Wall clock time and date at job start Mon Mar 30 2020 01:04:10
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
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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 1.52995 * 1
3 3 C 1.50699 * 109.47133 * 2 1
4 4 N 1.32095 * 122.70515 * 90.02251 * 3 2 1
5 5 C 1.29759 * 116.85465 * 179.97438 * 4 3 2
6 6 S 1.76199 * 124.95322 * 179.97438 * 5 4 3
7 7 C 1.81002 * 100.00182 * 180.02562 * 6 5 4
8 8 C 1.52998 * 109.47085 * 180.02562 * 7 6 5
9 9 C 1.53006 * 109.46976 * 180.02562 * 8 7 6
10 10 C 1.50693 * 109.47297 * 179.97438 * 9 8 7
11 11 H 1.07999 * 119.99804 * 359.97438 * 10 9 8
12 12 C 1.37882 * 120.00324 * 179.97438 * 10 9 8
13 13 N 1.31511 * 119.99874 * 179.97438 * 12 10 9
14 14 Si 1.86806 * 119.99559 * 359.97438 * 12 10 9
15 15 H 1.48495 * 109.46995 * 90.00072 * 14 12 10
16 16 H 1.48495 * 109.46688 * 210.00202 * 14 12 10
17 17 H 1.48496 * 109.47065 * 330.00011 * 14 12 10
18 18 S 1.70965 * 110.09493 * 0.24333 * 5 4 3
19 19 C 1.33329 * 122.70629 * 270.00039 * 3 2 1
20 20 C 1.50696 * 125.94831 * 0.02562 * 19 3 2
21 21 H 1.08999 * 109.47312 * 60.00006 * 1 2 3
22 22 H 1.09004 * 109.47105 * 179.97438 * 1 2 3
23 23 H 1.08997 * 109.47613 * 300.00269 * 1 2 3
24 24 H 1.08992 * 109.47174 * 239.99896 * 2 1 3
25 25 H 1.09007 * 109.47022 * 120.00148 * 2 1 3
26 26 H 1.09005 * 109.46889 * 299.99975 * 7 6 5
27 27 H 1.09000 * 109.47231 * 59.99947 * 7 6 5
28 28 H 1.09001 * 109.47131 * 299.99123 * 8 7 6
29 29 H 1.08996 * 109.47558 * 60.00200 * 8 7 6
30 30 H 1.09005 * 109.46779 * 299.99512 * 9 8 7
31 31 H 1.09004 * 109.47273 * 59.99075 * 9 8 7
32 32 H 0.97004 * 119.99624 * 180.02562 * 13 12 10
33 33 H 1.09006 * 109.47290 * 90.00444 * 20 19 3
34 34 H 1.09000 * 109.47459 * 210.00010 * 20 19 3
35 35 H 1.08997 * 109.47377 * 330.00298 * 20 19 3
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 2.0323 1.4208 0.0000
4 7 2.2706 2.0936 1.1115
5 6 2.7013 3.3104 0.9793
6 16 3.0851 4.3960 2.3130
7 6 3.6033 5.8618 1.3861
8 6 3.9962 6.9710 2.3640
9 6 4.4336 8.2102 1.5805
10 6 4.8200 9.3030 2.5435
11 1 4.7592 9.1310 3.6080
12 6 5.2511 10.5224 2.0658
13 7 5.5878 11.4762 2.9064
14 14 5.3569 10.8196 0.2246
15 1 4.0650 11.3648 -0.2639
16 1 6.4431 11.7919 -0.0581
17 1 5.6469 9.5383 -0.4678
18 16 2.8350 3.7093 -0.6778
19 6 2.2724 2.1000 -1.1219
20 6 2.0891 1.5831 -2.5255
21 1 -0.3634 0.5138 -0.8900
22 1 -0.3633 -1.0277 -0.0005
23 1 -0.3634 0.5138 0.8899
24 1 1.8933 -0.5138 -0.8899
25 1 1.8933 -0.5139 0.8900
26 1 4.4588 5.6112 0.7587
27 1 2.7806 6.2046 0.7587
28 1 3.1410 7.2217 2.9917
29 1 4.8191 6.6280 2.9911
30 1 5.2887 7.9599 0.9525
31 1 3.6105 8.5531 0.9536
32 1 5.8907 12.3342 2.5702
33 1 1.0761 1.8014 -2.8637
34 1 2.8057 2.0684 -3.1880
35 1 2.2526 0.5055 -2.5401
RHF calculation, no. of doubly occupied orbitals= 45
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)
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
ZINC000845326808.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 01:04:10
