Wall clock time and date at job start Mon Mar 30 2020 03:01:48
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 C 1.50699 * 1
3 3 O 1.33665 * 126.09534 * 2 1
4 4 C 1.34855 * 111.20416 * 180.21270 * 3 2 1
5 5 C 1.33476 * 109.50829 * 359.66644 * 4 3 2
6 6 C 1.38823 * 126.09822 * 179.75577 * 2 1 3
7 7 C 1.41384 * 127.35409 * 0.04100 * 6 2 1
8 8 H 1.07998 * 120.00339 * 34.23385 * 7 6 2
9 9 C 1.39702 * 119.99866 * 214.22813 * 7 6 2
10 10 N 1.31025 * 119.99588 * 22.48789 * 9 7 6
11 11 Si 1.86799 * 120.00039 * 202.49331 * 9 7 6
12 12 H 1.48498 * 109.47012 * 359.97438 * 11 9 7
13 13 H 1.48502 * 109.47306 * 119.99805 * 11 9 7
14 14 H 1.48498 * 109.46973 * 239.99658 * 11 9 7
15 15 C 1.50337 * 129.34249 * 180.37021 * 5 4 3
16 16 C 1.52838 * 111.07583 * 341.04607 * 15 5 4
17 17 S 1.81880 * 108.61419 * 51.30290 * 16 15 5
18 18 C 1.51458 * 123.86508 * 179.60157 * 4 3 2
19 19 H 1.08996 * 109.47270 * 356.64220 * 1 2 3
20 20 H 1.09008 * 109.47184 * 116.64864 * 1 2 3
21 21 H 1.09007 * 109.46948 * 236.64257 * 1 2 3
22 22 H 0.97005 * 119.99589 * 180.02562 * 10 9 7
23 23 H 1.09006 * 109.15789 * 101.45214 * 15 5 4
24 24 H 1.08999 * 109.16537 * 220.68739 * 15 5 4
25 25 H 1.08997 * 109.61253 * 171.04371 * 16 15 5
26 26 H 1.09004 * 109.61202 * 291.56482 * 16 15 5
27 27 H 1.09000 * 109.63765 * 42.56725 * 18 4 3
28 28 H 1.09004 * 109.63477 * 281.94567 * 18 4 3
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 1.5070 0.0000 0.0000
3 8 2.2945 1.0801 0.0000
4 6 3.5977 0.7335 -0.0047
5 6 3.7052 -0.5969 -0.0006
6 6 2.3249 -1.1217 0.0048
7 6 1.9222 -2.4770 0.0098
8 1 1.0275 -2.7764 -0.5158
9 6 2.6818 -3.4288 0.6944
10 7 3.4776 -3.0561 1.6663
11 14 2.5629 -5.2327 0.2242
12 1 1.6005 -5.3899 -0.8958
13 1 3.8993 -5.7233 -0.1984
14 1 2.0940 -6.0191 1.3933
15 6 4.9408 -1.4533 0.0043
16 6 6.1617 -0.6591 -0.4588
17 16 6.2545 0.8791 0.5073
18 6 4.7365 1.7320 -0.0146
19 1 -0.3633 1.0259 0.0602
20 1 -0.3634 -0.4610 -0.9186
21 1 -0.3633 -0.5651 0.8584
22 1 4.0053 -3.7170 2.1414
23 1 5.1164 -1.8221 1.0149
24 1 4.7915 -2.3007 -0.6647
25 1 7.0644 -1.2481 -0.2966
26 1 6.0629 -0.4206 -1.5179
27 1 4.5168 2.5452 0.6772
28 1 4.8670 2.1287 -1.0215
RHF calculation, no. of doubly occupied orbitals= 38
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
ZINC000259806060.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 03:01:48
Heat of formation + Delta-G solvation = -20.912095 kcal
Electronic energy + Delta-G solvation = -13551.800733 eV
Core-core repulsion = 11273.148781 eV
Total energy + Delta-G solvation = -2278.651952 eV
No. of doubly occupied orbitals = 38
Molecular weight
(most abundant/longest-lived isotopes) = 224.061 amu
Computer time = 0.29 seconds
Orbital eigenvalues (eV)
-42.46286 -36.49294 -35.07882 -33.01673 -31.66989 -30.17486 -27.86749 -25.12445
-24.24334 -21.87340 -19.44676 -18.72629 -17.18527 -16.92800 -16.68575 -16.28704
-15.58668 -14.82676 -14.68946 -14.46823 -14.10468 -13.84901 -13.51630 -13.36981
-13.26014 -12.97250 -12.73745 -12.47856 -11.94159 -11.85931 -11.64460 -10.99530
-10.84761 -9.52266 -8.78240 -8.70270 -8.47707 -6.20750 0.70163 1.14613
1.32769 1.40602 1.44207 1.53344 2.11750 2.28838 2.64921 3.20540
3.92521 3.99811 4.08692 4.25521 4.37715 4.42249 4.65598 4.72142
4.88319 4.90009 4.96672 5.23940 5.34040 5.46580 5.55796 5.90053
6.03083 6.40545 6.84744 6.97519 7.15563 8.52285
Molecular weight = 224.06amu
Principal moments of inertia in cm(-1)
A = 0.025782 B = 0.012844 C = 0.009078
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1085.751818 B = 2179.504848 C = 3083.704816
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.019 4.019
2 C -0.211 4.211
3 O -0.206 6.206
4 C -0.063 4.063
5 C -0.188 4.188
6 C 0.008 3.992
7 C -0.497 4.497
8 H 0.068 0.932
9 C 0.047 3.953
10 N -0.831 5.831
11 Si 0.963 3.037
12 H -0.264 1.264
13 H -0.265 1.265
