Wall clock time and date at job start Mon Mar 30 2020 05:00:35
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 1.53006 * 1
3 3 H 1.08998 * 109.99539 * 2 1
4 4 C 1.54323 * 109.87981 * 121.09644 * 2 1 3
5 5 H 1.09002 * 110.72250 * 23.24836 * 4 2 1
6 6 N 1.46897 * 110.72101 * 260.15016 * 4 2 1
7 7 C 1.46892 * 111.00042 * 63.87391 * 6 4 2
8 8 C 1.46903 * 110.99955 * 187.83056 * 6 4 2
9 9 C 1.55158 * 102.93774 * 141.60766 * 4 2 1
10 10 C 1.55124 * 101.48813 * 324.33377 * 9 4 2
11 11 N 1.47022 * 109.87842 * 238.90702 * 2 1 3
12 12 S 1.65596 * 125.65100 * 61.60543 * 11 2 1
13 13 O 1.42093 * 106.40450 * 336.45969 * 12 11 2
14 14 O 1.42105 * 106.40138 * 203.53791 * 12 11 2
15 15 C 1.76202 * 107.21429 * 89.99758 * 12 11 2
16 16 H 1.07998 * 120.00459 * 0.02562 * 15 12 11
17 17 C 1.37882 * 119.99840 * 180.27205 * 15 12 11
18 18 N 1.31518 * 119.99961 * 359.72959 * 17 15 12
19 19 Si 1.86798 * 120.00216 * 179.72332 * 17 15 12
20 20 H 1.48504 * 109.47015 * 0.02562 * 19 17 15
21 21 H 1.48504 * 109.46856 * 119.99951 * 19 17 15
22 22 H 1.48498 * 109.47227 * 240.00462 * 19 17 15
23 23 H 1.09003 * 109.47186 * 179.64092 * 1 2 3
24 24 H 1.09000 * 109.46796 * 299.64174 * 1 2 3
25 25 H 1.09003 * 109.46951 * 59.63796 * 1 2 3
26 26 H 1.08998 * 109.47280 * 59.99675 * 7 6 4
27 27 H 1.08998 * 109.47382 * 180.02562 * 7 6 4
28 28 H 1.08998 * 109.47246 * 299.99878 * 7 6 4
29 29 H 1.08996 * 109.47391 * 65.52385 * 8 6 4
30 30 H 1.08998 * 109.46946 * 185.52590 * 8 6 4
31 31 H 1.09005 * 109.46750 * 305.52157 * 8 6 4
32 32 H 1.09002 * 111.00510 * 82.57518 * 9 4 2
33 33 H 1.09002 * 111.00424 * 206.38143 * 9 4 2
34 34 H 1.09003 * 110.49370 * 278.45091 * 10 9 4
35 35 H 1.09004 * 110.34523 * 156.06399 * 10 9 4
36 36 H 0.97001 * 120.00261 * 179.97438 * 18 17 15
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 1.5301 0.0000 0.0000
3 1 1.9028 1.0243 0.0000
4 6 2.0548 -0.7495 1.2427
5 1 1.3051 -1.4460 1.6182
6 7 2.4526 0.1985 2.2920
7 6 1.2967 0.9665 2.7733
8 6 3.1231 -0.4941 3.4005
9 6 3.2876 -1.5143 0.6923
10 6 2.8099 -1.8825 -0.7369
11 7 2.0300 -0.7140 -1.1840
12 16 1.7564 -0.2815 -2.7589
13 8 0.5687 0.4986 -2.7603
14 8 1.9108 -1.4636 -3.5323
15 6 3.0626 0.8002 -3.2370
16 1 3.8397 1.0535 -2.5311
17 6 3.0898 1.3272 -4.5108
18 7 2.1437 1.0184 -5.3706
19 14 4.4703 2.4801 -5.0154
20 1 5.4020 2.6660 -3.8740
21 1 5.2070 1.8966 -6.1652
22 1 3.8997 3.7936 -5.4081
23 1 -0.3634 -1.0277 -0.0064
24 1 -0.3633 0.5083 0.8932
25 1 -0.3633 0.5195 -0.8867
26 1 0.5520 0.2840 3.1828
27 1 1.6193 1.6609 3.5490
28 1 0.8610 1.5248 1.9447
29 1 4.0652 -0.9148 3.0494
30 1 3.3191 0.2139 4.2057
31 1 2.4823 -1.2952 3.7691
32 1 4.1654 -0.8690 0.6603
33 1 3.4856 -2.4107 1.2799
34 1 2.1801 -2.7718 -0.7115
35 1 3.6655 -2.0413 -1.3933
36 1 2.1626 1.3895 -6.2666
RHF calculation, no. of doubly occupied orbitals= 47
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
ZINC000309889135.mol2 36
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 05:00:35
Heat of formation + Delta-G solvation = -108.133853 kcal
Electronic energy + Delta-G solvation = -19237.571578 eV
Core-core repulsion = 16268.131339 eV
Total energy + Delta-G solvation = -2969.440239 eV
No. of doubly occupied orbitals = 47
Molecular weight
(most abundant/longest-lived isotopes) = 262.114 amu
Computer time = 0.38 seconds
Orbital eigenvalues (eV)
