Wall clock time and date at job start Tue Mar 31 2020 02:49:43
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
* 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 1.52992 * 1
3 3 H 1.08995 * 109.51570 * 2 1
4 4 C 1.53295 * 109.51521 * 239.90153 * 2 1 3
5 5 N 1.47152 * 108.38588 * 187.77780 * 4 2 1
6 6 S 1.65606 * 120.97836 * 230.51072 * 5 4 2
7 7 O 1.42094 * 104.27817 * 333.92620 * 6 5 4
8 8 O 1.42106 * 104.27580 * 206.06852 * 6 5 4
9 9 C 1.81396 * 104.45103 * 89.99836 * 6 5 4
10 10 C 1.52997 * 109.47360 * 179.97438 * 9 6 5
11 11 C 1.53000 * 109.47060 * 180.02562 * 10 9 6
12 12 C 1.50706 * 109.46735 * 180.02562 * 11 10 9
13 13 H 1.07996 * 119.99928 * 359.97438 * 12 11 10
14 14 C 1.37880 * 119.99611 * 179.97438 * 12 11 10
15 15 N 1.31511 * 120.00327 * 359.97438 * 14 12 11
16 16 Si 1.86803 * 119.99743 * 179.97438 * 14 12 11
17 17 H 1.48506 * 109.46725 * 60.00093 * 16 14 12
18 18 H 1.48505 * 109.46988 * 179.97438 * 16 14 12
19 19 H 1.48494 * 109.47116 * 300.00069 * 16 14 12
20 20 C 1.47153 * 118.04149 * 50.78078 * 5 4 2
21 21 C 1.53706 * 108.15825 * 309.16299 * 20 5 4
22 22 H 1.08997 * 109.66009 * 292.56418 * 21 20 5
23 23 C 1.53005 * 109.48483 * 172.39703 * 21 20 5
24 24 O 1.42964 * 109.51193 * 120.15415 * 2 1 3
25 25 H 1.09007 * 109.47071 * 180.09901 * 1 2 3
26 26 H 1.09000 * 109.47439 * 300.10249 * 1 2 3
27 27 H 1.08999 * 109.46870 * 60.10050 * 1 2 3
28 28 H 1.08996 * 109.68417 * 68.04760 * 4 2 1
29 29 H 1.09007 * 109.67808 * 307.49385 * 4 2 1
30 30 H 1.09002 * 109.47134 * 59.99751 * 9 6 5
31 31 H 1.08998 * 109.46953 * 300.00489 * 9 6 5
32 32 H 1.09002 * 109.47153 * 59.99820 * 10 9 6
33 33 H 1.09001 * 109.46832 * 300.00011 * 10 9 6
34 34 H 1.09001 * 109.47194 * 299.99650 * 11 10 9
35 35 H 1.08992 * 109.47399 * 59.99823 * 11 10 9
36 36 H 0.97000 * 120.00354 * 180.02562 * 15 14 12
37 37 H 1.09002 * 109.67814 * 68.93618 * 20 5 4
38 38 H 1.08988 * 109.68402 * 189.49185 * 20 5 4
39 39 H 1.09002 * 109.46839 * 300.36340 * 23 21 20
40 40 H 1.09000 * 109.47183 * 60.35701 * 23 21 20
41 41 H 1.09001 * 109.47180 * 180.36437 * 23 21 20
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 1.5299 0.0000 0.0000
3 1 1.8940 1.0273 0.0000
4 6 2.0420 -0.7246 -1.2501
5 7 3.5011 -0.8757 -1.1339
6 16 4.5064 -0.4180 -2.3678
7 8 3.7007 -0.5232 -3.5336
8 8 5.6604 -1.2299 -2.1991
9 6 4.8932 1.3189 -2.0160
10 6 5.8274 1.8629 -3.0987
11 6 6.1541 3.3277 -2.8015
12 6 7.0738 3.8636 -3.8684
13 1 7.3936 3.2233 -4.6771
14 6 7.5069 5.1714 -3.8119
15 7 7.1171 5.9513 -2.8273
16 14 8.6475 5.8355 -5.1338
17 1 7.9823 5.7347 -6.4577
