Wall clock time and date at job start Sat Apr 11 2020 06:28:06
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
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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 S 1.81395 * 1
3 3 O 1.42095 * 110.54576 * 2 1
4 4 O 1.42102 * 110.54458 * 223.24688 * 2 1 3
5 5 C 1.76205 * 104.44999 * 111.62390 * 2 1 3
6 6 N 1.30633 * 125.44066 * 269.97582 * 5 2 1
7 7 N 1.40430 * 106.97492 * 179.80246 * 6 5 2
8 8 H 0.97001 * 126.83838 * 180.25196 * 7 6 5
9 9 C 1.34976 * 106.32768 * 0.35239 * 7 6 5
10 10 N 1.38602 * 126.06709 * 179.91765 * 9 7 6
11 11 C 1.34776 * 119.99790 * 359.70833 * 10 9 7
12 12 O 1.21765 * 120.00164 * 359.97438 * 11 10 9
13 13 C 1.46145 * 119.99756 * 180.02562 * 11 10 9
14 14 S 1.75664 * 125.22923 * 359.97391 * 13 11 10
15 15 C 1.75470 * 92.09140 * 180.02562 * 14 13 11
16 16 C 1.32757 * 111.37573 * 359.73840 * 15 14 13
17 17 C 1.39602 * 125.23262 * 179.97438 * 13 11 10
18 18 C 1.40500 * 123.71742 * 359.95450 * 17 13 11
19 19 H 1.07999 * 120.00571 * 335.72331 * 18 17 13
20 20 C 1.40321 * 119.99692 * 155.72122 * 18 17 13
21 21 N 1.30633 * 120.00190 * 339.52041 * 20 18 17
22 22 Si 1.86802 * 119.99981 * 159.52605 * 20 18 17
23 23 H 1.48506 * 109.46991 * 180.02562 * 22 20 18
24 24 H 1.48499 * 109.46737 * 299.99592 * 22 20 18
25 25 H 1.48493 * 109.47581 * 59.99698 * 22 20 18
26 26 N 1.31538 * 107.86694 * 359.64719 * 9 7 6
27 27 H 1.08998 * 109.47192 * 308.37572 * 1 2 3
28 28 H 1.09002 * 109.47168 * 68.37777 * 1 2 3
29 29 H 1.09000 * 109.47151 * 188.37591 * 1 2 3
30 30 H 0.96999 * 119.99749 * 179.71302 * 10 9 7
31 31 H 1.08007 * 124.31299 * 179.97438 * 15 14 13
32 32 H 1.08005 * 122.78074 * 180.25543 * 16 15 14
33 33 H 0.97000 * 119.99971 * 353.99846 * 21 20 18
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 16 1.8139 0.0000 0.0000
3 8 2.3126 1.3306 0.0000
4 8 2.3126 -0.9693 -0.9117
5 6 2.2536 -0.6288 1.5862
6 7 2.4431 0.0903 2.6602
7 7 2.7708 -0.7989 3.6965
8 1 2.9656 -0.5706 4.6189
9 6 2.7629 -2.0344 3.1530
10 7 3.0341 -3.2200 3.8178
11 6 3.3464 -3.2013 5.1287
12 8 3.3908 -2.1429 5.7290
13 6 3.6329 -4.4514 5.8295
14 16 3.6093 -6.0498 5.1011
15 6 4.0451 -6.8176 6.6175
16 6 4.1985 -5.9230 7.5863
17 6 3.9673 -4.5589 7.1806
18 6 4.0723 -3.4587 8.0480
19 1 4.2820 -2.4763 7.6513
20 6 3.9047 -3.6362 9.4298
21 7 3.2739 -4.6871 9.8815
22 14 4.5833 -2.3695 10.6233
23 1 4.2769 -2.7868 12.0151
24 1 6.0546 -2.2654 10.4508
25 1 3.9587 -1.0498 10.3527
26 7 2.4465 -1.9141 1.8819
27 1 -0.3633 0.6380 0.8056
28 1 -0.3633 0.3787 -0.9554
29 1 -0.3633 -1.0167 0.1497
30 1 2.9991 -4.0631 3.3394
31 1 4.1758 -7.8821 6.7455
32 1 4.4711 -6.1948 8.5954
33 1 2.8462 -5.2993 9.2626
RHF calculation, no. of doubly occupied orbitals= 56
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).