-40.37606 -37.44752 -36.80484 -36.14866 -35.18959 -32.44505 -30.79817 -28.27290
-28.20742 -26.87670 -23.79215 -22.74757 -21.15602 -20.71106 -18.99039 -18.34087
-17.53997 -16.97960 -16.13729 -15.96404 -15.63711 -15.51680 -15.08278 -14.61473
-14.45079 -14.07413 -13.83835 -13.61053 -13.31489 -13.15847 -13.07636 -13.03807
-12.70442 -12.49239 -12.37752 -12.30330 -12.24514 -12.11339 -11.96440 -11.74597
-11.36754 -11.27262 -10.95666 -9.77741 -9.23572 -8.76156 -7.50264 0.27373
1.30922 1.31501 1.49980 2.19342 2.54945 2.78020 3.09334 3.52343
3.69237 3.78435 4.15094 4.29330 4.32654 4.36197 4.41057 4.51568
4.56837 4.63628 4.72729 4.75021 4.80552 4.90503 4.97409 5.07842
5.13424 5.16098 5.19884 5.28349 5.37866 5.51904 5.86641 5.90496
6.15671 6.19541 6.76196 8.19069
Molecular weight = 262.11amu
Principal moments of inertia in cm(-1)
A = 0.026264 B = 0.007044 C = 0.006629
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1065.826057 B = 3973.968791 C = 4223.061549
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.185 4.185
2 C 0.153 3.847
3 H 0.065 0.935
4 C 0.087 3.913
5 H 0.069 0.931
6 N -0.553 5.553
7 C 0.016 3.984
8 C 0.026 3.974
9 C -0.109 4.109
10 C 0.112 3.888
11 N -1.019 6.019
12 S 2.734 3.266
13 O -1.029 7.029
14 O -1.042 7.042
15 C -1.043 5.043
16 H 0.114 0.886
17 C 0.070 3.930
18 N -0.895 5.895
19 Si 0.989 3.011
20 H -0.249 1.249
21 H -0.256 1.256
22 H -0.257 1.257
23 H 0.058 0.942
24 H 0.090 0.910
25 H 0.057 0.943
26 H 0.036 0.964
27 H 0.082 0.918
28 H 0.061 0.939
29 H 0.075 0.925
30 H 0.078 0.922
31 H 0.034 0.966
32 H 0.082 0.918
33 H 0.111 0.889
34 H 0.070 0.930
35 H 0.068 0.932
36 H 0.299 0.701
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 3.060 -2.101 17.097 17.495
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 -0.244 4.244
2 C 0.047 3.953
3 H 0.083 0.917
4 C -0.023 4.023
5 H 0.087 0.913
6 N -0.278 5.278
7 C -0.132 4.132
8 C -0.122 4.122
9 C -0.148 4.148
10 C -0.014 4.014
11 N -0.857 5.857
12 S 2.837 3.163
13 O -1.020 7.020
14 O -1.032 7.032
15 C -1.176 5.176
16 H 0.132 0.868
17 C -0.143 4.143
18 N -0.526 5.526
19 Si 0.807 3.193
20 H -0.172 1.172
21 H -0.180 1.180
22 H -0.181 1.181
23 H 0.077 0.923
24 H 0.109 0.891
25 H 0.076 0.924
26 H 0.055 0.945
27 H 0.101 0.899
28 H 0.080 0.920
29 H 0.093 0.907
30 H 0.097 0.903
31 H 0.052 0.948
32 H 0.101 0.899
33 H 0.129 0.871
34 H 0.088 0.912
35 H 0.086 0.914
36 H 0.110 0.890
Dipole moment (debyes) X Y Z Total
from point charges 2.528 -2.067 16.128 16.455
hybrid contribution 0.148 0.270 -0.398 0.503
sum 2.676 -1.797 15.730 16.057
Atomic orbital electron populations
1.22608 0.95356 1.02618 1.03811 1.21269 0.93617 0.95925 0.84515
0.91705 1.22674 0.96848 0.92448 0.90290 0.91300 1.61947 1.27807
1.26263 1.11806 1.22557 0.91852 0.98017 1.00740 1.22440 0.99071
0.98026 0.92658 1.22878 0.97462 1.01027 0.93457 1.22148 0.94785
0.87746 0.96692 1.58659 1.67541 1.37956 1.21575 0.99512 0.74535
0.72987 0.69247 1.93266 1.50369 1.72364 1.85959 1.93293 1.88642
1.52279 1.68985 1.31036 1.31177 1.47925 1.07444 0.86805 1.26034
0.98668 0.95425 0.94153 1.69988 1.33517 1.41285 1.07843 0.85122
0.77256 0.77485 0.79435 1.17200 1.18023 1.18092 0.92300 0.89097
0.92429 0.94550 0.89885 0.91995 0.90665 0.90306 0.94770 0.89908
0.87095 0.91156 0.91353 0.89047
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 17.
