Wall clock time and date at job start Mon Mar 30 2020 06:24:56
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 O 1.42904 * 1
3 3 C 1.35670 * 116.99804 * 2 1
4 4 C 1.38413 * 119.72791 * 359.97438 * 3 2 1
5 5 C 1.37895 * 120.41055 * 180.02562 * 4 3 2
6 6 C 1.39392 * 120.07668 * 0.27670 * 5 4 3
7 7 C 1.43196 * 119.93109 * 179.72379 * 6 5 4
8 8 N 6.70278 * 116.50536 * 359.82580 * 2 1 3
9 9 C 1.41354 * 120.12608 * 359.45152 * 6 5 4
10 10 S 1.75770 * 130.21725 * 180.21502 * 9 6 5
11 11 C 1.69989 * 93.21150 * 180.30590 * 10 9 6
12 12 C 1.36444 * 111.90390 * 359.97438 * 11 10 9
13 13 C 1.40806 * 123.29551 * 180.02562 * 12 11 10
14 14 H 1.07997 * 120.00183 * 156.66220 * 13 12 11
15 15 C 1.39713 * 119.99823 * 336.65705 * 13 12 11
16 16 N 1.31068 * 120.00280 * 348.92659 * 15 13 12
17 17 Si 1.86800 * 119.99705 * 168.92805 * 15 13 12
18 18 H 1.48503 * 109.47357 * 359.97438 * 17 15 13
19 19 H 1.48506 * 109.47220 * 120.00158 * 17 15 13
20 20 H 1.48503 * 109.47026 * 239.99744 * 17 15 13
21 21 C 1.39104 * 119.55334 * 0.54526 * 9 6 5
22 22 H 1.09001 * 109.47123 * 180.02562 * 1 2 3
23 23 H 1.09004 * 109.47098 * 299.99909 * 1 2 3
24 24 H 1.09004 * 109.47159 * 59.99919 * 1 2 3
25 25 H 1.08002 * 119.78977 * 0.02562 * 4 3 2
26 26 H 1.08002 * 119.95795 * 180.02562 * 5 4 3
27 27 H 1.08003 * 124.04506 * 179.97438 * 11 10 9
28 28 H 0.97000 * 120.00302 * 180.02562 * 16 15 13
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 8 1.4290 0.0000 0.0000
3 6 2.0449 1.2088 0.0000
4 6 1.2855 2.3661 -0.0005
5 6 1.8968 3.6021 -0.0011
6 6 3.2877 3.6936 -0.0069
7 6 3.9193 4.9787 -0.0134
8 7 4.4204 5.9982 -0.0182
9 6 4.0759 2.5202 -0.0006
10 16 5.8229 2.3264 -0.0004
11 6 5.7305 0.6290 0.0003
12 6 4.4387 0.1896 0.0011
13 6 4.0860 -1.1735 0.0023
14 1 3.1194 -1.4809 0.3734
15 6 4.9864 -2.1285 -0.4765
16 7 6.0617 -1.7494 -1.1229
17 14 4.6575 -3.9458 -0.1956
18 1 3.3866 -4.1086 0.5551
19 1 4.5517 -4.6379 -1.5052
20 1 5.7732 -4.5354 0.5872
21 6 3.4540 1.2759 0.0000
22 1 -0.3633 -1.0277 0.0005
23 1 -0.3633 0.5138 0.8900
24 1 -0.3634 0.5139 -0.8900
25 1 0.2075 2.3004 -0.0005
26 1 1.2972 4.5004 -0.0011
27 1 6.5912 -0.0234 0.0003
28 1 6.6866 -2.4124 -1.4557
RHF calculation, no. of doubly occupied orbitals= 43
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=WATER
ZINC000396215772.mol2 28
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 06:24:56
Heat of formation + Delta-G solvation = 9.232757 kcal
Electronic energy + Delta-G solvation = -16175.272068 eV
Core-core repulsion = 13475.134442 eV
Total energy + Delta-G solvation = -2700.137627 eV
No. of doubly occupied orbitals = 43
Molecular weight
(most abundant/longest-lived isotopes) = 259.041 amu