Heat of formation + Delta-G solvation = -6.159200 kcal
Electronic energy + Delta-G solvation = -15523.077839 eV
Core-core repulsion = 12965.323672 eV
Total energy + Delta-G solvation = -2557.754167 eV
No. of doubly occupied orbitals = 45
Molecular weight
(most abundant/longest-lived isotopes) = 271.076 amu
Computer time = 0.32 seconds
Orbital eigenvalues (eV)
-40.92973 -36.48300 -35.02994 -34.21223 -32.48668 -30.10085 -28.29159 -25.79952
-25.05089 -24.21749 -22.08163 -19.94145 -19.43826 -18.89098 -17.78860 -16.60860
-16.51080 -16.11110 -15.79841 -15.14315 -14.93191 -14.58818 -14.36645 -14.09022
-13.96416 -13.76294 -13.72056 -13.21512 -13.11901 -12.79839 -12.71336 -12.10235
-11.96016 -11.84940 -11.75003 -11.62630 -11.43238 -11.37028 -10.76161 -10.63244
-10.54563 -10.22948 -8.62582 -8.28654 -6.33895 -0.48965 -0.01812 0.05660
0.63114 1.30763 1.38325 1.40287 1.51778 1.63119 2.37361 3.06953
3.40494 3.82607 3.84990 3.95005 4.04931 4.34374 4.39465 4.41765
4.47330 4.66668 4.70398 4.72617 4.85147 4.93943 4.97331 5.05085
5.12680 5.21517 5.39772 5.40299 5.49497 5.63756 6.27010 6.56086
6.74326 7.30739 8.88210
Molecular weight = 271.08amu
Principal moments of inertia in cm(-1)
A = 0.037101 B = 0.003619 C = 0.003348
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 754.524153 B = 7735.989513 C = 8362.013894
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.140 4.140
2 C -0.046 4.046
3 C 0.052 3.948
4 N -0.480 5.480
5 C -0.003 4.003
6 S -0.017 6.017
7 C -0.112 4.112
8 C -0.079 4.079
9 C -0.004 4.004
10 C -0.535 4.535
11 H 0.032 0.968
12 C 0.003 3.997
13 N -0.953 5.953
14 Si 0.951 3.049
15 H -0.266 1.266
16 H -0.286 1.286
17 H -0.240 1.240
18 S 0.141 5.859
19 C -0.219 4.219
20 C -0.074 4.074
21 H 0.061 0.939
22 H 0.083 0.917
23 H 0.035 0.965
24 H 0.107 0.893
25 H 0.072 0.928
26 H 0.101 0.899
27 H 0.101 0.899
28 H 0.062 0.938
29 H 0.062 0.938
30 H 0.029 0.971
31 H 0.027 0.973
32 H 0.266 0.734
33 H 0.090 0.910
34 H 0.079 0.921
35 H 0.101 0.899
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -8.828 -23.663 -14.290 29.018
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 -0.198 4.198
2 C -0.086 4.086
3 C -0.081 4.081
4 N -0.199 5.199
5 C -0.388 4.388
6 S 0.216 5.784
7 C -0.262 4.262
8 C -0.118 4.118
9 C -0.044 4.044
10 C -0.574 4.574
11 H 0.050 0.950
12 C -0.194 4.194
13 N -0.593 5.593
14 Si 0.774 3.226
15 H -0.191 1.191
16 H -0.212 1.212
17 H -0.163 1.163
18 S 0.393 5.607
19 C -0.344 4.344
20 C -0.133 4.133
21 H 0.080 0.920
22 H 0.102 0.898
23 H 0.055 0.945
24 H 0.125 0.875
25 H 0.091 0.909
26 H 0.120 0.880
27 H 0.120 0.880
28 H 0.081 0.919
29 H 0.081 0.919
30 H 0.047 0.953
31 H 0.046 0.954
32 H 0.075 0.925
33 H 0.109 0.891
34 H 0.098 0.902
35 H 0.119 0.881
Dipole moment (debyes) X Y Z Total
from point charges -8.573 -22.933 -13.020 27.730
hybrid contribution 0.053 0.212 -1.094 1.116
sum -8.521 -22.721 -14.114 28.072
Atomic orbital electron populations
1.21679 0.93547 1.03020 1.01554 1.20254 0.96772 0.87289 1.04261