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 -0.19 -6.39 8.84 71.98 0.64 -5.76 16
2 C 0.15 5.46 2.61 45.34 0.12 5.58 16
3 H 0.06 2.49 7.81 -2.39 -0.02 2.47 16
4 C 0.09 2.27 2.18 46.10 0.10 2.37 16
5 H 0.07 1.61 7.85 -2.39 -0.02 1.59 16
6 N -0.55 -12.52 4.84 -916.28 -4.44 -16.96 16
7 C 0.02 0.32 8.67 127.69 1.11 1.43 16
8 C 0.03 0.41 9.26 127.69 1.18 1.59 16
9 C -0.11 -2.70 5.41 32.06 0.17 -2.53 16
10 C 0.11 3.76 6.99 86.93 0.61 4.37 16
11 N -1.02 -43.34 3.40 -483.86 -1.64 -44.98 16
12 S 2.73 153.67 5.18 -56.49 -0.29 153.38 16
13 O -1.03 -62.44 15.17 -128.00 -1.94 -64.38 16
14 O -1.04 -64.54 17.60 -128.00 -2.25 -66.79 16
15 C -1.04 -60.05 9.75 67.74 0.66 -59.39 16
16 H 0.11 6.06 7.81 -2.91 -0.02 6.04 16
17 C 0.07 4.01 5.46 84.66 0.46 4.47 16
18 N -0.89 -54.72 13.19 21.45 0.28 -54.44 16
19 Si 0.99 42.54 29.54 68.60 2.03 44.56 16
20 H -0.25 -10.07 7.11 99.48 0.71 -9.36 16
21 H -0.26 -10.31 7.11 99.48 0.71 -9.60 16
22 H -0.26 -10.37 7.11 99.48 0.71 -9.66 16
23 H 0.06 1.90 8.14 -2.39 -0.02 1.88 16
24 H 0.09 2.45 6.12 -2.39 -0.01 2.44 16
25 H 0.06 2.46 5.79 -2.39 -0.01 2.44 16
26 H 0.04 0.63 8.14 -2.39 -0.02 0.61 16
27 H 0.08 1.35 8.06 -2.39 -0.02 1.33 16
28 H 0.06 1.41 5.84 -2.39 -0.01 1.39 16
29 H 0.07 1.14 7.33 -2.39 -0.02 1.12 16
30 H 0.08 1.07 8.02 -2.39 -0.02 1.05 16
31 H 0.03 0.49 8.13 -2.38 -0.02 0.47 16
32 H 0.08 2.12 8.14 -2.39 -0.02 2.10 16
33 H 0.11 1.92 8.14 -2.39 -0.02 1.90 16
34 H 0.07 2.16 8.14 -2.39 -0.02 2.14 16
35 H 0.07 2.38 8.14 -2.38 -0.02 2.36 16
36 H 0.30 16.33 8.31 -92.71 -0.77 15.56 16
Total: -1.00 -77.06 299.34 -2.16 -79.21
By element:
Atomic # 1 Polarization: 17.22 SS G_CDS: 1.06 Total: 18.27 kcal
Atomic # 6 Polarization: -52.92 SS G_CDS: 5.05 Total: -47.87 kcal
Atomic # 7 Polarization: -110.58 SS G_CDS: -5.80 Total: -116.38 kcal
Atomic # 8 Polarization: -126.98 SS G_CDS: -4.20 Total: -131.18 kcal
Atomic # 14 Polarization: 42.54 SS G_CDS: 2.03 Total: 44.56 kcal
Atomic # 16 Polarization: 153.67 SS G_CDS: -0.29 Total: 153.38 kcal
Total: -77.06 -2.16 -79.21 kcal
The number of atoms in the molecule is 36
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.
ZINC000309889135.mol2 36
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 -28.922 kcal
(2) G-P(sol) polarization free energy of solvation -77.056 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -105.978 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.155 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -79.212 kcal
(6) G-S(sol) free energy of system = (1) + (5) -108.134 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.38 seconds