Sodium in PDB 4xco: Signal-Sequence Induced Conformational Changes in the Signal Recognition Particle

The structure of Signal-Sequence Induced Conformational Changes in the Signal Recognition Particle, PDB code: 4xco was solved by T.Hainzl, A.E.Sauer-Eriksson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.03 / 2.90
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	91.227, 112.971, 121.204, 90.00, 90.00, 90.00
R / Rfree (%)	20.9 / 25.8

The structure of Signal-Sequence Induced Conformational Changes in the Signal Recognition Particle also contains other interesting chemical elements:

Magnesium

(Mg)

14 atoms

The binding sites of Sodium atom in the Signal-Sequence Induced Conformational Changes in the Signal Recognition Particle (pdb code 4xco). 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 Signal-Sequence Induced Conformational Changes in the Signal Recognition Particle, PDB code: 4xco:

Sodium binding site 1 out of 1 in the Signal-Sequence Induced Conformational Changes in the Signal Recognition Particle


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Signal-Sequence Induced Conformational Changes in the Signal Recognition Particle within 5.0Å range: probe atom residue distance (Å) B Occ M:Na308 b:94.3 occ:1.00 O M:HOH439 1.9 78.4 1.0 O M:HOH440 2.0 67.3 1.0 O6 M:G143 2.3 86.5 1.0 O6 M:G234 2.4 98.6 1.0 O4 M:U235 2.5 0.9 1.0 H3 M:U235 3.1 88.2 1.0 O6 M:G142 3.1 0.7 1.0 H42 M:C144 3.3 84.6 1.0 C6 M:G234 3.4 78.3 1.0 C4 M:U235 3.4 79.1 1.0 C6 M:G143 3.5 76.4 1.0 N3 M:U235 3.6 73.5 1.0 N4 M:C144 3.8 70.5 1.0 H42 M:C236 3.8 0.7 1.0 C6 M:G142 3.8 71.0 1.0 H41 M:C144 4.0 84.6 1.0 H1 M:G234 4.1 89.6 1.0 N1 M:G234 4.2 74.7 1.0 H42 M:C233 4.3 0.1 1.0 N4 M:C236 4.3 87.2 1.0 H41 M:C233 4.3 0.1 1.0 C5 M:G234 4.3 71.7 1.0 C5 M:G143 4.3 59.8 1.0 N7 M:G143 4.4 79.3 1.0 N4 M:C233 4.5 97.6 1.0 H1 M:G142 4.5 80.9 1.0 H1 M:G143 4.5 84.6 1.0 N1 M:G142 4.6 67.4 1.0 N1 M:G143 4.6 70.5 1.0 H41 M:C236 4.6 0.7 1.0 C5 M:G142 4.6 62.8 1.0 C4 M:C144 4.6 62.1 1.0 N7 M:G234 4.6 80.1 1.0 C5 M:U235 4.7 77.4 1.0 C2 M:U235 4.9 76.5 1.0 N3 M:C144 4.9 77.1 1.0 N7 M:G142 4.9 83.7 1.0

T.Hainzl, A.E.Sauer-Eriksson. Signal-Sequence Induced Conformational Changes in the Signal Recognition Particle. Nat Commun V. 6 7163 2015.
ISSN: ESSN 2041-1723
PubMed: 26051119
DOI: 10.1038/NCOMMS8163