Computer time = 0.29 seconds
Orbital eigenvalues (eV)
-41.13611 -38.82742 -37.58545 -36.43598 -34.14109 -31.35010 -30.16614 -28.54595
-27.40653 -24.19989 -24.03962 -21.61375 -19.97764 -19.08616 -18.29361 -17.31105
-16.76320 -16.53644 -16.35662 -15.51996 -15.12707 -15.03475 -14.64443 -14.55909
-13.85513 -13.66942 -13.38478 -13.16113 -13.09216 -12.73771 -12.68425 -12.54788
-12.23016 -11.93386 -11.74942 -11.48951 -11.21935 -10.97532 -9.72303 -9.23164
-8.53450 -8.37119 -6.23804 -0.14891 0.19693 0.97837 1.28128 1.41316
1.56386 1.64667 1.73084 1.89983 2.19702 2.27690 2.53107 2.85870
3.05796 3.41190 3.88377 4.09231 4.29759 4.48516 4.57236 4.57888
4.80470 4.90636 5.07172 5.23540 5.30077 5.35170 5.62402 5.77231
6.05180 6.49805 6.55182 6.64747 6.90815 7.01374 8.45519
Molecular weight = 259.04amu
Principal moments of inertia in cm(-1)
A = 0.021041 B = 0.008449 C = 0.006110
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1330.424499 B = 3313.056570 C = 4581.375100
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.008 3.992
2 O -0.318 6.318
3 C 0.204 3.796
4 C -0.229 4.229
5 C 0.008 3.992
6 C -0.079 4.079
7 C 0.285 3.715
8 N -0.467 5.467
9 C -0.082 4.082
10 S 0.071 5.929
11 C -0.403 4.403
12 C 0.075 3.925
13 C -0.447 4.447
14 H 0.090 0.910
15 C 0.022 3.978
16 N -0.834 5.834
17 Si 0.984 3.016
18 H -0.252 1.252
19 H -0.269 1.269
20 H -0.272 1.272
21 C -0.136 4.136
22 H 0.110 0.890
23 H 0.078 0.922
24 H 0.075 0.925
25 H 0.182 0.818
26 H 0.179 0.821
27 H 0.136 0.864
28 H 0.281 0.719
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -12.909 1.921 1.725 13.165
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 -0.086 4.086
2 O -0.229 6.229
3 C 0.154 3.846
4 C -0.251 4.251
5 C -0.014 4.014
6 C -0.090 4.090
7 C -0.028 4.028
8 N -0.144 5.144
9 C -0.201 4.201
10 S 0.336 5.664
11 C -0.539 4.539
12 C 0.066 3.934
13 C -0.480 4.480
14 H 0.108 0.892
15 C -0.190 4.190
16 N -0.462 5.462
17 Si 0.805 3.195
18 H -0.175 1.175
19 H -0.194 1.194
20 H -0.197 1.197
21 C -0.147 4.147
22 H 0.129 0.871
23 H 0.096 0.904
24 H 0.094 0.906
25 H 0.199 0.801
26 H 0.196 0.804
27 H 0.154 0.846
28 H 0.091 0.909
Dipole moment (debyes) X Y Z Total
from point charges -10.542 4.066 1.595 11.411
hybrid contribution -0.700 -2.354 -0.125 2.459
sum -11.242 1.712 1.470 11.466
Atomic orbital electron populations
1.23519 0.76305 1.05598 1.03140 1.86257 1.23587 1.26728 1.86371
1.19294 0.89431 0.85799 0.90106 1.21178 1.01640 0.89768 1.12519
1.21109 0.90038 0.99236 0.91003 1.15311 0.93118 0.82831 1.17738
1.25692 0.92672 0.92423 0.92056 1.81152 1.08494 1.12550 1.12205
1.22573 0.98091 0.94987 1.04436 1.81826 1.00109 1.05075 1.79421
