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Sodium in PDB 3fbx: Crystal Structure of the Lysosomal 66.3 kDa Protein From Mouse Solved By S-Sad

Protein crystallography data

The structure of Crystal Structure of the Lysosomal 66.3 kDa Protein From Mouse Solved By S-Sad, PDB code: 3fbx was solved by K.Lakomek, A.Dickmanns, U.Mueller, R.Ficner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.11 / 2.40
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 148.804, 89.672, 64.954, 90.00, 98.67, 90.00
R / Rfree (%) 15.6 / 19.8

Other elements in 3fbx:

The structure of Crystal Structure of the Lysosomal 66.3 kDa Protein From Mouse Solved By S-Sad also contains other interesting chemical elements:

Xenon (Xe) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Lysosomal 66.3 kDa Protein From Mouse Solved By S-Sad (pdb code 3fbx). 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 Crystal Structure of the Lysosomal 66.3 kDa Protein From Mouse Solved By S-Sad, PDB code: 3fbx:

Sodium binding site 1 out of 1 in 3fbx

Go back to Sodium Binding Sites List in 3fbx
Sodium binding site 1 out of 1 in the Crystal Structure of the Lysosomal 66.3 kDa Protein From Mouse Solved By S-Sad


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the Lysosomal 66.3 kDa Protein From Mouse Solved By S-Sad within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na609

b:32.5
occ:1.00
OD3 A:OCS249 2.4 29.2 0.5
OH A:TYR379 2.7 24.6 1.0
OE1 A:GLU328 2.8 19.3 1.0
O A:ASP315 2.9 16.9 1.0
OG1 A:THR330 3.0 20.4 1.0
OE2 A:GLU328 3.0 18.7 1.0
CD A:GLU328 3.3 18.5 1.0
OD2 A:OCS249 3.3 26.5 0.5
SG A:OCS249 3.4 29.9 1.0
CZ A:TYR379 3.6 25.4 1.0
C A:ASP315 3.8 17.0 1.0
CE2 A:TYR379 4.0 24.2 1.0
O A:GLY314 4.0 21.2 1.0
N A:THR330 4.1 17.1 1.0
OD1 A:OCS249 4.2 27.0 0.5
CB A:THR330 4.2 18.3 1.0
N A:ASP316 4.3 16.0 1.0
O A:GLU328 4.5 14.1 1.0
CE1 A:TYR379 4.7 22.2 1.0
CA A:THR329 4.7 15.8 1.0
C A:THR329 4.7 16.2 1.0
CA A:THR330 4.7 17.9 1.0
OD1 A:ASN381 4.7 17.1 1.0
CG A:GLU328 4.8 15.1 1.0
CB A:OCS249 4.8 24.0 1.0
CA A:ASP315 4.8 17.6 1.0
OD1 A:ASP316 4.9 21.1 1.0
C A:GLU328 5.0 14.6 1.0

Reference:

K.Lakomek, A.Dickmanns, U.Mueller, K.Kollmann, F.Deuschl, A.Berndt, T.Lubke, R.Ficner. De Novo Sulfur Sad Phasing of the Lysosomal 66.3 kDa Protein From Mouse Acta Crystallogr.,Sect.D V. 65 220 2009.
ISSN: ISSN 0907-4449
PubMed: 19237744
DOI: 10.1107/S0907444908041814
Page generated: Tue Dec 15 06:10:32 2020

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