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

Protein crystallography data

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

Other elements in 4e42:

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

Sodium Binding Sites:

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 4e42

Go back to Sodium Binding Sites List in 4e42
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 4e42

Go back to Sodium Binding Sites List in 4e42
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

Reference:

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
Page generated: Tue Dec 15 06:38:23 2020

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