1.20689 1.02019 0.99756 0.85672 1.66488 1.15995 1.04678 1.32717
1.28402 1.08618 1.00089 1.01733 1.85867 1.80334 1.06108 1.06045
1.23941 1.05539 0.94924 1.01773 1.21055 1.01154 0.92698 0.96887
1.19504 0.96784 0.92420 0.95654 1.21460 1.44077 0.98007 0.93810
0.94997 1.26055 0.94219 0.95573 1.03560 1.70076 1.46687 1.05355
1.37203 0.85640 0.78370 0.79272 0.79296 1.19054 1.21229 1.16316
1.84025 1.62715 1.14927 0.99073 1.26103 1.09876 0.95951 1.02485
1.20434 1.03658 1.02580 0.86595 0.92014 0.89836 0.94548 0.87465
0.90918 0.88045 0.88019 0.91942 0.91927 0.95303 0.95444 0.92477
0.89134 0.90242 0.88084
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 -0.14 -1.95 9.89 71.98 0.71 -1.23 16
2 C -0.05 -0.73 6.11 29.85 0.18 -0.55 16
3 C 0.05 1.20 5.99 41.41 0.25 1.45 16
4 N -0.48 -14.32 10.59 -188.54 -2.00 -16.32 16
5 C 0.00 -0.10 7.59 130.55 0.99 0.89 16
6 S -0.02 -0.53 22.31 -56.49 -1.26 -1.79 16
7 C -0.11 -3.35 4.63 71.98 0.33 -3.01 16
8 C -0.08 -2.93 5.16 30.60 0.16 -2.77 16
9 C 0.00 -0.19 4.04 29.85 0.12 -0.07 16
10 C -0.54 -30.39 9.66 25.60 0.25 -30.15 16
11 H 0.03 2.00 7.99 -2.91 -0.02 1.98 16
12 C 0.00 0.15 5.47 84.66 0.46 0.61 16
13 N -0.95 -59.63 13.96 21.45 0.30 -59.33 16
14 Si 0.95 42.97 27.47 68.60 1.88 44.85 16
15 H -0.27 -11.49 7.11 99.48 0.71 -10.78 16
16 H -0.29 -12.83 7.11 99.48 0.71 -12.12 16
17 H -0.24 -9.79 6.54 99.48 0.65 -9.14 16
18 S 0.14 3.31 21.54 -56.49 -1.22 2.10 16
19 C -0.22 -4.36 6.57 24.57 0.16 -4.20 16
20 C -0.07 -0.81 10.09 71.23 0.72 -0.09 16
21 H 0.06 0.77 8.14 -2.39 -0.02 0.75 16
22 H 0.08 0.79 8.14 -2.38 -0.02 0.77 16
23 H 0.04 0.66 8.14 -2.39 -0.02 0.64 16
24 H 0.11 1.07 6.69 -2.39 -0.02 1.06 16
25 H 0.07 1.26 8.14 -2.38 -0.02 1.24 16
26 H 0.10 2.79 7.98 -2.39 -0.02 2.77 16
27 H 0.10 2.79 7.97 -2.40 -0.02 2.77 16
28 H 0.06 2.38 8.14 -2.39 -0.02 2.36 16
29 H 0.06 2.38 8.14 -2.39 -0.02 2.37 16
30 H 0.03 1.23 7.20 -2.38 -0.02 1.21 16
31 H 0.03 1.15 7.57 -2.39 -0.02 1.13 16
32 H 0.27 15.52 8.31 -92.71 -0.77 14.75 16
33 H 0.09 0.79 8.14 -2.38 -0.02 0.77 16
34 H 0.08 0.77 8.14 -2.39 -0.02 0.75 16
35 H 0.10 0.72 6.74 -2.39 -0.02 0.70 16
Total: -1.00 -68.67 317.40 3.05 -65.61
By element:
Atomic # 1 Polarization: 2.98 SS G_CDS: 1.01 Total: 3.99 kcal
Atomic # 6 Polarization: -43.45 SS G_CDS: 4.34 Total: -39.11 kcal
Atomic # 7 Polarization: -73.95 SS G_CDS: -1.70 Total: -75.65 kcal
Atomic # 14 Polarization: 42.97 SS G_CDS: 1.88 Total: 44.85 kcal
Atomic # 16 Polarization: 2.79 SS G_CDS: -2.48 Total: 0.31 kcal
Total: -68.67 3.05 -65.61 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.
ZINC000845326808.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 59.451 kcal
(2) G-P(sol) polarization free energy of solvation -68.665 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -9.214 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.055 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -65.610 kcal
(6) G-S(sol) free energy of system = (1) + (5) -6.159 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.32 seconds