Wall clock time and date at job start Tue Mar 31 2020 14:40:02
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 1.52999 * 1
3 3 H 1.09000 * 109.47357 * 2 1
4 4 C 1.50696 * 109.46998 * 240.00382 * 2 1 3
5 5 C 1.33083 * 120.00360 * 125.00028 * 4 2 1
6 6 C 1.46949 * 120.00347 * 180.02562 * 5 4 2
7 7 O 1.21531 * 120.00010 * 359.97438 * 6 5 4
8 8 O 1.34800 * 120.00001 * 180.02562 * 6 5 4
9 9 N 1.46495 * 109.47039 * 120.00282 * 2 1 3
10 10 S 1.65606 * 120.00104 * 264.99870 * 9 2 1
11 11 O 1.42095 * 106.39828 * 311.45796 * 10 9 2
12 12 O 1.42099 * 106.40039 * 178.54185 * 10 9 2
13 13 C 1.76196 * 107.21539 * 65.00195 * 10 9 2
14 14 C 1.38661 * 119.87204 * 269.97491 * 13 10 9
15 15 C 1.38617 * 120.49583 * 180.02562 * 14 13 10
16 16 C 1.37635 * 120.25342 * 0.02562 * 15 14 13
17 17 C 1.40700 * 119.74061 * 0.02562 * 16 15 14
18 18 C 1.41398 * 120.24232 * 180.02562 * 17 16 15
19 19 H 1.07996 * 119.99853 * 335.57949 * 18 17 16
20 20 C 1.39945 * 119.99944 * 155.57438 * 18 17 16
21 21 N 1.30826 * 120.00259 * 341.92569 * 20 18 17
22 22 Si 1.86806 * 119.99911 * 161.92338 * 20 18 17
23 23 H 1.48501 * 109.46904 * 0.02562 * 22 20 18
24 24 H 1.48497 * 109.47094 * 120.00303 * 22 20 18
25 25 H 1.48500 * 109.46961 * 240.00232 * 22 20 18
26 26 C 1.37599 * 119.87557 * 90.00268 * 13 10 9
27 27 H 1.08999 * 109.47295 * 59.99483 * 1 2 3
28 28 H 1.09000 * 109.47357 * 179.97438 * 1 2 3
29 29 H 1.09003 * 109.47190 * 299.99934 * 1 2 3
30 30 H 1.08008 * 120.00061 * 304.99911 * 4 2 1
31 31 H 1.08003 * 119.99333 * 0.02562 * 5 4 2
32 32 H 0.96695 * 116.99858 * 179.97438 * 8 6 5
33 33 H 0.97007 * 119.99854 * 85.00130 * 9 2 1
34 34 H 1.07988 * 119.75201 * 0.02562 * 14 13 10
35 35 H 1.08003 * 119.86873 * 179.97438 * 15 14 13
36 36 H 1.07999 * 120.13160 * 180.02562 * 16 15 14
37 37 H 0.96997 * 120.00151 * 180.02562 * 21 20 18
38 38 H 1.07990 * 120.12801 * 0.25159 * 26 13 10
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 1 1.8934 1.0276 0.0000
4 6 2.0323 -0.7103 -1.2305
5 6 2.8773 -0.0962 -2.0550
6 6 3.3667 -0.7887 -3.2552
7 8 3.0001 -1.9224 -3.4946
8 8 4.2231 -0.1668 -4.0901
9 7 2.0183 -0.6906 1.1961
10 16 2.4122 0.1771 2.5505
11 8 3.2437 1.2441 2.1156
12 8 2.8124 -0.7700 3.5314
13 6 0.9275 0.9145 3.1474
14 6 0.5532 2.1728 2.7007
15 6 -0.6118 2.7653 3.1622
16 6 -1.4106 2.1092 4.0710
17 6 -1.0401 0.8326 4.5320
18 6 -1.8531 0.1488 5.4653
19 1 -2.5114 0.7042 6.1168
20 6 -1.8047 -1.2475 5.5445
21 7 -1.3017 -1.9418 4.5563
22 14 -2.4582 -2.1202 7.0614
23 1 -2.9707 -1.1159 8.0279
24 1 -3.5593 -3.0363 6.6696
25 1 -1.3647 -2.9020 7.6923
26 6 0.1441 0.2400 4.0555
27 1 -0.3634 0.5139 -0.8899
28 1 -0.3634 -1.0276 -0.0005
29 1 -0.3634 0.5138 0.8900
30 1 1.7065 -1.7179 -1.4433
31 1 3.2034 0.9111 -1.8420
32 1 4.5175 -0.6627 -4.8662
33 1 2.1109 -1.6563 1.1947
34 1 1.1741 2.6949 1.9880
35 1 -0.8934 3.7459 2.8077
36 1 -2.3181 2.5726 4.4289
37 1 -1.2685 -2.9097 4.6111
38 1 0.4398 -0.7379 4.4055
RHF calculation, no. of doubly occupied orbitals= 57
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
ZINC001604059137.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 14:40:02
Heat of formation + Delta-G solvation = -161.201723 kcal
Electronic energy + Delta-G solvation = -25112.460086 eV
Core-core repulsion = 21238.724714 eV
