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Sodium in PDB 4pji: Structure of Human MR1-Ac-6-Fp in Complex with Human Mait C-C10 Tcr

Protein crystallography data

The structure of Structure of Human MR1-Ac-6-Fp in Complex with Human Mait C-C10 Tcr, PDB code: 4pji was solved by R.W.Birkinshaw, J.Rossjohn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.60 / 2.50
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 217.690, 71.020, 144.980, 90.00, 104.76, 90.00
R / Rfree (%) 18.8 / 22.8

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Human MR1-Ac-6-Fp in Complex with Human Mait C-C10 Tcr (pdb code 4pji). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Structure of Human MR1-Ac-6-Fp in Complex with Human Mait C-C10 Tcr, PDB code: 4pji:

Sodium binding site 1 out of 1 in 4pji

Go back to Sodium Binding Sites List in 4pji
Sodium binding site 1 out of 1 in the Structure of Human MR1-Ac-6-Fp in Complex with Human Mait C-C10 Tcr


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Human MR1-Ac-6-Fp in Complex with Human Mait C-C10 Tcr within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Na301

b:31.0
occ:1.00
O H:TYR64 2.3 16.5 1.0
OH H:TYR47 2.5 30.3 1.0
O H:PRO61 2.8 21.1 1.0
C H:TYR64 3.5 15.6 1.0
CZ H:TYR47 3.6 18.4 1.0
C H:PRO61 3.8 19.7 1.0
CE2 H:TYR47 3.8 11.8 1.0
N H:TYR64 4.1 11.7 1.0
CB H:PRO61 4.3 17.2 1.0
CA H:TYR64 4.4 11.5 1.0
NZ H:LYS57 4.4 64.6 1.0
N H:GLY63 4.4 16.1 1.0
CA H:ASN62 4.4 18.5 1.0
N H:ASN65 4.4 16.2 1.0
N H:ASN62 4.5 17.3 1.0
CA H:PRO61 4.6 15.2 1.0
CA H:ASN65 4.6 16.8 1.0
CE1 H:TYR47 4.8 9.2 1.0
CB H:ASN65 4.8 17.1 1.0
C H:ASN62 4.9 20.6 1.0

Reference:

S.B.Eckle, R.W.Birkinshaw, L.Kostenko, A.J.Corbett, H.E.Mcwilliam, R.Reantragoon, Z.Chen, N.A.Gherardin, T.Beddoe, L.Liu, O.Patel, B.Meehan, D.P.Fairlie, J.A.Villadangos, D.I.Godfrey, L.Kjer-Nielsen, J.Mccluskey, J.Rossjohn. A Molecular Basis Underpinning the T Cell Receptor Heterogeneity of Mucosal-Associated Invariant T Cells. J.Exp.Med. V. 211 1585 2014.
ISSN: ESSN 1540-9538
PubMed: 25049336
DOI: 10.1084/JEM.20140484
Page generated: Tue Dec 15 06:58:25 2020

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