1.24147 1.01251 0.95098 1.33387 1.17644 0.89177 0.93194 0.93353
1.19447 1.02137 0.90402 1.35983 0.89237 1.26754 0.93993 1.05938
0.92344 1.69985 1.11098 1.37485 1.27638 0.85118 0.79535 0.75972
0.78845 1.17506 1.19441 1.19721 1.19037 0.92407 0.92762 1.10464
0.87122 0.90373 0.90621 0.80095 0.80412 0.84614 0.90878
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 0.01 0.16 9.80 113.37 1.11 1.27 15
2 O -0.32 -10.92 8.39 -89.86 -0.75 -11.68 15
3 C 0.20 7.31 6.75 23.01 0.16 7.46 15
4 C -0.23 -5.73 8.98 22.23 0.20 -5.53 15
5 C 0.01 0.21 9.72 22.47 0.22 0.43 15
6 C -0.08 -2.69 5.77 -20.99 -0.12 -2.81 15
7 C 0.28 9.92 15.04 88.33 1.33 11.25 15
8 N -0.47 -17.26 18.54 19.00 0.35 -16.91 15
9 C -0.08 -3.49 6.31 23.24 0.15 -3.34 15
10 S 0.07 3.29 22.64 -56.49 -1.28 2.01 15
11 C -0.40 -21.87 9.50 67.40 0.64 -21.23 15
12 C 0.07 4.02 5.68 -20.88 -0.12 3.90 15
13 C -0.45 -23.82 8.69 23.25 0.20 -23.62 15
14 H 0.09 4.56 6.37 -2.91 -0.02 4.55 15
15 C 0.02 1.13 5.35 85.16 0.46 1.59 15
16 N -0.83 -45.14 10.84 21.80 0.24 -44.90 15
17 Si 0.98 38.82 29.57 68.60 2.03 40.85 15
18 H -0.25 -9.44 7.11 99.48 0.71 -8.74 15
19 H -0.27 -10.24 7.11 99.48 0.71 -9.53 15
20 H -0.27 -10.51 7.11 99.48 0.71 -9.80 15
21 C -0.14 -6.19 6.03 -20.19 -0.12 -6.32 15
22 H 0.11 1.83 8.14 -2.39 -0.02 1.81 15
23 H 0.08 1.14 7.64 -2.39 -0.02 1.13 15
24 H 0.08 1.15 7.64 -2.38 -0.02 1.13 15
25 H 0.18 2.76 6.21 -2.91 -0.02 2.75 15
26 H 0.18 2.78 8.06 -2.91 -0.02 2.75 15
27 H 0.14 7.98 6.33 -2.91 -0.02 7.96 15
28 H 0.28 13.88 8.30 -92.71 -0.77 13.11 15
Total: -1.00 -66.38 267.63 5.90 -60.48
By element:
Atomic # 1 Polarization: 5.90 SS G_CDS: 1.22 Total: 7.11 kcal
Atomic # 6 Polarization: -41.05 SS G_CDS: 4.10 Total: -36.96 kcal
Atomic # 7 Polarization: -62.40 SS G_CDS: 0.59 Total: -61.81 kcal
Atomic # 8 Polarization: -10.92 SS G_CDS: -0.75 Total: -11.68 kcal
Atomic # 14 Polarization: 38.82 SS G_CDS: 2.03 Total: 40.85 kcal
Atomic # 16 Polarization: 3.29 SS G_CDS: -1.28 Total: 2.01 kcal
Total: -66.38 5.90 -60.48 kcal
The number of atoms in the molecule is 28
The average number of expansion shells was 15.00
The maximum number of expansion shells was 15
The minimum number of expansion shells was 15
**** 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.
ZINC000396215772.mol2 28
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 69.711 kcal
(2) G-P(sol) polarization free energy of solvation -66.376 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 3.335 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 5.898 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -60.478 kcal
(6) G-S(sol) free energy of system = (1) + (5) 9.233 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.29 seconds