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Yttrium in PDB 3ph5: Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations

Protein crystallography data

The structure of Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations, PDB code: 3ph5 was solved by G.Zocher, T.Stehle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.59 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 40.800, 63.570, 134.030, 90.00, 90.00, 90.00
R / Rfree (%) 22.2 / 26.3

Other elements in 3ph5:

The structure of Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Yttrium Binding Sites:

The binding sites of Yttrium atom in the Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations (pdb code 3ph5). This binding sites where shown within 5.0 Angstroms radius around Yttrium atom.
In total 4 binding sites of Yttrium where determined in the Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations, PDB code: 3ph5:
Jump to Yttrium binding site number: 1; 2; 3; 4;

Yttrium binding site 1 out of 4 in 3ph5

Go back to Yttrium Binding Sites List in 3ph5
Yttrium binding site 1 out of 4 in the Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations


Mono view


Stereo pair view

A full contact list of Yttrium with other atoms in the Y binding site number 1 of Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Y1

b:9.9
occ:1.00
OD2 A:ASP69 2.2 18.0 1.0
OE1 A:GLU67 2.6 22.7 1.0
OE2 A:GLU90 2.6 18.8 1.0
CL A:CL6 2.6 39.7 1.0
CG A:ASP69 3.3 17.5 1.0
OD1 A:ASP69 3.7 17.6 1.0
CD A:GLU90 3.8 18.4 1.0
CD A:GLU67 3.8 22.2 1.0
OE1 A:GLU90 4.2 19.3 1.0
CG A:GLU67 4.6 21.2 1.0
CB A:ASP69 4.6 16.9 1.0
OE2 A:GLU67 4.7 22.6 1.0

Yttrium binding site 2 out of 4 in 3ph5

Go back to Yttrium Binding Sites List in 3ph5
Yttrium binding site 2 out of 4 in the Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations


Mono view


Stereo pair view

A full contact list of Yttrium with other atoms in the Y binding site number 2 of Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Y2

b:12.1
occ:1.00
CL A:CL5 2.4 17.7 1.0
OE2 A:GLU143 2.4 17.6 1.0
OE1 A:GLU143 2.7 18.4 1.0
CD A:GLU143 2.9 16.7 1.0
CG A:GLU143 4.4 15.4 1.0

Yttrium binding site 3 out of 4 in 3ph5

Go back to Yttrium Binding Sites List in 3ph5
Yttrium binding site 3 out of 4 in the Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations


Mono view


Stereo pair view

A full contact list of Yttrium with other atoms in the Y binding site number 3 of Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Y3

b:3.8
occ:1.00
OE2 B:GLU81 2.3 21.2 1.0
OE1 B:GLU81 2.6 21.3 1.0
CD B:GLU81 2.7 21.8 1.0
CG B:GLU81 4.2 22.0 1.0

Yttrium binding site 4 out of 4 in 3ph5

Go back to Yttrium Binding Sites List in 3ph5
Yttrium binding site 4 out of 4 in the Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations


Mono view


Stereo pair view

A full contact list of Yttrium with other atoms in the Y binding site number 4 of Bovine Beta Lactoglobulin Crystallized Through Ligandation of Yttrium Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Y4

b:34.5
occ:1.00
OD2 B:ASP146 2.7 23.2 1.0
OD1 B:ASP146 3.4 21.5 1.0
CG B:ASP146 3.4 21.7 1.0
CB B:ASP146 4.8 21.6 1.0
O B:HOH185 4.9 9.7 1.0

Reference:

F.Zhang, G.Zocher, A.Sauter, T.Stehle, F.Schreiber. Novel Approach to Protein Crystallization Through Ligandation of Yttrium Cations J.Appl.Crystallogr. V. 44 755 2011.
ISSN: ISSN 0021-8898
DOI: 10.1107/S0021889811017997
Page generated: Wed Dec 16 02:40:57 2020

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