Sodium in PDB 3h84: Crystal Structure of GET3

All present enzymatic activity of Crystal Structure of GET3:
3.6.3.16;

The structure of Crystal Structure of GET3, PDB code: 3h84 was solved by J.Hu, J.Li, X.Qian, B.Sha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.30
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	219.400, 113.743, 48.370, 90.00, 90.00, 90.00
R / Rfree (%)	22.2 / 24.7

The structure of Crystal Structure of GET3 also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Zinc	(Zn)	1 atom
Chlorine	(Cl)	2 atoms

The binding sites of Sodium atom in the Crystal Structure of GET3 (pdb code 3h84). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of GET3, PDB code: 3h84:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of GET3


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 GET3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na357 b:58.7 occ:1.00 NH2 A:ARG104 4.1 42.8 1.0 N A:GLY112 4.3 71.6 1.0 CZ A:ARG104 4.7 43.2 1.0 CA A:GLY112 4.7 72.5 1.0 C A:ASP111 4.9 70.8 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of GET3


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of GET3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na358 b:46.6 occ:1.00 O A:ASP166 3.1 46.2 1.0 O A:ILE54 3.5 43.9 1.0 CB A:THR56 3.7 47.1 1.0 C A:ASP166 3.8 46.1 1.0 N A:THR56 4.0 46.2 1.0 O A:HOH498 4.1 31.0 1.0 CG2 A:THR56 4.2 47.2 1.0 CB A:PHE165 4.2 43.3 1.0 C A:ILE54 4.2 44.0 1.0 N A:ASP166 4.2 44.6 1.0 CD1 A:PHE165 4.2 42.4 1.0 C A:SER55 4.2 45.6 1.0 CA A:THR167 4.3 47.7 1.0 CA A:SER55 4.3 44.9 1.0 OG1 A:THR56 4.3 48.5 1.0 N A:THR167 4.4 47.0 1.0 CA A:PHE165 4.4 43.6 1.0 CG2 A:ILE54 4.4 43.4 1.0 C A:PHE165 4.4 44.0 1.0 CA A:THR56 4.5 47.1 1.0 N A:SER55 4.6 44.4 1.0 O A:HOH486 4.6 33.0 1.0 CA A:ASP166 4.7 45.5 1.0 CG A:PHE165 4.7 43.2 1.0 O A:SER55 4.9 45.4 1.0 C A:THR167 5.0 48.5 1.0 N A:ALA168 5.0 49.5 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of GET3


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of GET3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na359 b:53.8 occ:1.00 OE2 A:GLU258 3.1 47.8 1.0 N A:LEU174 3.3 50.0 1.0 CD A:GLU258 3.7 46.1 1.0 O A:HOH436 3.7 30.9 1.0 N A:THR173 3.7 51.3 1.0 CB A:LEU174 3.7 49.6 1.0 OE1 A:GLU258 3.8 46.7 1.0 C A:HIS172 3.9 51.6 1.0 CE2 A:TYR262 4.0 42.7 1.0 CA A:LEU174 4.1 49.6 1.0 CA A:HIS172 4.1 52.1 1.0 CG A:LEU174 4.2 49.6 1.0 CD1 A:LEU174 4.3 49.2 1.0 C A:THR173 4.3 50.5 1.0 CA A:THR173 4.3 51.2 1.0 O A:HIS172 4.4 51.3 1.0 CB A:THR173 4.5 51.2 1.0 OH A:TYR262 4.6 43.6 1.0 CB A:HIS172 4.6 52.2 1.0 CD2 A:LEU259 4.6 40.6 1.0 C A:LEU174 4.7 49.3 1.0 N A:ARG175 4.8 49.1 1.0 CZ A:TYR262 4.8 42.5 1.0 CD2 A:LEU255 4.8 46.9 1.0 CG A:GLU258 4.8 44.6 1.0 CD2 A:TYR262 4.9 43.5 1.0

J.Hu, J.Li, X.Qian, V.Denic, B.Sha. The Crystal Structures of Yeast GET3 Suggest A Mechanism For Tail-Anchored Protein Membrane Insertion. Plos One V. 4 E8061 2009.
ISSN: ESSN 1932-6203
PubMed: 19956640
DOI: 10.1371/JOURNAL.PONE.0008061