Wall clock time and date at job start Tue Mar 31 2020 13:57:43
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
* DEV - DEVELOPER OPTIONS ARE ALLOWED
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS USER-SPECIFIED
* DIELEC - THE SOLVENT DIELECTRIC CONSTANT IS 2.06
* IOFR - THE SOLVENT INDEX OF REFRACTION IS 1.4345
* ALPHA - THE SOLVENT ALPHA IS 0.00
* BETA - THE SOLVENT BETA IS 0.00
* GAMMA - THE SOLVENT MACROSCOPIC SURFACE TENSION IS
* 38.93 CAL MOL^-1 ANGSTROM^-2
* FACARB - THE FRACTION OF AROMATIC CARBONS IS 0.00
* FEHALO - THE FRACTION OF ELECTRONEGATIVE HALOGENS IS 0.00
*******************************************************************************
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 1.30903 * 1
3 3 Si 1.86808 * 119.99933 * 2 1
4 4 H 1.48505 * 109.47006 * 179.97438 * 3 2 1
5 5 H 1.48487 * 109.47288 * 300.00123 * 3 2 1
6 6 H 1.48500 * 109.46942 * 60.00281 * 3 2 1
7 7 C 1.39867 * 120.00160 * 180.02562 * 2 1 3
8 8 H 1.07998 * 119.99994 * 164.10756 * 7 2 1
9 9 C 1.41193 * 119.99747 * 344.10735 * 7 2 1
10 10 C 1.40797 * 120.55832 * 154.25120 * 9 7 2
11 11 N 1.31473 * 120.38413 * 180.02562 * 10 9 7
12 12 C 1.32749 * 121.73787 * 0.02562 * 11 10 9
13 13 N 1.38408 * 119.43215 * 179.97438 * 12 11 10
14 14 C 1.46850 * 111.00084 * 64.82861 * 13 12 11
15 15 C 1.53042 * 109.52591 * 174.15841 * 14 13 12
16 16 C 1.53123 * 109.27618 * 59.17632 * 15 14 13
17 17 C 1.50692 * 109.52166 * 182.44183 * 16 15 14
18 18 N 1.34778 * 120.00348 * 299.68307 * 17 16 15
19 19 S 1.59897 * 120.00075 * 119.68543 * 17 16 15
20 20 C 1.53114 * 109.16478 * 302.34949 * 16 15 14
21 21 C 1.46845 * 111.00319 * 300.61877 * 13 12 11
22 22 C 1.39786 * 121.12925 * 359.97438 * 12 11 10
23 23 Cl 1.73602 * 120.26427 * 179.74869 * 22 12 11
24 24 C 1.36667 * 119.47442 * 0.02562 * 22 12 11
25 25 H 0.96998 * 119.99798 * 359.97438 * 1 2 3
26 26 H 1.07989 * 119.81072 * 0.04817 * 10 9 7
27 27 H 1.08997 * 109.46056 * 294.17675 * 14 13 12
28 28 H 1.08995 * 109.46281 * 54.14233 * 14 13 12
29 29 H 1.08992 * 109.50087 * 299.24148 * 15 14 13
30 30 H 1.08990 * 109.50362 * 179.11597 * 15 14 13
31 31 H 1.09002 * 109.52032 * 62.25282 * 16 15 14
32 32 H 0.97003 * 119.99828 * 0.02562 * 18 17 16
33 33 H 0.97001 * 120.00487 * 179.97438 * 18 17 16
34 34 H 1.09005 * 109.50217 * 297.71692 * 20 16 15
35 35 H 1.08994 * 109.50752 * 177.59301 * 20 16 15
36 36 H 1.09006 * 109.45877 * 305.85484 * 21 13 12
37 37 H 1.08997 * 109.46181 * 65.82423 * 21 13 12
38 38 H 1.07995 * 120.79827 * 179.97438 * 24 22 12
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 1.3090 0.0000 0.0000
3 14 2.2431 1.6178 0.0000
4 1 3.7031 1.3464 0.0006
5 1 1.8843 2.3965 -1.2124
