Sodium in PDB 3uso: Crystal Structure of Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles

The structure of Crystal Structure of Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles, PDB code: 3uso was solved by H.Wang, J.Elferich, E.Gouaux, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.53 / 4.50
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	116.830, 182.697, 81.816, 90.00, 90.00, 90.00
R / Rfree (%)	24 / 24.3

The binding sites of Sodium atom in the Crystal Structure of Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles (pdb code 3uso). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal Structure of Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles, PDB code: 3uso:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles


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 Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles within 5.0Å range: probe atom residue distance (Å) B Occ A:Na751 b:0.7 occ:1.00 O A:VAL23 2.1 0.7 1.0 O A:GLY20 2.1 0.9 1.0 OG A:SER355 2.3 0.8 1.0 O A:ALA351 2.3 0.7 1.0 OG1 A:THR354 2.4 0.9 1.0 C A:VAL23 3.1 0.5 1.0 N A:SER355 3.2 0.1 1.0 C A:GLY20 3.3 0.1 1.0 CB A:SER355 3.4 0.1 1.0 CB A:THR354 3.4 1.0 1.0 C A:ALA351 3.5 0.2 1.0 CA A:GLY24 3.5 0.8 1.0 C A:THR354 3.5 0.9 1.0 CA A:SER355 3.7 1.0 1.0 N A:GLY24 3.7 0.7 1.0 CA A:THR354 3.9 0.7 1.0 CA A:ALA351 4.0 0.7 1.0 O A:ASN21 4.0 0.6 1.0 CA A:GLY20 4.1 0.5 1.0 O A:THR354 4.1 0.1 1.0 CA A:VAL23 4.2 0.5 1.0 C A:ASN21 4.3 0.7 1.0 N A:THR354 4.3 0.3 1.0 N A:ASN21 4.3 0.7 1.0 N A:VAL23 4.3 0.9 1.0 CA A:ASN21 4.5 0.8 1.0 C A:ALA22 4.6 0.6 1.0 N A:GLY352 4.6 0.5 1.0 O A:ALA22 4.7 0.8 1.0 CG2 A:THR354 4.7 0.1 1.0 CB A:ALA351 4.7 0.2 1.0 O A:PHE350 4.8 0.9 1.0 CB A:VAL23 4.8 0.1 1.0 O A:ALA19 4.8 0.5 1.0 N A:ALA22 4.9 0.6 1.0 CA A:GLY352 5.0 0.9 1.0 C A:GLY24 5.0 0.3 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles


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 Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles within 5.0Å range: probe atom residue distance (Å) B Occ A:Na752 b:0.1 occ:1.00 OD1 A:ASN27 2.3 0.4 1.0 O A:THR254 2.3 0.3 1.0 OG1 A:THR254 2.4 0.5 1.0 OD1 A:ASN286 2.4 0.5 1.0 O A:ALA22 2.4 0.8 1.0 C A:THR254 3.1 0.0 1.0 C A:ALA22 3.1 0.6 1.0 CA A:THR254 3.2 0.7 1.0 CG A:ASN27 3.2 0.7 1.0 CG A:ASN286 3.3 0.9 1.0 OXT A:MSE601 3.3 0.9 1.0 CB A:THR254 3.3 0.1 1.0 ND2 A:ASN27 3.4 0.9 1.0 ND2 A:ASN286 3.5 1.0 1.0 N A:VAL23 3.7 0.9 1.0 CA A:VAL23 3.7 0.5 1.0 N A:MSE601 3.8 0.8 1.0 N A:GLY24 3.9 0.7 1.0 CA A:ALA22 4.1 0.3 1.0 OE2 A:GLU290 4.1 1.0 1.0 C A:MSE601 4.1 0.0 1.0 C A:VAL23 4.3 0.5 1.0 CB A:ALA22 4.3 0.3 1.0 N A:LEU255 4.3 0.1 1.0 CG2 A:THR254 4.4 0.4 1.0 CA A:MSE601 4.6 0.1 1.0 CB A:ASN27 4.6 0.3 1.0 N A:THR254 4.6 0.7 1.0 N A:ASN27 4.6 0.6 1.0 CB A:ASN286 4.7 0.8 1.0 O A:PHE253 4.9 0.6 1.0 CB A:VAL23 5.0 0.1 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles


