Sodium in PDB 2a65: Crystal Structure of Leutaa, A Bacterial Homolog of Na+/Cl--Dependent Neurotransmitter Transporters

The structure of Crystal Structure of Leutaa, A Bacterial Homolog of Na+/Cl--Dependent Neurotransmitter Transporters, PDB code: 2a65 was solved by A.Yamashita, S.K.Singh, T.Kawate, Y.Jin, E.Gouaux, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.65
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	87.860, 86.310, 81.020, 90.00, 95.73, 90.00
R / Rfree (%)	19.9 / 21.7

The structure of Crystal Structure of Leutaa, A Bacterial Homolog of Na+/Cl--Dependent Neurotransmitter Transporters also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Leutaa, A Bacterial Homolog of Na+/Cl--Dependent Neurotransmitter Transporters (pdb code 2a65). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Leutaa, A Bacterial Homolog of Na+/Cl--Dependent Neurotransmitter Transporters, PDB code: 2a65:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Leutaa, A Bacterial Homolog of Na+/Cl--Dependent Neurotransmitter Transporters


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 Leutaa, A Bacterial Homolog of Na+/Cl--Dependent Neurotransmitter Transporters within 5.0Å range: probe atom residue distance (Å) B Occ A:Na751 b:15.8 occ:1.00 O A:VAL23 2.1 17.8 1.0 O A:GLY20 2.2 20.4 1.0 OG1 A:THR354 2.2 18.8 1.0 O A:ALA351 2.3 16.4 1.0 OG A:SER355 2.4 16.9 1.0 N A:SER355 2.9 16.6 1.0 C A:VAL23 3.2 16.6 1.0 CB A:SER355 3.2 15.3 1.0 CB A:THR354 3.3 17.6 1.0 C A:THR354 3.3 17.4 1.0 C A:GLY20 3.4 19.6 1.0 C A:ALA351 3.4 16.4 1.0 CA A:SER355 3.5 15.8 1.0 CA A:GLY24 3.6 16.9 1.0 CA A:THR354 3.7 17.1 1.0 N A:GLY24 3.8 16.4 1.0 O A:THR354 4.0 18.7 1.0 CA A:ALA351 4.0 17.0 1.0 N A:THR354 4.0 16.0 1.0 CA A:GLY20 4.0 21.0 1.0 O A:ASN21 4.3 17.9 1.0 CA A:VAL23 4.3 16.8 1.0 N A:VAL23 4.4 16.7 1.0 O A:PHE350 4.4 17.1 1.0 N A:ASN21 4.5 18.9 1.0 N A:GLY352 4.5 15.2 1.0 C A:ASN21 4.5 18.1 1.0 O A:GLY352 4.6 16.5 1.0 CG2 A:THR354 4.6 19.4 1.0 C A:GLY352 4.7 15.9 1.0 CA A:ASN21 4.8 18.2 1.0 CA A:GLY352 4.8 14.3 1.0 C A:ALA22 4.8 16.5 1.0 CB A:VAL23 4.8 18.5 1.0 CB A:ALA351 4.8 17.2 1.0 C A:SER355 4.9 16.0 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Leutaa, A Bacterial Homolog of Na+/Cl--Dependent Neurotransmitter Transporters


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 Leutaa, A Bacterial Homolog of Na+/Cl--Dependent Neurotransmitter Transporters within 5.0Å range: probe atom residue distance (Å) B Occ A:Na752 b:17.3 occ:1.00 O A:ALA22 2.2 15.3 1.0 OD1 A:ASN27 2.2 17.4 1.0 O A:THR254 2.3 14.6 1.0 OG1 A:THR254 2.4 17.5 1.0 OXT A:LEU601 2.5 18.1 1.0 OD1 A:ASN286 2.5 17.3 1.0 C A:THR254 3.1 17.2 1.0 C A:ALA22 3.1 16.5 1.0 CG A:ASN27 3.2 15.8 1.0 CA A:THR254 3.2 17.2 1.0 CB A:THR254 3.4 17.6 1.0 CG A:ASN286 3.4 19.0 1.0 ND2 A:ASN27 3.5 16.7 1.0 C A:LEU601 3.5 16.5 1.0 ND2 A:ASN286 3.6 19.7 1.0 N A:LEU601 3.6 15.3 1.0 CA A:VAL23 3.8 16.8 1.0 N A:VAL23 3.8 16.7 1.0 N A:GLY24 3.9 16.4 1.0 CA A:ALA22 4.1 15.7 1.0 CA A:LEU601 4.1 16.7 1.0 OE2 A:GLU290 4.2 20.4 1.0 N A:ASN27 4.3 17.6 1.0 N A:LEU255 4.4 15.5 1.0 C A:VAL23 4.4 16.6 1.0 CG2 A:THR254 4.4 17.6 1.0 CB A:ALA22 4.4 15.6 1.0 CB A:ASN27 4.5 17.0 1.0 O A:LEU601 4.5 17.3 1.0 N A:THR254 4.6 16.2 1.0 O A:PHE253 4.7 16.0 1.0 C A:GLY26 4.8 17.7 1.0 CA A:ASN27 4.8 17.7 1.0 CB A:ASN286 4.8 17.5 1.0 CA A:GLY26 4.8 17.3 1.0 CA A:GLY24 5.0 16.9 1.0

A.Yamashita, S.K.Singh, T.Kawate, Y.Jin, E.Gouaux. Crystal Structure of A Bacterial Homologue of Na(+)/Cl(-)-Dependent Neurotransmitter Transporters. Nature V. 437 215 2005.
ISSN: ISSN 0028-0836
PubMed: 16041361
DOI: 10.1038/NATURE03978