6 1 1.8843 2.3964 1.2125
7 6 2.0084 -1.2113 -0.0005
8 1 3.0574 -1.2290 -0.2567
9 6 1.3429 -2.4108 0.3338
10 6 1.8082 -3.6473 -0.1531
11 7 1.1856 -4.7621 0.1599
12 6 0.1086 -4.7662 0.9360
13 7 -0.5099 -5.9678 1.2348
14 6 0.3732 -6.8309 2.0295
15 6 -0.3911 -8.0838 2.4634
16 6 -0.8833 -8.8313 1.2210
17 6 -1.6879 -10.0336 1.6426
18 7 -1.1166 -10.9984 2.3905
19 16 -3.2195 -10.1650 1.2025
20 6 -1.7613 -7.8951 0.3861
21 6 -0.9572 -6.6477 0.0125
22 6 -0.4116 -3.5777 1.4565
23 17 -1.8252 -3.6085 2.4638
24 6 0.1982 -2.3907 1.1615
25 1 -0.4850 0.8400 0.0004
26 1 2.6818 -3.6802 -0.7871
27 1 1.2347 -7.1211 1.4281
28 1 0.7127 -6.2888 2.9120
29 1 -1.2449 -7.7950 3.0764
30 1 0.2692 -8.7314 3.0400
31 1 -0.0279 -9.1540 0.6275
32 1 -0.1876 -10.9186 2.6578
33 1 -1.6346 -11.7722 2.6622
34 1 -2.6367 -7.6034 0.9665
35 1 -2.0800 -8.4079 -0.5213
36 1 -1.5841 -5.9725 -0.5699
37 1 -0.0895 -6.9388 -0.5794
38 1 -0.1858 -1.4598 1.5518
RHF calculation, no. of doubly occupied orbitals= 54
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)
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)
Cl: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988).
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC001156805898.mol2 38
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 13:57:43
Heat of formation + Delta-G solvation = 28.811824 kcal
Electronic energy + Delta-G solvation = -22773.489909 eV
Core-core repulsion = 19380.996058 eV
Total energy + Delta-G solvation = -3392.493851 eV
No. of doubly occupied orbitals = 54
Molecular weight
(most abundant/longest-lived isotopes) = 325.071 amu
Computer time = 0.46 seconds
Orbital eigenvalues (eV)
-39.74850 -38.39661 -36.60894 -35.38463 -34.35218 -32.82321 -30.70779 -30.58273
-29.46326 -26.78604 -24.87073 -23.19636 -22.67687 -21.92883 -21.03053 -19.73060
-18.26690 -17.63155 -17.23184 -16.55519 -15.70811 -15.17754 -14.87711 -14.63855
-14.28671 -14.27405 -13.64023 -13.30761 -13.03759 -12.68483 -12.41938 -12.20498
-11.96206 -11.88333 -11.55260 -11.52131 -11.32773 -11.01652 -10.91459 -10.77162
-10.72582 -10.47042 -10.37696 -10.26388 -9.84198 -9.53466 -8.60998 -8.58059
-8.24769 -7.80684 -7.67939 -7.57487 -7.04191 -4.69597 0.74936 2.17521
2.30136 2.68558 2.93138 2.96420 2.98963 3.19808 3.32684 3.71218
4.12266 4.31641 4.40757 4.75284 4.84609 5.17724 5.28632 5.47205
5.61312 5.65792 5.72695 5.89326 6.03042 6.09145 6.13023 6.29666
6.33631 6.37976 6.51366 6.57596 6.68798 6.70978 6.79601 6.90078
7.00319 7.50848 7.58609 7.66966 8.02010 8.25220 8.44151 8.51517
9.28963 9.85616
Molecular weight = 325.07amu
Principal moments of inertia in cm(-1)
A = 0.029283 B = 0.003001 C = 0.002888
