Wall clock time and date at job start Mon Mar 30 2020 02:54:13
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 N
2 2 C 1.31514 * 1
3 3 Si 1.86796 * 120.00282 * 2 1
4 4 H 1.48503 * 109.47407 * 89.99943 * 3 2 1
5 5 H 1.48505 * 109.47281 * 209.99699 * 3 2 1
6 6 H 1.48501 * 109.47274 * 329.99797 * 3 2 1
7 7 C 1.37884 * 119.99707 * 180.27224 * 2 1 3
8 8 H 1.08002 * 119.99701 * 180.02562 * 7 2 1
9 9 C 1.50699 * 119.99783 * 0.02562 * 7 2 1
10 10 H 1.08997 * 109.87522 * 58.99373 * 9 7 2
11 11 C 1.54106 * 109.87681 * 179.97438 * 9 7 2
12 12 C 1.54809 * 104.18618 * 121.45296 * 11 9 7
13 13 C 1.54995 * 102.09386 * 20.88127 * 12 11 9
14 14 H 1.09000 * 110.61431 * 81.47798 * 13 12 11
15 15 C 1.50700 * 110.61936 * 204.31591 * 13 12 11
16 16 C 1.35141 * 127.24662 * 264.70989 * 15 13 12
17 17 C 1.37811 * 114.75802 * 179.86343 * 16 15 13
18 18 N 1.30090 * 116.88149 * 0.44584 * 17 16 15
19 19 S 1.69606 * 107.14982 * 359.76032 * 18 17 16
20 20 O 1.43745 * 109.88109 * 297.82825 * 9 7 2
21 21 H 0.97005 * 119.99656 * 359.72615 * 1 2 3
22 22 H 1.08997 * 110.48754 * 240.13108 * 11 9 7
23 23 H 1.09005 * 110.48586 * 2.64387 * 11 9 7
24 24 H 1.09004 * 110.90495 * 139.07794 * 12 11 9
25 25 H 1.08995 * 110.90846 * 262.68098 * 12 11 9
26 26 H 1.07997 * 122.62441 * 0.03707 * 16 15 13
27 27 H 1.08001 * 121.55932 * 180.20593 * 17 16 15
Note: An asterisk (*) indicates this parameter was or will be optimized.
Cartesian coordinates (angstroms)
NO. Atom X Y Z
1 7 0.0000 0.0000 0.0000
2 6 1.3151 0.0000 0.0000
3 14 2.2492 1.6177 0.0000
4 1 2.4967 2.0464 1.4001
5 1 3.5468 1.4400 -0.7000
6 1 1.4467 2.6526 -0.7001
7 6 2.0045 -1.1941 -0.0057
8 1 3.0845 -1.1941 -0.0053
9 6 1.2509 -2.4991 -0.0125
10 1 0.6087 -2.5516 -0.8916
11 6 2.2439 -3.6776 -0.0186
12 6 1.8895 -4.4790 1.2576
13 6 0.4396 -4.0110 1.5428
14 1 -0.2694 -4.5575 0.9209
15 6 0.1043 -4.1814 3.0021
16 6 -0.5270 -5.2275 3.5796
17 6 -0.6993 -5.1168 4.9424
18 7 -0.2508 -4.0335 5.5059
19 16 0.4380 -3.0818 4.2826
20 8 0.4595 -2.6128 1.1821
21 1 -0.4850 0.8401 0.0040
22 1 2.1009 -4.2924 -0.9072
23 1 3.2698 -3.3123 0.0304
24 1 1.9212 -5.5514 1.0648
25 1 2.5529 -4.2133 2.0806
26 1 -0.8672 -6.0846 3.0175
27 1 -1.1874 -5.8915 5.5152
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
ZINC000404420036.mol2 27
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 02:54:13
Heat of formation + Delta-G solvation = -28.213843 kcal
Electronic energy + Delta-G solvation = -13260.308769 eV
Core-core repulsion = 10915.914279 eV
Total energy + Delta-G solvation = -2344.394490 eV
No. of doubly occupied orbitals = 38
Molecular weight
(most abundant/longest-lived isotopes) = 225.056 amu
Computer time = 0.24 seconds
Orbital eigenvalues (eV)
-40.25761 -39.24696 -34.84708 -33.09055 -32.55733 -29.80738 -26.99588 -25.10858
-22.96616 -21.89869 -20.77385 -18.88068 -18.65071 -16.88569 -16.78101 -16.33262
-15.77683 -15.15361 -15.04857 -14.32274 -14.14455 -13.87596 -13.51234 -12.86213
-12.62026 -12.46144 -12.33718 -12.05787 -12.00302 -11.55021 -11.28538 -11.09196
-10.72266 -10.44476 -9.96296 -9.68444 -8.15658 -6.35541 -0.19764 0.59337
1.08129 1.40297 1.42204 1.51752 1.62588 2.40633 2.99320 3.40095
3.78348 3.94414 4.16874 4.30257 4.32103 4.48884 4.62062 4.73155
4.93297 4.98877 5.03970 5.15339 5.22883 5.52435 5.71699 5.73619
6.16457 6.50223 6.93245 7.40388 8.92182
Molecular weight = 225.06amu
Principal moments of inertia in cm(-1)
A = 0.035586 B = 0.008825 C = 0.007732
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 786.630196 B = 3171.942466 C = 3620.430810
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.902 5.902
2 C 0.025 3.975
3 Si 0.955 3.045
4 H -0.278 1.278
5 H -0.259 1.259
6 H -0.281 1.281
7 C -0.552 4.552
8 H 0.065 0.935
9 C 0.195 3.805
10 H -0.001 1.001
11 C -0.138 4.138
12 C -0.125 4.125
13 C 0.124 3.876