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC001364046553.mol2 33
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Sat Apr 11 2020 06:28:06
Heat of formation + Delta-G solvation = 6.101146 kcal
Electronic energy + Delta-G solvation = -24186.852140 eV
Core-core repulsion = 20275.475989 eV
Total energy + Delta-G solvation = -3911.376151 eV
No. of doubly occupied orbitals = 56
Molecular weight
(most abundant/longest-lived isotopes) = 342.029 amu
Computer time = 2.21 seconds
Orbital eigenvalues (eV)
-42.19969 -39.10008 -37.22410 -36.89438 -36.11522 -34.57762 -33.43429 -32.49323
-30.67209 -29.78388 -29.27596 -26.45716 -23.95643 -23.31359 -22.04839 -20.95736
-19.44655 -19.04083 -18.32200 -18.05118 -16.94507 -16.66939 -16.52315 -16.41329
-15.72091 -15.57242 -14.99080 -14.53528 -14.18104 -14.15104 -13.55983 -13.43222
-13.42437 -12.89451 -12.42803 -12.31693 -12.23554 -12.11832 -11.88671 -11.85611
-11.40173 -11.25018 -11.10743 -11.05192 -10.68336 -10.46635 -10.42651 -10.33017
-10.08711 -9.57918 -9.27630 -8.76697 -8.18057 -7.74328 -7.68735 -5.04334
-0.21307 1.30268 1.62246 2.24642 2.38059 2.55073 2.63133 2.80619
2.89521 3.10833 3.16871 3.32159 3.46475 3.62122 3.71683 3.87151
3.89377 4.49486 4.51794 4.66803 5.02136 5.38897 5.48523 5.55350
5.78936 6.02475 6.28178 6.33203 6.61431 6.78704 6.84535 7.15287
7.33842 7.45286 7.46071 7.96114 8.01318 8.22429 8.65692 9.35734
Molecular weight = 342.03amu
Principal moments of inertia in cm(-1)
A = 0.017420 B = 0.002949 C = 0.002592
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1607.006400 B = 9493.164606 C =10801.170601
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.641 4.641
2 S 2.545 3.455
3 O -0.917 6.917
4 O -0.909 6.909
5 C -0.286 4.286
6 N -0.226 5.226
7 N -0.454 5.454
8 H 0.458 0.542
9 C 0.526 3.474
10 N -0.636 5.636
11 C 0.594 3.406
12 O -0.557 6.557
13 C -0.439 4.439
14 S -0.025 6.025
15 C -0.172 4.172
16 C -0.146 4.146
17 C 0.112 3.888
18 C -0.397 4.397
19 H 0.114 0.886
20 C 0.026 3.974
21 N -0.754 5.754
22 Si 1.074 2.926
23 H -0.268 1.268
24 H -0.268 1.268
25 H -0.266 1.266
26 N -0.511 5.511
27 H 0.135 0.865
28 H 0.138 0.862
29 H 0.137 0.863
30 H 0.427 0.573
31 H 0.147 0.853
32 H 0.135 0.865
33 H 0.305 0.695
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -4.813 2.364 -8.168 9.771
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 -0.793 4.793
2 S 2.713 3.287
3 O -0.913 6.913
4 O -0.905 6.905
5 C -0.649 4.649
6 N -0.063 5.063
7 N -0.187 5.187
8 H 0.315 0.685
9 C 0.159 3.841
10 N -0.290 5.290
11 C 0.398 3.602
12 O -0.440 6.440
13 C -0.558 4.558
14 S 0.230 5.770
15 C -0.306 4.306
16 C -0.179 4.179
17 C 0.102 3.898
18 C -0.426 4.426
19 H 0.132 0.868
20 C -0.201 4.201
21 N -0.376 5.376
22 Si 0.894 3.106
23 H -0.192 1.192
24 H -0.192 1.192
25 H -0.191 1.191
26 N -0.250 5.250
27 H 0.153 0.847
28 H 0.157 0.843
29 H 0.156 0.844
30 H 0.266 0.734
31 H 0.164 0.836
32 H 0.152 0.848
33 H 0.120 0.880
Dipole moment (debyes) X Y Z Total
from point charges -4.384 3.450 -8.242 9.953
hybrid contribution -0.210 -0.990 0.995 1.420
sum -4.594 2.460 -7.247 8.926
Atomic orbital electron populations
1.30126 1.24281 1.12712 1.12165 1.04775 0.78189 0.74138 0.71549
1.93624 1.77724 1.35451 1.84549 1.93620 1.77435 1.61657 1.57762
1.37450 1.12692 0.95456 1.19290 1.77911 1.18737 1.15037 0.94571
1.48721 1.53431 1.03052 1.13513 0.68506 1.20579 0.93105 0.82718
0.87704 1.43028 1.69938 1.05145 1.10904 1.17024 0.76093 0.89234
0.77840 1.90465 1.56698 1.31789 1.65036 1.21845 1.43593 0.91430
0.98938 1.82963 1.80029 1.00731 1.13323 1.25015 1.07056 1.01900
0.96634 1.21545 1.03781 0.92960 0.99600 1.17867 0.89620 0.91613
0.90741 1.21221 1.30780 0.98041 0.92586 0.86848 1.27746 0.93859
0.99390 0.99077 1.70449 1.16715 1.07874 1.42529 0.83485 0.77603
0.74437 0.75045 1.19208 1.19241 1.19123 1.70653 1.27310 1.16892
1.10113 0.84677 0.84324 0.84394 0.73388 0.83563 0.84769 0.88049
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 52.