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 955.968845 B = 9328.280679 C = 9693.518955
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.777 5.777
2 C 0.072 3.928
3 Si 0.916 3.084
4 H -0.258 1.258
5 H -0.271 1.271
6 H -0.269 1.269
7 C -0.438 4.438
8 H 0.088 0.912
9 C 0.075 3.925
10 C -0.013 4.013
11 N -0.471 5.471
12 C 0.136 3.864
13 N -0.457 5.457
14 C 0.070 3.930
15 C -0.102 4.102
16 C -0.081 4.081
17 C 0.297 3.703
18 N -0.785 5.785
19 S -0.456 6.456
20 C -0.095 4.095
21 C 0.065 3.935
22 C -0.007 4.007
23 Cl -0.096 7.096
24 C -0.134 4.134
25 H 0.288 0.712
26 H 0.131 0.869
27 H 0.040 0.960
28 H 0.072 0.928
29 H 0.078 0.922
30 H 0.060 0.940
31 H 0.096 0.904
32 H 0.396 0.604
33 H 0.414 0.586
34 H 0.089 0.911
35 H 0.077 0.923
36 H 0.074 0.926
37 H 0.038 0.962
38 H 0.138 0.862
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 1.072 -12.152 4.465 12.991
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 -0.401 5.401
2 C -0.149 4.149
3 Si 0.739 3.261
4 H -0.181 1.181
5 H -0.196 1.196
6 H -0.194 1.194
7 C -0.467 4.467
8 H 0.107 0.893
9 C 0.070 3.930
10 C -0.177 4.177
11 N -0.182 5.182
12 C -0.092 4.092
13 N -0.180 5.180
14 C -0.058 4.058
15 C -0.142 4.142
16 C -0.104 4.104
17 C 0.048 3.952
18 N -0.322 5.322
19 S -0.326 6.326
20 C -0.133 4.133
21 C -0.063 4.063
22 C -0.037 4.037
23 Cl -0.068 7.068
24 C -0.161 4.161
25 H 0.099 0.901
26 H 0.149 0.851
27 H 0.058 0.942
28 H 0.091 0.909
29 H 0.097 0.903
30 H 0.079 0.921
31 H 0.114 0.886
32 H 0.227 0.773
33 H 0.248 0.752
34 H 0.107 0.893
35 H 0.096 0.904
36 H 0.093 0.907
37 H 0.057 0.943
38 H 0.155 0.845
Dipole moment (debyes) X Y Z Total
from point charges -0.334 -12.806 4.246 13.495
hybrid contribution 1.917 1.178 0.431 2.291
sum 1.583 -11.627 4.678 12.632
Atomic orbital electron populations
1.69808 1.07724 1.30155 1.32395 1.26051 0.94889 1.01931 0.92014
0.86121 0.80891 0.80142 0.78915 1.18106 1.19637 1.19396 1.19604
0.97771 0.90536 1.38762 0.89349 1.18475 0.91352 0.93906 0.89290
1.22363 1.02667 0.87684 1.04977 1.67137 1.07085 1.32324 1.11641
1.18421 0.96028 0.89036 1.05715 1.59533 1.37190 1.02226 1.19017
1.21924 0.93636 0.92327 0.97945 1.21654 1.00777 0.96383 0.95397
1.21163 0.98633 0.91655 0.98986 1.24562 1.00332 0.88661 0.81608
1.43681 1.16138 1.22274 1.50067 1.90968 0.98297 1.84273 1.59061
1.21740 0.98020 0.93631 0.99922 1.22058 0.98181 0.94709 0.91323
1.21143 0.90402 0.94612 0.97581 1.98265 1.40979 1.98963 1.68545
1.21338 0.98653 0.95944 1.00134 0.90112 0.85142 0.94186 0.90942
0.90316 0.92111 0.88580 0.77310 0.75221 0.89273 0.90435 0.90740
0.94349 0.84479
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 -0.78 -18.47 10.95 55.54 0.61 -17.86 16