18 1 8.9636 7.2577 -4.8462
19 1 9.9027 5.0422 -5.1488
20 6 4.0403 -1.4511 0.1085
21 6 3.4312 -0.6861 1.2944
22 1 3.8030 0.3385 1.2997
23 6 3.8211 -1.3777 2.6023
24 8 2.0074 -0.6769 1.1652
25 1 -0.3633 -1.0277 0.0018
26 1 -0.3634 0.5154 0.8890
27 1 -0.3633 0.5123 -0.8909
28 1 1.8030 -0.1389 -2.1377
29 1 1.5758 -1.7073 -1.3216
30 1 5.3818 1.3928 -1.0444
31 1 3.9718 1.9012 -2.0045
32 1 5.3392 1.7890 -4.0705
33 1 6.7487 1.2805 -3.1097
34 1 5.2330 3.9104 -2.7903
35 1 6.6424 3.4012 -1.8299
36 1 7.4215 6.8714 -2.7877
37 1 3.7718 -2.5056 0.1714
38 1 5.1251 -1.3466 0.1209
39 1 3.4507 -2.4029 2.5957
40 1 4.9067 -1.3844 2.7002
41 1 3.3838 -0.8388 3.4428
RHF calculation, no. of doubly occupied orbitals= 53
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
ZINC000065562112.mol2 41
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 02:49:43
Heat of formation + Delta-G solvation = -157.977777 kcal
Electronic energy + Delta-G solvation = -22225.643872 eV
Core-core repulsion = 18845.248338 eV
Total energy + Delta-G solvation = -3380.395534 eV
No. of doubly occupied orbitals = 53
Molecular weight
(most abundant/longest-lived isotopes) = 291.134 amu
Computer time = 0.43 seconds
Orbital eigenvalues (eV)
-40.52599 -38.35737 -37.16066 -36.50867 -35.86827 -34.73728 -34.19030 -31.05599
-29.69504 -27.97632 -26.17455 -25.55097 -22.95394 -22.51655 -21.69048 -20.05371
-18.85716 -18.58859 -17.84766 -17.40837 -17.30630 -16.54426 -16.39982 -16.31711
-15.62653 -15.24365 -15.17997 -14.50724 -14.13113 -13.98557 -13.58633 -13.49807
-13.43498 -13.39247 -13.28458 -13.02999 -12.91345 -12.86948 -12.75046 -12.71237
-12.68141 -12.58656 -12.21374 -11.95735 -11.78615 -11.58148 -11.39905 -11.31520
-10.88200 -10.58330 -9.81384 -8.23733 -6.35058 -0.88411 1.39915 1.42266
1.50181 1.51558 2.39051 2.67496 2.71653 3.00812 3.09919 3.49570
3.65057 3.76544 3.83861 4.01467 4.02883 4.11277 4.26478 4.34113
4.37135 4.40382 4.59098 4.71917 4.75666 4.77126 4.85057 4.91631
5.01305 5.01398 5.02820 5.17675 5.24042 5.37485 5.41191 5.42939
5.59945 5.77304 6.17760 6.24629 6.80070 7.34458 8.87491
Molecular weight = 291.13amu
Principal moments of inertia in cm(-1)
A = 0.021517 B = 0.003753 C = 0.003653
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1300.971676 B = 7458.636135 C = 7663.504262
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.142 4.142
2 C 0.069 3.931
3 H 0.066 0.934
4 C 0.086 3.914
5 N -1.003 6.003
6 S 2.622 3.378
7 O -0.982 6.982
8 O -0.982 6.982
9 C -0.608 4.608
10 C -0.106 4.106
11 C 0.032 3.968
12 C -0.555 4.555