14 H -0.272 1.272
15 C -0.025 4.025
16 C -0.075 4.075
17 S -0.246 6.246
18 C 0.013 3.987
19 H 0.070 0.930
20 H 0.064 0.936
21 H 0.059 0.941
22 H 0.281 0.719
23 H 0.082 0.918
24 H 0.051 0.949
25 H 0.125 0.875
26 H 0.090 0.910
27 H 0.124 0.876
28 H 0.117 0.883
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 3.797 2.940 -3.371 5.868
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 -0.075 4.075
2 C -0.259 4.259
3 O -0.108 6.108
4 C -0.114 4.114
5 C -0.191 4.191
6 C 0.006 3.994
7 C -0.528 4.528
8 H 0.086 0.914
9 C -0.166 4.166
10 N -0.460 5.460
11 Si 0.785 3.215
12 H -0.188 1.188
13 H -0.189 1.189
14 H -0.197 1.197
15 C -0.063 4.063
16 C -0.223 4.223
17 S -0.020 6.020
18 C -0.135 4.135
19 H 0.089 0.911
20 H 0.083 0.917
21 H 0.078 0.922
22 H 0.091 0.909
23 H 0.100 0.900
24 H 0.069 0.931
25 H 0.143 0.857
26 H 0.109 0.891
27 H 0.142 0.858
28 H 0.135 0.865
Dipole moment (debyes) X Y Z Total
from point charges 4.652 3.494 -2.471 6.321
hybrid contribution -1.107 -1.441 -0.780 1.978
sum 3.544 2.053 -3.251 5.230
Atomic orbital electron populations
1.19642 0.84621 1.01714 1.01540 1.23092 0.93885 0.83696 1.25200
1.83413 1.15455 1.35910 1.75980 1.21871 0.83565 0.94005 1.11911
1.21153 0.96526 0.92543 1.08893 1.19352 0.89845 0.93670 0.96551
1.18719 1.10824 0.91356 1.31948 0.91423 1.26294 0.93413 1.04247
0.92631 1.70015 1.22651 1.37548 1.15766 0.85459 0.79177 0.77812
0.79044 1.18820 1.18926 1.19705 1.19888 0.88814 0.95532 1.02097
1.23538 1.02157 0.95470 1.01147 1.86433 1.27982 1.22631 1.64929
1.21796 0.88565 0.96570 1.06532 0.91112 0.91685 0.92213 0.90913
0.90007 0.93057 0.85700 0.89094 0.85795 0.86530
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 -0.02 -0.76 10.21 71.24 0.73 -0.04 15
2 C -0.21 -10.82 7.48 25.83 0.19 -10.63 15
3 O -0.21 -10.22 10.53 -1.99 -0.02 -10.24 15
4 C -0.06 -2.94 7.03 24.85 0.17 -2.76 15
5 C -0.19 -9.52 5.71 -18.56 -0.11 -9.63 15
6 C 0.01 0.46 5.69 -19.87 -0.11 0.34 15
7 C -0.50 -27.43 9.06 23.40 0.21 -27.22 15
8 H 0.07 3.68 7.94 -2.91 -0.02 3.65 15
9 C 0.05 2.40 4.48 85.17 0.38 2.78 15
10 N -0.83 -43.85 10.21 21.79 0.22 -43.63 15
11 Si 0.96 39.25 29.61 68.60 2.03 41.28 15
12 H -0.26 -10.69 7.11 99.48 0.71 -9.98 15
13 H -0.26 -10.28 7.11 99.48 0.71 -9.57 15
14 H -0.27 -10.74 7.11 99.48 0.71 -10.04 15
15 C -0.02 -1.11 4.30 29.68 0.13 -0.98 15
16 C -0.08 -2.57 6.51 71.93 0.47 -2.10 15
17 S -0.25 -8.42 22.28 -56.49 -1.26 -9.68 15
18 C 0.01 0.45 6.86 71.48 0.49 0.94 15
19 H 0.07 2.49 8.14 -2.39 -0.02 2.47 15
20 H 0.06 2.49 8.14 -2.38 -0.02 2.47 15
21 H 0.06 2.45 8.14 -2.38 -0.02 2.43 15
22 H 0.28 13.52 8.30 -92.70 -0.77 12.75 15
23 H 0.08 3.99 6.33 -2.38 -0.02 3.98 15
24 H 0.05 2.38 7.79 -2.39 -0.02 2.36 15
25 H 0.12 3.59 8.14 -2.39 -0.02 3.57 15
26 H 0.09 2.86 8.14 -2.39 -0.02 2.85 15
27 H 0.12 3.89 8.14 -2.39 -0.02 3.87 15
28 H 0.12 3.45 8.14 -2.39 -0.02 3.43 15
Total: -1.00 -62.01 248.65 4.69 -57.32
By element:
Atomic # 1 Polarization: 13.08 SS G_CDS: 1.16 Total: 14.24 kcal
Atomic # 6 Polarization: -51.85 SS G_CDS: 2.56 Total: -49.30 kcal
Atomic # 7 Polarization: -43.85 SS G_CDS: 0.22 Total: -43.63 kcal
Atomic # 8 Polarization: -10.22 SS G_CDS: -0.02 Total: -10.24 kcal
Atomic # 14 Polarization: 39.25 SS G_CDS: 2.03 Total: 41.28 kcal
Atomic # 16 Polarization: -8.42 SS G_CDS: -1.26 Total: -9.68 kcal
Total: -62.01 4.69 -57.32 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.
ZINC000259806060.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 36.407 kcal
(2) G-P(sol) polarization free energy of solvation -62.008 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -25.601 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.689 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -57.319 kcal
(6) G-S(sol) free energy of system = (1) + (5) -20.912 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.29 seconds