Total energy + Delta-G solvation = -3873.735373 eV
No. of doubly occupied orbitals = 57
Molecular weight
(most abundant/longest-lived isotopes) = 325.086 amu
Computer time = 0.51 seconds
Orbital eigenvalues (eV)
-41.12158 -39.42413 -38.52136 -37.99665 -37.03234 -36.91021 -35.61432 -33.64421
-32.06390 -31.35162 -30.48903 -27.30094 -26.10109 -23.54520 -23.05040 -22.86019
-21.06473 -20.31559 -19.58303 -19.25437 -18.47006 -18.05635 -17.77183 -16.96261
-16.72122 -16.56628 -16.50553 -15.98061 -15.23438 -15.20463 -14.98484 -14.61218
-14.37604 -14.14218 -13.80341 -13.47192 -13.28253 -13.18025 -13.15578 -13.02827
-12.85357 -12.84192 -12.63334 -12.60046 -12.52967 -12.24394 -12.11788 -11.74387
-11.62690 -11.30759 -11.12314 -10.80681 -10.55571 -9.85517 -9.43074 -8.72810
-6.39979 -0.55625 0.05716 0.43011 0.95662 1.38130 1.46686 1.52219
1.86478 2.10877 2.17792 2.23490 2.56924 2.81986 3.47112 3.56217
3.67506 3.87253 4.18025 4.29367 4.32771 4.39312 4.45938 4.58339
4.76208 4.90007 4.96867 5.04902 5.11904 5.22904 5.26445 5.28891
5.45584 5.46505 5.58567 5.66100 5.87875 5.97389 6.03437 6.23797
6.49665 6.84579 6.89224 6.98319 8.26200
Molecular weight = 325.09amu
Principal moments of inertia in cm(-1)
A = 0.017332 B = 0.003479 C = 0.003315
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1615.128708 B = 8047.447842 C = 8445.532240
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.175 4.175
2 C 0.172 3.828
3 H 0.113 0.887
4 C -0.044 4.044
5 C -0.183 4.183
6 C 0.520 3.480
7 O -0.555 6.555
8 O -0.506 6.506
9 N -1.102 6.102
10 S 2.713 3.287
11 O -0.981 6.981
12 O -1.000 7.000
13 C -0.644 4.644
14 C -0.151 4.151
15 C -0.104 4.104
16 C -0.195 4.195
17 C 0.060 3.940
18 C -0.495 4.495
19 H 0.080 0.920
20 C 0.035 3.965
21 N -0.818 5.818
22 Si 0.976 3.024
23 H -0.257 1.257
24 H -0.263 1.263
25 H -0.268 1.268
26 C -0.084 4.084
27 H 0.092 0.908
28 H 0.064 0.936
29 H 0.059 0.941
30 H 0.137 0.863
31 H 0.163 0.837
32 H 0.431 0.569
33 H 0.426 0.574
34 H 0.134 0.866
35 H 0.136 0.864
36 H 0.109 0.891
37 H 0.291 0.709
38 H 0.114 0.886
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 4.674 2.157 -12.817 13.812
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 -0.233 4.233
2 C 0.066 3.934
3 H 0.131 0.869
4 C -0.064 4.064
5 C -0.203 4.203
6 C 0.367 3.633
7 O -0.448 6.448
8 O -0.320 6.320
9 N -0.862 5.862
10 S 2.807 3.193
11 O -0.971 6.971
12 O -0.990 6.990
13 C -0.735 4.735
14 C -0.172 4.172
15 C -0.123 4.123
16 C -0.215 4.215
17 C 0.057 3.943
18 C -0.524 4.524
19 H 0.099 0.901
20 C -0.181 4.181
21 N -0.443 5.443
22 Si 0.797 3.203
23 H -0.181 1.181
24 H -0.188 1.188
25 H -0.193 1.193
26 C -0.105 4.105
27 H 0.111 0.889
28 H 0.084 0.916
29 H 0.078 0.922
30 H 0.155 0.845
31 H 0.181 0.819
32 H 0.293 0.707
33 H 0.262 0.738
34 H 0.152 0.848
35 H 0.153 0.847
36 H 0.127 0.873
37 H 0.102 0.898
38 H 0.132 0.868
Dipole moment (debyes) X Y Z Total
from point charges 5.336 2.111 -12.273 13.549
hybrid contribution -0.965 -1.255 0.319 1.615
sum 4.371 0.856 -11.954 12.757
Atomic orbital electron populations
1.22364 0.93392 1.03725 1.03862 1.20074 0.95193 0.96584 0.81556
0.86914 1.23883 0.90826 0.99935 0.91745 1.22151 1.01368 1.03226
0.93529 1.21336 0.75235 0.83444 0.83331 1.90911 1.57930 1.20816