13 H 0.060 0.940
14 C 0.005 3.995
15 N -0.929 5.929
16 Si 0.962 3.038
17 H -0.267 1.267
18 H -0.281 1.281
19 H -0.267 1.267
20 C 0.087 3.913
21 C 0.069 3.931
22 H 0.066 0.934
23 C -0.142 4.142
24 O -0.384 6.384
25 H 0.068 0.932
26 H 0.069 0.931
27 H 0.089 0.911
28 H 0.103 0.897
29 H 0.087 0.913
30 H 0.144 0.856
31 H 0.144 0.856
32 H 0.066 0.934
33 H 0.066 0.934
34 H 0.003 0.997
35 H 0.003 0.997
36 H 0.265 0.735
37 H 0.087 0.913
38 H 0.103 0.897
39 H 0.068 0.932
40 H 0.089 0.911
41 H 0.069 0.931
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -12.030 -14.233 10.127 21.210
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 -0.199 4.199
2 C 0.010 3.990
3 H 0.084 0.916
4 C -0.039 4.039
5 N -0.841 5.841
6 S 2.719 3.281
7 O -0.973 6.973
8 O -0.973 6.973
9 C -0.738 4.738
10 C -0.145 4.145
11 C -0.006 4.006
12 C -0.593 4.593
13 H 0.078 0.922
14 C -0.194 4.194
15 N -0.569 5.569
16 Si 0.787 3.213
17 H -0.192 1.192
18 H -0.206 1.206
19 H -0.192 1.192
20 C -0.038 4.038
21 C 0.009 3.991
22 H 0.084 0.916
23 C -0.199 4.199
24 O -0.303 6.303
25 H 0.087 0.913
26 H 0.088 0.912
27 H 0.108 0.892
28 H 0.121 0.879
29 H 0.105 0.895
30 H 0.162 0.838
31 H 0.162 0.838
32 H 0.085 0.915
33 H 0.085 0.915
34 H 0.021 0.979
35 H 0.021 0.979
36 H 0.074 0.926
37 H 0.106 0.894
38 H 0.122 0.878
39 H 0.087 0.913
40 H 0.108 0.892
41 H 0.088 0.912
Dipole moment (debyes) X Y Z Total
from point charges -11.860 -14.752 9.603 21.225
hybrid contribution 0.760 1.331 -0.412 1.587
sum -11.100 -13.421 9.190 19.693
Atomic orbital electron populations
1.21758 0.90703 1.03679 1.03774 1.22617 0.96735 0.95232 0.84463
0.91600 1.22364 0.78394 1.03188 0.99917 1.57786 1.16843 1.77264
1.32247 1.04607 0.72962 0.77327 0.73194 1.93523 1.68920 1.87005
1.47830 1.93525 1.51579 1.66231 1.85938 1.30556 1.10466 1.23212
1.09612 1.21319 0.97613 0.99361 0.96180 1.18951 0.95492 0.90309
0.95876 1.21705 1.29702 0.97209 1.10641 0.92164 1.25917 0.97985
0.97303 0.98164 1.70057 1.46174 1.07480 1.33184 0.85543 0.79226
0.77308 0.79269 1.19238 1.20584 1.19227 1.22446 0.99853 0.99035
0.82513 1.22702 0.81321 0.99489 0.95539 0.91566 1.21761 1.02692
1.01211 0.94264 1.87938 1.21215 1.77664 1.43511 0.91263 0.91207
0.89243 0.87850 0.89471 0.83821 0.83820 0.91513 0.91516 0.97863
0.97856 0.92601 0.89443 0.87848 0.91266 0.89247 0.91215
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 -0.14 -1.86 9.57 71.98 0.69 -1.17 16
2 C 0.07 1.20 3.40 30.69 0.10 1.31 16
3 H 0.07 1.15 8.14 -2.39 -0.02 1.13 16
4 C 0.09 1.67 5.79 86.35 0.50 2.17 16
5 N -1.00 -22.65 3.27 -510.88 -1.67 -24.32 16
