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Ytterbium in PDB 3fuh: Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin

Enzymatic activity of Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin

All present enzymatic activity of Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin:
3.3.2.6;

Protein crystallography data

The structure of Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin, PDB code: 3fuh was solved by D.R.Davies, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 78.306, 87.226, 99.697, 90.00, 90.00, 90.00
R / Rfree (%) 17.8 / 21.6

Other elements in 3fuh:

The structure of Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Ytterbium Binding Sites:

The binding sites of Ytterbium atom in the Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin (pdb code 3fuh). This binding sites where shown within 5.0 Angstroms radius around Ytterbium atom.
In total 3 binding sites of Ytterbium where determined in the Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin, PDB code: 3fuh:
Jump to Ytterbium binding site number: 1; 2; 3;

Ytterbium binding site 1 out of 3 in 3fuh

Go back to Ytterbium Binding Sites List in 3fuh
Ytterbium binding site 1 out of 3 in the Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin


Mono view


Stereo pair view

A full contact list of Ytterbium with other atoms in the Yb binding site number 1 of Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Yb702

b:18.5
occ:1.00
OD2 A:ASP481 2.4 17.3 1.0
O A:HOH1035 2.4 20.4 1.0
O A:HOH689 2.5 12.0 1.0
O A:HOH1078 2.5 13.7 1.0
OD1 A:ASP481 2.5 17.2 1.0
O A:HOH1214 2.6 14.1 1.0
CG A:ASP481 2.8 18.4 1.0
CB A:ASP481 4.3 15.8 1.0
OD2 A:ASP482 4.4 18.4 1.0
OD1 A:ASP482 4.4 17.5 1.0
O A:HOH1096 4.6 37.2 1.0
CG A:ASP482 4.7 17.9 1.0
CB A:LYS479 4.9 16.3 1.0

Ytterbium binding site 2 out of 3 in 3fuh

Go back to Ytterbium Binding Sites List in 3fuh
Ytterbium binding site 2 out of 3 in the Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin


Mono view


Stereo pair view

A full contact list of Ytterbium with other atoms in the Yb binding site number 2 of Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Yb703

b:85.5
occ:0.50
OD1 A:ASP175 2.5 30.1 1.0
CG A:ASP175 3.5 27.8 1.0
O A:HOH1070 3.9 49.4 1.0
OD2 A:ASP175 4.0 30.5 1.0
O A:ASP175 4.5 26.4 1.0
CB A:ASP175 4.8 24.8 1.0
CA A:ASP175 4.9 24.3 1.0
C A:ASP175 4.9 25.2 1.0

Ytterbium binding site 3 out of 3 in 3fuh

Go back to Ytterbium Binding Sites List in 3fuh
Ytterbium binding site 3 out of 3 in the Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin


Mono view


Stereo pair view

A full contact list of Ytterbium with other atoms in the Yb binding site number 3 of Leukotriene A4 Hydrolase in Complex with Fragment 5- Hydroxyindole and Bestatin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Yb704

b:0.6
occ:0.50
O A:HOH849 4.5 66.8 1.0
N A:ASP610 4.6 43.5 1.0
CA A:ASP610 4.7 44.6 1.0

Reference:

D.R.Davies, B.Mamat, O.T.Magnusson, J.Christensen, M.H.Haraldsson, R.Mishra, B.Pease, E.Hansen, J.Singh, D.Zembower, H.Kim, A.S.Kiselyov, A.B.Burgin, M.E.Gurney, L.J.Stewart. Discovery of Leukotriene A4 Hydrolase Inhibitors Using Metabolomics Biased Fragment Crystallography. J.Med.Chem. V. 52 4694 2009.
ISSN: ISSN 0022-2623
PubMed: 19618939
DOI: 10.1021/JM900259H
Page generated: Sat Oct 12 21:08:13 2024

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