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 Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles within 5.0Å range: probe atom residue distance (Å) B Occ B:Na751 b:0.7 occ:1.00 O B:VAL23 2.1 0.7 1.0 O B:GLY20 2.1 0.9 1.0 O B:ALA351 2.3 0.7 1.0 OG B:SER355 2.3 0.8 1.0 OG1 B:THR354 2.4 0.9 1.0 C B:VAL23 3.1 0.5 1.0 N B:SER355 3.2 0.1 1.0 C B:GLY20 3.3 0.1 1.0 CB B:THR354 3.4 1.0 1.0 CB B:SER355 3.4 0.1 1.0 C B:ALA351 3.4 0.2 1.0 CA B:GLY24 3.5 0.8 1.0 C B:THR354 3.6 0.9 1.0 CA B:SER355 3.7 1.0 1.0 N B:GLY24 3.7 0.7 1.0 CA B:THR354 3.9 0.7 1.0 CA B:ALA351 4.0 0.7 1.0 O B:ASN21 4.1 0.6 1.0 CA B:GLY20 4.1 0.5 1.0 O B:THR354 4.1 0.1 1.0 CA B:VAL23 4.2 0.5 1.0 C B:ASN21 4.3 0.7 1.0 N B:THR354 4.3 0.3 1.0 N B:VAL23 4.3 0.9 1.0 N B:ASN21 4.3 0.7 1.0 CA B:ASN21 4.5 0.8 1.0 C B:ALA22 4.6 0.6 1.0 N B:GLY352 4.6 0.5 1.0 O B:ALA22 4.7 0.8 1.0 CG2 B:THR354 4.7 0.1 1.0 CB B:ALA351 4.7 0.2 1.0 O B:PHE350 4.7 0.9 1.0 CB B:VAL23 4.8 0.1 1.0 O B:ALA19 4.8 0.5 1.0 N B:ALA22 4.9 0.6 1.0 CA B:GLY352 4.9 0.9 1.0 C B:GLY24 5.0 0.3 1.0

Sodium binding site 4 out of 4 in the Crystal Structure of Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of Leut Bound to L-Selenomethionine in Space Group P21212 From Lipid Bicelles within 5.0Å range: probe atom residue distance (Å) B Occ B:Na752 b:0.1 occ:1.00 OD1 B:ASN27 2.3 0.4 1.0 O B:THR254 2.3 0.3 1.0 OG1 B:THR254 2.4 0.5 1.0 OD1 B:ASN286 2.4 0.5 1.0 O B:ALA22 2.4 0.8 1.0 C B:THR254 3.1 0.0 1.0 C B:ALA22 3.1 0.6 1.0 CA B:THR254 3.2 0.7 1.0 CG B:ASN27 3.2 0.7 1.0 OXT B:MSE601 3.3 0.9 1.0 CG B:ASN286 3.3 0.9 1.0 CB B:THR254 3.3 0.1 1.0 ND2 B:ASN27 3.4 0.9 1.0 ND2 B:ASN286 3.5 1.0 1.0 N B:VAL23 3.7 0.9 1.0 CA B:VAL23 3.7 0.5 1.0 N B:MSE601 3.7 0.8 1.0 N B:GLY24 3.9 0.7 1.0 C B:MSE601 4.1 0.0 1.0 CA B:ALA22 4.1 0.3 1.0 OE2 B:GLU290 4.1 1.0 1.0 C B:VAL23 4.3 0.5 1.0 CB B:ALA22 4.3 0.3 1.0 N B:LEU255 4.3 0.1 1.0 CG2 B:THR254 4.4 0.4 1.0 CA B:MSE601 4.5 0.1 1.0 N B:THR254 4.6 0.7 1.0 CB B:ASN27 4.6 0.3 1.0 N B:ASN27 4.6 0.6 1.0 CB B:ASN286 4.7 0.8 1.0 O B:PHE253 4.9 0.6 1.0 O B:MSE601 4.9 0.5 1.0 CB B:VAL23 5.0 0.1 1.0

H.Wang, J.Elferich, E.Gouaux. Structures of Leut in Bicelles Define Conformation and Substrate Binding in A Membrane-Like Context. Nat.Struct.Mol.Biol. V. 19 212 2012.
ISSN: ISSN 1545-9993
PubMed: 22245965
DOI: 10.1038/NSMB.2215