6 S 2.62 76.41 5.42 -56.49 -0.31 76.10 16
7 O -0.98 -33.70 16.81 -127.65 -2.15 -35.85 16
8 O -0.98 -33.69 16.80 -127.65 -2.14 -35.84 16
9 C -0.61 -18.18 6.18 71.98 0.44 -17.73 16
10 C -0.11 -4.26 5.16 30.59 0.16 -4.10 16
11 C 0.03 1.64 4.97 29.85 0.15 1.79 16
12 C -0.55 -31.38 9.11 25.60 0.23 -31.15 16
13 H 0.06 3.28 7.74 -2.91 -0.02 3.26 16
14 C 0.00 0.27 5.46 84.66 0.46 0.73 16
15 N -0.93 -55.35 13.29 21.45 0.28 -55.06 16
16 Si 0.96 43.85 29.54 68.60 2.03 45.88 16
17 H -0.27 -11.76 7.11 99.48 0.71 -11.06 16
18 H -0.28 -12.42 7.11 99.48 0.71 -11.71 16
19 H -0.27 -11.76 7.11 99.48 0.71 -11.05 16
20 C 0.09 1.67 5.82 86.49 0.50 2.18 16
21 C 0.07 1.20 3.41 30.83 0.11 1.31 16
22 H 0.07 1.15 8.14 -2.39 -0.02 1.13 16
23 C -0.14 -1.86 9.57 71.98 0.69 -1.17 16
24 O -0.38 -7.56 10.03 -148.98 -1.49 -9.05 16
25 H 0.07 0.87 8.14 -2.38 -0.02 0.85 16
26 H 0.07 0.89 8.14 -2.39 -0.02 0.88 16
27 H 0.09 0.93 8.14 -2.39 -0.02 0.91 16
28 H 0.10 1.92 7.23 -2.39 -0.02 1.90 16
29 H 0.09 1.55 8.14 -2.38 -0.02 1.53 16
30 H 0.14 3.78 8.14 -2.39 -0.02 3.76 16
31 H 0.14 3.78 8.14 -2.39 -0.02 3.76 16
32 H 0.07 2.64 8.14 -2.39 -0.02 2.62 16
33 H 0.07 2.64 8.14 -2.39 -0.02 2.62 16
34 H 0.00 0.16 8.14 -2.39 -0.02 0.14 16
35 H 0.00 0.16 8.14 -2.39 -0.02 0.15 16
36 H 0.27 14.85 8.31 -92.71 -0.77 14.08 16
37 H 0.09 1.56 8.14 -2.39 -0.02 1.54 16
38 H 0.10 1.92 7.22 -2.39 -0.02 1.91 16
39 H 0.07 0.87 8.14 -2.39 -0.02 0.85 16
40 H 0.09 0.93 8.14 -2.39 -0.02 0.91 16
41 H 0.07 0.90 8.14 -2.39 -0.02 0.88 16
Total: -1.00 -72.58 345.67 -0.43 -73.01
By element:
Atomic # 1 Polarization: 9.98 SS G_CDS: 0.98 Total: 10.97 kcal
Atomic # 6 Polarization: -49.88 SS G_CDS: 4.04 Total: -45.84 kcal
Atomic # 7 Polarization: -78.00 SS G_CDS: -1.38 Total: -79.38 kcal
Atomic # 8 Polarization: -74.95 SS G_CDS: -5.78 Total: -80.73 kcal
Atomic # 14 Polarization: 43.85 SS G_CDS: 2.03 Total: 45.88 kcal
Atomic # 16 Polarization: 76.41 SS G_CDS: -0.31 Total: 76.10 kcal
Total: -72.58 -0.43 -73.01 kcal
The number of atoms in the molecule is 41
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.
ZINC000065562112.mol2 41
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 -84.966 kcal
(2) G-P(sol) polarization free energy of solvation -72.582 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -157.548 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.430 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -73.012 kcal
(6) G-S(sol) free energy of system = (1) + (5) -157.978 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.43 seconds