Sodium in PDB 4e42: Structural Basis For the Recognition of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted T Cell Receptor G4

The structure of Structural Basis For the Recognition of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted T Cell Receptor G4, PDB code: 4e42 was solved by L.Deng, R.J.Langley, Q.Wang, S.L.Topalian, R.A.Mariuzza, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.63 / 2.70
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	168.070, 75.365, 130.859, 90.00, 123.48, 90.00
R / Rfree (%)	20 / 26.3

The structure of Structural Basis For the Recognition of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted T Cell Receptor G4 also contains other interesting chemical elements:

Chlorine

(Cl)

9 atoms

The binding sites of Sodium atom in the Structural Basis For the Recognition of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted T Cell Receptor G4 (pdb code 4e42). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structural Basis For the Recognition of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted T Cell Receptor G4, PDB code: 4e42:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structural Basis For the Recognition of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted T Cell Receptor G4


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structural Basis For the Recognition of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted T Cell Receptor G4 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na306 b:32.2 occ:1.00 OD1 B:ASP148 2.1 44.1 1.0 CG B:ASP148 3.4 39.2 1.0 CD2 B:LEU185 3.7 28.4 1.0 CG2 B:VAL150 3.7 27.6 1.0 N B:HIS149 3.8 31.1 1.0 N B:VAL150 3.9 29.1 1.0 CD B:PRO171 3.9 42.9 1.0 CB B:PRO171 4.0 43.1 1.0 CG B:PRO171 4.0 43.0 1.0 OD2 B:ASP148 4.1 43.7 1.0 CD1 B:LEU185 4.1 28.2 1.0 CZ B:PHE145 4.2 24.9 1.0 CG B:LEU185 4.3 29.3 1.0 CA B:HIS149 4.3 30.6 1.0 CE1 B:PHE145 4.3 24.8 1.0 CB B:ASP148 4.4 34.5 1.0 N B:PRO171 4.4 43.0 1.0 CB B:LEU185 4.6 29.9 1.0 C B:ASP148 4.6 32.5 1.0 C B:HIS149 4.6 29.8 1.0 CA B:ASP148 4.7 33.5 1.0 CB B:VAL150 4.7 28.2 1.0 CA B:PRO171 4.7 43.4 1.0 O B:VAL150 4.7 28.6 1.0 CA B:VAL150 4.7 28.2 1.0

Sodium binding site 2 out of 2 in the Structural Basis For the Recognition of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted T Cell Receptor G4


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structural Basis For the Recognition of Mutant Self By A Tumor- Specific, Mhc Class II-Restricted T Cell Receptor G4 within 5.0Å range: probe atom residue distance (Å) B Occ D:Na306 b:33.9 occ:1.00 OD1 D:ASP148 2.3 52.6 1.0 CG D:ASP148 3.5 49.2 1.0 N D:HIS149 3.8 43.8 1.0 N D:VAL150 3.9 41.1 1.0 CG2 D:VAL150 3.9 40.0 1.0 CD2 D:LEU185 3.9 40.1 1.0 CB D:PRO171 4.0 52.3 1.0 CD D:PRO171 4.0 51.9 1.0 CG D:PRO171 4.1 52.1 1.0 CZ D:PHE145 4.2 39.7 1.0 CD1 D:LEU185 4.2 38.7 1.0 CE1 D:PHE145 4.3 38.8 1.0 CA D:HIS149 4.3 42.7 1.0 OD2 D:ASP148 4.3 52.2 1.0 CG D:LEU185 4.5 39.9 1.0 N D:PRO171 4.5 52.0 1.0 CB D:ASP148 4.5 46.2 1.0 O D:VAL150 4.5 39.4 1.0 C D:HIS149 4.6 42.0 1.0 C D:ASP148 4.6 44.7 1.0 CA D:PRO171 4.6 52.3 1.0 CB D:LEU185 4.7 40.5 1.0 CA D:VAL150 4.7 40.1 1.0 CB D:VAL150 4.8 40.2 1.0 CA D:ASP148 4.8 45.5 1.0

L.Deng, R.J.Langley, Q.Wang, S.L.Topalian, R.A.Mariuzza. Structural Basis For the Recognition of Mutant Self By A Tumor-Specific, Mhc Class II-Restricted T Cell Receptor G4 Proc.Natl.Acad.Sci.Usa 2012.
ISSN: ESSN 1091-6490