cm(-1)
A = 0.033637 B = 0.007618 C = 0.007022
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 832.224731 B = 3674.852014 C = 3986.609241
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.183 4.183
2 C 0.090 3.910
3 H 0.121 0.879
4 C -0.135 4.135
5 C 0.079 3.921
6 N -0.540 5.540
7 C 0.037 3.963
8 C 0.175 3.825
9 C -0.518 4.518
10 H 0.037 0.963
11 C 0.008 3.992
12 N -0.948 5.948
13 Si 0.945 3.055
14 H -0.267 1.267
15 H -0.280 1.280
16 H -0.249 1.249
17 C -0.180 4.180
18 C 0.090 3.910
19 H 0.066 0.934
20 C -0.141 4.141
21 O -0.387 6.387
22 H 0.077 0.923
23 H 0.071 0.929
24 H 0.052 0.948
25 H 0.081 0.919
26 H 0.068 0.932
27 H 0.075 0.925
28 H 0.077 0.923
29 H 0.045 0.955
30 H 0.022 0.978
31 H 0.025 0.975
32 H -0.012 1.012
33 H 0.267 0.733
34 H 0.066 0.934
35 H 0.060 0.940
36 H 0.057 0.943
37 H 0.076 0.924
38 H 0.073 0.927
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -2.440 11.722 -15.455 19.550
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 -0.240 4.240
2 C 0.032 3.968
3 H 0.139 0.861
4 C -0.173 4.173
5 C -0.030 4.030
6 N -0.262 5.262
7 C -0.111 4.111
8 C 0.048 3.952
9 C -0.556 4.556
10 H 0.056 0.944
11 C -0.190 4.190
12 N -0.589 5.589
13 Si 0.769 3.231
14 H -0.193 1.193
15 H -0.205 1.205
16 H -0.173 1.173
17 C -0.219 4.219
18 C 0.032 3.968
19 H 0.084 0.916
20 C -0.198 4.198
21 O -0.306 6.306
22 H 0.096 0.904
23 H 0.090 0.910
24 H 0.071 0.929
25 H 0.099 0.901
26 H 0.086 0.914
27 H 0.093 0.907
28 H 0.095 0.905
29 H 0.064 0.936
30 H 0.041 0.959
31 H 0.043 0.957
32 H 0.006 0.994
33 H 0.076 0.924
34 H 0.085 0.915
35 H 0.078 0.922
36 H 0.076 0.924
37 H 0.095 0.905
38 H 0.092 0.908
Dipole moment (debyes) X Y Z Total
from point charges -2.488 11.896 -15.040 19.337
hybrid contribution -0.079 -1.500 -0.196 1.515
sum -2.567 10.396 -15.236 18.623
Atomic orbital electron populations
1.22431 0.95575 1.02497 1.03523 1.22289 0.94232 0.96581 0.83707
0.86132 1.22245 1.01662 0.94118 0.99318 1.21895 0.99158 0.94349
0.87594 1.62087 1.07713 1.16448 1.39991 1.22243 0.88017 1.01150
0.99668 1.19883 0.94926 0.85969 0.94429 1.21301 1.34295 0.98142
1.01889 0.94440 1.25848 0.97045 0.98702 0.97357 1.70051 1.48461
1.15474 1.24879 0.85739 0.79351 0.78796 0.79240 1.19257 1.20537
1.17254 1.22886 1.02039 1.00097 0.96890 1.22055 0.98273 0.81781
0.94734 0.91636 1.21765 1.01732 1.00843 0.95492 1.87925 1.74297
1.24662 1.43749 0.90391 0.90966 0.92910 0.90070 0.91362 0.90703
0.90465 0.93576 0.95929 0.95707 0.99438 0.92408 0.91503 0.92173
0.92357 0.90473 0.90820