2 C 0.07 1.63 5.19 -17.34 -0.09 1.54 16
3 Si 0.92 16.95 29.59 -169.99 -5.03 11.92 16
4 H -0.26 -4.70 7.11 56.52 0.40 -4.30 16
5 H -0.27 -4.98 7.11 56.52 0.40 -4.58 16
6 H -0.27 -4.95 7.11 56.52 0.40 -4.54 16
7 C -0.44 -10.40 9.06 -37.85 -0.34 -10.75 16
8 H 0.09 1.98 7.89 -52.49 -0.41 1.57 16
9 C 0.07 1.83 5.57 -106.65 -0.59 1.23 16
10 C -0.01 -0.29 10.97 -16.74 -0.18 -0.47 16
11 N -0.47 -10.57 9.66 -11.75 -0.11 -10.68 16
12 C 0.14 2.95 5.29 -155.05 -0.82 2.13 16
13 N -0.46 -8.29 3.99 -173.11 -0.69 -8.98 16
14 C 0.07 1.07 5.28 -3.83 -0.02 1.05 16
15 C -0.10 -1.18 5.26 -26.65 -0.14 -1.32 16
16 C -0.08 -0.92 2.59 -91.65 -0.24 -1.16 16
17 C 0.30 3.16 6.30 -10.99 -0.07 3.09 16
18 N -0.78 -5.17 8.76 31.60 0.28 -4.89 16
19 S -0.46 -6.39 27.70 -107.50 -2.98 -9.36 16
20 C -0.09 -1.31 4.28 -26.65 -0.11 -1.43 16
21 C 0.06 1.09 5.22 -3.83 -0.02 1.07 16
22 C -0.01 -0.16 6.32 -39.57 -0.25 -0.41 16
23 Cl -0.10 -1.95 28.43 -51.86 -1.47 -3.42 16
24 C -0.13 -3.27 8.51 -39.00 -0.33 -3.60 16
25 H 0.29 6.19 8.30 -40.82 -0.34 5.85 16
26 H 0.13 2.77 8.06 -52.49 -0.42 2.34 16
27 H 0.04 0.64 8.05 -51.93 -0.42 0.22 16
28 H 0.07 1.17 8.10 -51.93 -0.42 0.75 16
29 H 0.08 1.02 8.14 -51.93 -0.42 0.59 16
30 H 0.06 0.53 7.66 -51.93 -0.40 0.13 16
31 H 0.10 1.01 8.14 -51.93 -0.42 0.59 16
32 H 0.40 1.67 8.32 -40.82 -0.34 1.33 16
33 H 0.41 2.25 8.73 -40.82 -0.36 1.89 16
34 H 0.09 1.38 7.54 -51.93 -0.39 0.99 16
35 H 0.08 1.05 7.78 -51.93 -0.40 0.65 16
36 H 0.07 1.36 8.10 -51.93 -0.42 0.94 16
37 H 0.04 0.66 7.97 -51.93 -0.41 0.25 16
38 H 0.14 3.45 6.28 -52.49 -0.33 3.12 16
LS Contribution 339.33 15.07 5.11 5.11
Total: -1.00 -27.20 339.33 -12.21 -39.41
By element:
Atomic # 1 Polarization: 12.51 SS G_CDS: -4.71 Total: 7.80 kcal
Atomic # 6 Polarization: -5.82 SS G_CDS: -3.21 Total: -9.04 kcal
Atomic # 7 Polarization: -42.50 SS G_CDS: 0.08 Total: -42.42 kcal
Atomic # 14 Polarization: 16.95 SS G_CDS: -5.03 Total: 11.92 kcal
Atomic # 16 Polarization: -6.39 SS G_CDS: -2.98 Total: -9.36 kcal
Atomic # 17 Polarization: -1.95 SS G_CDS: -1.47 Total: -3.42 kcal
Total LS contribution 5.11 Total: 5.11 kcal
Total: -27.20 -12.21 -39.41 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.
ZINC001156805898.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 68.226 kcal
(2) G-P(sol) polarization free energy of solvation -27.204 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 41.022 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -12.210 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -39.414 kcal
(6) G-S(sol) free energy of system = (1) + (5) 28.812 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.46 seconds