14 H 0.090 0.910
15 C -0.157 4.157
16 C -0.201 4.201
17 C 0.097 3.903
18 N -0.500 5.500
19 S 0.225 5.775
20 O -0.379 6.379
21 H 0.261 0.739
22 H 0.079 0.921
23 H 0.068 0.932
24 H 0.108 0.892
25 H 0.063 0.937
26 H 0.192 0.808
27 H 0.226 0.774
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 0.562 -12.025 4.875 12.988
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 N -0.539 5.539
2 C -0.178 4.178
3 Si 0.780 3.220
4 H -0.203 1.203
5 H -0.183 1.183
6 H -0.207 1.207
7 C -0.589 4.589
8 H 0.084 0.916
9 C 0.139 3.861
10 H 0.016 0.984
11 C -0.176 4.176
12 C -0.163 4.163
13 C 0.064 3.936
14 H 0.107 0.893
15 C -0.287 4.287
16 C -0.236 4.236
17 C -0.101 4.101
18 N -0.320 5.320
19 S 0.378 5.622
20 O -0.299 6.299
21 H 0.070 0.930
22 H 0.098 0.902
23 H 0.087 0.913
24 H 0.127 0.873
25 H 0.081 0.919
26 H 0.209 0.791
27 H 0.242 0.758
Dipole moment (debyes) X Y Z Total
from point charges 0.946 -10.032 6.249 11.857
hybrid contribution -0.377 -0.406 -1.139 1.267
sum 0.568 -10.438 5.110 11.635
Atomic orbital electron populations
1.70163 1.07661 1.27393 1.48731 1.25921 0.95551 1.02987 0.93304
0.85615 0.79079 0.79030 0.78291 1.20346 1.18342 1.20651 1.21621
0.93034 0.91484 1.52805 0.91638 1.20262 0.88008 0.94157 0.83669
0.98359 1.22956 1.00397 0.96355 0.97870 1.23042 0.94207 1.01350
0.97728 1.21474 0.97704 0.87025 0.87436 0.89292 1.25524 1.02715
0.99564 1.00870 1.21627 1.04787 1.02080 0.95075 1.23478 0.97128
0.96044 0.93404 1.76800 1.20496 1.09918 1.24801 1.84747 1.56225
1.27085 0.94179 1.89276 1.73437 1.21019 1.46166 0.93005 0.90240
0.91340 0.87333 0.91858 0.79072 0.75766
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 N -0.90 -54.85 12.95 21.45 0.28 -54.58 15
2 C 0.02 1.40 5.42 84.66 0.46 1.86 15
3 Si 0.96 44.31 29.54 68.60 2.03 46.33 15
4 H -0.28 -12.78 7.11 99.48 0.71 -12.07 15
5 H -0.26 -11.35 7.11 99.48 0.71 -10.65 15
6 H -0.28 -12.72 7.11 99.48 0.71 -12.02 15
7 C -0.55 -30.93 8.78 25.60 0.22 -30.71 15
8 H 0.07 3.52 7.33 -2.91 -0.02 3.50 15
9 C 0.19 9.91 3.24 30.22 0.10 10.01 15
10 H 0.00 -0.07 8.14 -2.39 -0.02 -0.09 15
11 C -0.14 -5.28 6.63 31.59 0.21 -5.07 15
12 C -0.12 -4.07 6.57 31.89 0.21 -3.86 15
13 C 0.12 4.65 3.85 30.53 0.12 4.76 15
14 H 0.09 3.02 8.14 -2.39 -0.02 3.00 15
15 C -0.16 -5.36 5.68 24.97 0.14 -5.21 15
16 C -0.20 -5.07 10.17 21.45 0.22 -4.85 15
17 C 0.10 2.36 11.27 84.85 0.96 3.32 15
18 N -0.50 -16.22 12.09 -62.58 -0.76 -16.98 15
19 S 0.23 8.52 23.47 -56.49 -1.33 7.20 15
20 O -0.38 -19.43 10.21 -148.98 -1.52 -20.95 15
21 H 0.26 15.05 8.31 -92.70 -0.77 14.28 15
22 H 0.08 2.60 8.14 -2.39 -0.02 2.58 15
23 H 0.07 2.63 7.40 -2.38 -0.02 2.62 15
24 H 0.11 2.62 8.14 -2.39 -0.02 2.60 15
25 H 0.06 2.14 8.05 -2.39 -0.02 2.12 15
26 H 0.19 3.27 8.06 -2.91 -0.02 3.24 15
27 H 0.23 3.14 8.06 -2.91 -0.02 3.12 15
Total: -1.00 -69.00 250.97 2.50 -66.50
By element:
Atomic # 1 Polarization: 1.07 SS G_CDS: 1.17 Total: 2.24 kcal
Atomic # 6 Polarization: -32.40 SS G_CDS: 2.63 Total: -29.76 kcal
Atomic # 7 Polarization: -71.08 SS G_CDS: -0.48 Total: -71.56 kcal
Atomic # 8 Polarization: -19.43 SS G_CDS: -1.52 Total: -20.95 kcal
Atomic # 14 Polarization: 44.31 SS G_CDS: 2.03 Total: 46.33 kcal
Atomic # 16 Polarization: 8.52 SS G_CDS: -1.33 Total: 7.20 kcal
Total: -69.00 2.50 -66.50 kcal
The number of atoms in the molecule is 27
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.
ZINC000404420036.mol2 27
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 38.285 kcal
(2) G-P(sol) polarization free energy of solvation -69.000 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -30.716 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.502 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -66.499 kcal
(6) G-S(sol) free energy of system = (1) + (5) -28.214 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.24 seconds