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Cadmium in PDB 1ynt: Structure of the Monomeric Form of T. Gondii SAG1 Surface Antigen Bound to A Human Fab

Protein crystallography data

The structure of Structure of the Monomeric Form of T. Gondii SAG1 Surface Antigen Bound to A Human Fab, PDB code: 1ynt was solved by M.Graille, E.A.Stura, M.Bossus, B.H.Muller, O.Letourneur, N.Battail-Poirot, G.Sibai, D.Rolland, M.H.Le Du, F.Ducancel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 3.10
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 71.034, 198.285, 128.366, 90.00, 89.97, 90.00
R / Rfree (%) 24.1 / 28.3

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Structure of the Monomeric Form of T. Gondii SAG1 Surface Antigen Bound to A Human Fab (pdb code 1ynt). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Structure of the Monomeric Form of T. Gondii SAG1 Surface Antigen Bound to A Human Fab, PDB code: 1ynt:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 1ynt

Go back to Cadmium Binding Sites List in 1ynt
Cadmium binding site 1 out of 2 in the Structure of the Monomeric Form of T. Gondii SAG1 Surface Antigen Bound to A Human Fab


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Structure of the Monomeric Form of T. Gondii SAG1 Surface Antigen Bound to A Human Fab within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd4001

b:0.4
occ:1.00
N B:SER665 3.4 38.6 1.0
OG B:SER665 3.7 40.4 1.0
O B:SER663 3.7 35.5 1.0
N B:SER666 3.7 45.3 1.0
OG B:SER666 3.8 50.6 1.0
CB B:SER665 4.0 42.2 1.0
CA B:SER665 4.1 41.4 1.0
CA B:LEU664 4.3 35.6 1.0
C B:LEU664 4.3 36.5 1.0
O B:SER666 4.4 47.5 1.0
C B:SER665 4.4 43.8 1.0
CB B:SER666 4.5 48.5 1.0
CA B:SER666 4.7 46.6 1.0
C B:SER663 4.7 35.1 1.0
N B:LEU664 5.0 35.7 1.0

Cadmium binding site 2 out of 2 in 1ynt

Go back to Cadmium Binding Sites List in 1ynt
Cadmium binding site 2 out of 2 in the Structure of the Monomeric Form of T. Gondii SAG1 Surface Antigen Bound to A Human Fab


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Structure of the Monomeric Form of T. Gondii SAG1 Surface Antigen Bound to A Human Fab within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cd4002

b:0.3
occ:1.00
N D:SER1665 3.6 38.3 1.0
O D:SER1663 3.8 34.5 1.0
N D:SER1666 3.9 44.7 1.0
OG D:SER1665 3.9 39.7 1.0
OG D:SER1666 3.9 49.8 1.0
CB D:SER1665 4.1 41.3 1.0
CA D:SER1665 4.3 41.1 1.0
CA D:LEU1664 4.5 35.4 1.0
C D:LEU1664 4.5 36.4 1.0
C D:SER1665 4.6 43.7 1.0
O D:SER1666 4.6 48.3 1.0
CB D:SER1666 4.6 48.0 1.0
C D:SER1663 4.8 34.6 1.0
CA D:SER1666 4.8 46.3 1.0

Reference:

M.Graille, E.A.Stura, M.Bossus, B.H.Muller, O.Letourneur, N.Battail-Poirot, G.Sibai, M.Gauthier, D.Rolland, M.H.Le Du, F.Ducancel. Crystal Structure of the Complex Between the Monomeric Form of Toxoplasma Gondii Surface Antigen 1 (SAG1) and A Monoclonal Antibody That Mimics the Human Immune Response J.Mol.Biol. V. 354 447 2005.
ISSN: ISSN 0022-2836
PubMed: 16242717
DOI: 10.1016/J.JMB.2005.09.028
Page generated: Wed Oct 28 09:58:55 2020
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