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 -0.18 -3.58 8.65 71.98 0.62 -2.96 16
2 C 0.09 1.98 3.91 30.62 0.12 2.10 16
3 H 0.12 2.18 8.14 -2.39 -0.02 2.16 16
4 C -0.14 -3.62 4.80 30.68 0.15 -3.47 16
5 C 0.08 2.57 2.00 45.03 0.09 2.66 16
6 N -0.54 -22.54 4.74 -900.91 -4.27 -26.81 16
7 C 0.04 1.46 8.64 127.69 1.10 2.56 16
8 C 0.18 8.48 3.25 85.56 0.28 8.76 16
9 C -0.52 -30.41 9.01 25.60 0.23 -30.18 16
10 H 0.04 2.46 7.37 -2.91 -0.02 2.43 16
11 C 0.01 0.45 5.47 84.65 0.46 0.92 16
12 N -0.95 -59.82 13.96 21.45 0.30 -59.52 16
13 Si 0.95 44.27 27.47 68.60 1.88 46.16 16
14 H -0.27 -12.04 7.11 99.48 0.71 -11.33 16
15 H -0.28 -12.79 7.11 99.48 0.71 -12.08 16
16 H -0.25 -10.82 6.54 99.48 0.65 -10.17 16
17 C -0.18 -5.43 4.01 30.68 0.12 -5.30 16
18 C 0.09 2.22 2.94 30.63 0.09 2.31 16
19 H 0.07 1.54 6.34 -2.39 -0.02 1.53 16
20 C -0.14 -2.93 9.57 71.98 0.69 -2.24 16
21 O -0.39 -9.81 10.24 -148.98 -1.52 -11.34 16
22 H 0.08 1.37 8.14 -2.39 -0.02 1.35 16
23 H 0.07 1.23 8.14 -2.38 -0.02 1.21 16
24 H 0.05 1.15 4.98 -2.39 -0.01 1.14 16
25 H 0.08 2.13 8.14 -2.39 -0.02 2.11 16
26 H 0.07 1.87 6.28 -2.39 -0.01 1.85 16
27 H 0.07 2.48 6.51 -2.39 -0.02 2.46 16
28 H 0.08 2.56 6.27 -2.38 -0.01 2.54 16
29 H 0.05 2.07 6.76 -2.39 -0.02 2.06 16
30 H 0.02 0.84 6.21 -2.39 -0.01 0.82 16
31 H 0.02 1.21 7.06 -2.39 -0.02 1.19 16
32 H -0.01 -0.57 6.45 -2.39 -0.02 -0.59 16
33 H 0.27 15.67 8.31 -92.71 -0.77 14.90 16
34 H 0.07 2.11 6.23 -2.39 -0.01 2.09 16
35 H 0.06 1.95 6.94 -2.38 -0.02 1.93 16
36 H 0.06 1.25 8.14 -2.39 -0.02 1.23 16
37 H 0.08 1.46 8.14 -2.39 -0.02 1.44 16
38 H 0.07 1.33 8.14 -2.39 -0.02 1.31 16
Total: -1.00 -66.08 282.12 1.31 -64.77
By element:
Atomic # 1 Polarization: 10.62 SS G_CDS: 0.97 Total: 11.59 kcal
Atomic # 6 Polarization: -28.80 SS G_CDS: 3.96 Total: -24.85 kcal
Atomic # 7 Polarization: -82.36 SS G_CDS: -3.97 Total: -86.33 kcal
Atomic # 8 Polarization: -9.81 SS G_CDS: -1.52 Total: -11.34 kcal
Atomic # 14 Polarization: 44.27 SS G_CDS: 1.88 Total: 46.16 kcal
Total: -66.08 1.31 -64.77 kcal
The number of atoms in the molecule is 38
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.
ZINC001257085919.mol2 38
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 -4.645 kcal
(2) G-P(sol) polarization free energy of solvation -66.082 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -70.726 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.310 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -64.771 kcal
(6) G-S(sol) free energy of system = (1) + (5) -69.416 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.31 seconds