1.75118 1.84592 1.58555 1.50270 1.38546 1.55382 1.83924 1.20310
1.26615 1.00879 0.73752 0.72587 0.72067 1.93493 1.65231 1.56411
1.82001 1.93510 1.82424 1.63183 1.59914 1.30197 1.22430 1.07532
1.13300 1.20424 0.98969 0.93808 1.03980 1.21033 0.94634 0.99475
0.97140 1.21486 1.00790 0.97513 1.01734 1.18041 0.91673 0.92675
0.91927 1.19860 1.22124 0.92298 1.18115 0.90139 1.26709 0.93740
0.98362 0.99247 1.69770 1.34862 1.09233 1.30480 0.85231 0.78691
0.78341 0.78000 1.18078 1.18776 1.19330 1.21028 0.93400 0.99265
0.96821 0.88923 0.91648 0.92229 0.84509 0.81948 0.70743 0.73796
0.84803 0.84653 0.87330 0.89817 0.86846
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 C -0.17 -4.27 9.50 71.98 0.68 -3.59 16
2 C 0.17 4.01 3.27 44.24 0.14 4.15 16
3 H 0.11 2.42 7.18 -2.39 -0.02 2.41 16
4 C -0.04 -0.86 8.60 24.53 0.21 -0.65 16
5 C -0.18 -3.34 9.76 23.40 0.23 -3.11 16
6 C 0.52 10.31 8.28 70.10 0.58 10.89 16
7 O -0.55 -14.47 17.01 19.73 0.34 -14.13 16
8 O -0.51 -7.10 13.44 -57.12 -0.77 -7.87 16
9 N -1.10 -31.20 5.46 -172.54 -0.94 -32.15 16
10 S 2.71 101.14 5.71 -56.49 -0.32 100.82 16
11 O -0.98 -37.25 16.60 -128.00 -2.13 -39.38 16
12 O -1.00 -44.40 17.26 -128.00 -2.21 -46.61 16
13 C -0.64 -27.31 5.05 22.22 0.11 -27.20 16
14 C -0.15 -5.78 8.59 22.46 0.19 -5.59 16
15 C -0.10 -3.98 10.02 22.22 0.22 -3.76 16
16 C -0.20 -8.68 9.80 22.73 0.22 -8.46 16
17 C 0.06 3.05 5.58 -21.29 -0.12 2.94 16
18 C -0.49 -25.40 9.05 23.46 0.21 -25.19 16
19 H 0.08 3.97 7.91 -2.91 -0.02 3.95 16
20 C 0.04 1.71 5.14 85.26 0.44 2.15 16
21 N -0.82 -40.82 10.97 21.83 0.24 -40.58 16
22 Si 0.98 37.28 29.60 68.60 2.03 39.31 16
23 H -0.26 -9.60 7.11 99.48 0.71 -8.89 16
24 H -0.26 -9.52 7.11 99.48 0.71 -8.82 16
25 H -0.27 -10.13 7.11 99.48 0.71 -9.42 16
26 C -0.08 -4.19 8.16 22.73 0.19 -4.00 16
27 H 0.09 1.76 8.14 -2.39 -0.02 1.74 16
28 H 0.06 1.61 8.14 -2.39 -0.02 1.59 16
29 H 0.06 1.82 6.17 -2.39 -0.01 1.81 16
30 H 0.14 2.72 7.49 -2.91 -0.02 2.69 16
31 H 0.16 2.40 7.87 -2.91 -0.02 2.37 16
32 H 0.43 2.19 9.11 -74.06 -0.67 1.52 16
33 H 0.43 10.64 8.83 -96.73 -0.85 9.78 16
34 H 0.13 4.33 7.60 -2.92 -0.02 4.31 16
35 H 0.14 4.11 8.06 -2.91 -0.02 4.09 16
36 H 0.11 4.47 8.06 -2.91 -0.02 4.45 16
37 H 0.29 13.18 8.30 -92.71 -0.77 12.42 16
38 H 0.11 6.10 5.71 -2.92 -0.02 6.09 16
Total: -1.00 -69.10 346.74 -0.85 -69.95
By element:
Atomic # 1 Polarization: 32.48 SS G_CDS: -0.40 Total: 32.08 kcal
Atomic # 6 Polarization: -64.75 SS G_CDS: 3.32 Total: -61.43 kcal
Atomic # 7 Polarization: -72.02 SS G_CDS: -0.70 Total: -72.73 kcal
Atomic # 8 Polarization: -103.22 SS G_CDS: -4.77 Total: -107.99 kcal
Atomic # 14 Polarization: 37.28 SS G_CDS: 2.03 Total: 39.31 kcal
Atomic # 16 Polarization: 101.14 SS G_CDS: -0.32 Total: 100.82 kcal
Total: -69.10 -0.85 -69.95 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.
ZINC001604059137.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 -91.253 kcal
(2) G-P(sol) polarization free energy of solvation -69.101 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -160.353 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.848 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -69.949 kcal
(6) G-S(sol) free energy of system = (1) + (5) -161.202 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.51 seconds