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 -0.64 -4.09 10.80 101.05 1.09 -3.00 16
2 S 2.55 29.65 5.97 -107.50 -0.64 29.01 16
3 O -0.92 -13.00 17.92 -57.54 -1.03 -14.03 16
4 O -0.91 -13.14 17.93 -57.54 -1.03 -14.17 16
5 C -0.29 -4.60 7.73 -91.83 -0.71 -5.31 16
6 N -0.23 -3.93 12.75 29.95 0.38 -3.55 16
7 N -0.45 -8.42 7.05 30.08 0.21 -8.21 16
8 H 0.46 8.48 6.47 -182.35 -1.18 7.30 16
9 C 0.53 9.91 8.83 -320.46 -2.83 7.08 16
10 N -0.64 -11.96 5.38 -14.09 -0.08 -12.03 16
11 C 0.59 12.89 7.72 -13.09 -0.10 12.79 16
12 O -0.56 -12.87 11.98 5.13 0.06 -12.81 16
13 C -0.44 -9.75 6.50 -35.90 -0.23 -9.99 16
14 S -0.03 -0.47 22.25 -107.50 -2.39 -2.86 16
15 C -0.17 -3.15 11.06 28.86 0.32 -2.83 16
16 C -0.15 -3.02 8.19 -39.13 -0.32 -3.34 16
17 C 0.11 2.60 5.40 -106.21 -0.57 2.03 16
18 C -0.40 -9.37 8.44 -37.95 -0.32 -9.69 16
19 H 0.11 2.79 6.13 -52.49 -0.32 2.47 16
20 C 0.03 0.56 5.24 -17.28 -0.09 0.47 16
21 N -0.75 -16.83 12.49 55.57 0.69 -16.14 16
22 Si 1.07 18.73 29.98 -169.99 -5.10 13.63 16
23 H -0.27 -4.58 7.11 56.52 0.40 -4.18 16
24 H -0.27 -4.49 7.11 56.52 0.40 -4.09 16
25 H -0.27 -4.57 7.11 56.52 0.40 -4.17 16
26 N -0.51 -9.10 11.21 -14.34 -0.16 -9.26 16
27 H 0.13 0.72 8.14 -51.92 -0.42 0.30 16
28 H 0.14 0.50 8.14 -51.92 -0.42 0.08 16
29 H 0.14 0.77 8.14 -51.92 -0.42 0.35 16
30 H 0.43 7.23 7.90 -40.82 -0.32 6.91 16
31 H 0.15 2.19 8.06 -52.48 -0.42 1.77 16
32 H 0.13 2.72 6.79 -52.48 -0.36 2.36 16
33 H 0.30 6.87 6.22 -40.82 -0.25 6.62 16
LS Contribution 322.15 15.07 4.85 4.85
Total: -1.00 -30.73 322.15 -10.92 -41.65
By element:
Atomic # 1 Polarization: 18.63 SS G_CDS: -2.92 Total: 15.70 kcal
Atomic # 6 Polarization: -8.02 SS G_CDS: -3.77 Total: -11.79 kcal
Atomic # 7 Polarization: -50.24 SS G_CDS: 1.05 Total: -49.19 kcal
Atomic # 8 Polarization: -39.00 SS G_CDS: -2.00 Total: -41.00 kcal
Atomic # 14 Polarization: 18.73 SS G_CDS: -5.10 Total: 13.63 kcal
Atomic # 16 Polarization: 29.18 SS G_CDS: -3.03 Total: 26.15 kcal
Total LS contribution 4.85 Total: 4.85 kcal
Total: -30.73 -10.92 -41.65 kcal
The number of atoms in the molecule is 33
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.
ZINC001364046553.mol2 33
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 47.746 kcal
(2) G-P(sol) polarization free energy of solvation -30.728 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 17.018 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -10.917 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -41.645 kcal
(6) G-S(sol) free energy of system = (1) + (5) 6.101 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 2.21 seconds