Sodium in PDB 3gz5: Crystal Structure of Shewanella Oneidensis Nrtr

The structure of Crystal Structure of Shewanella Oneidensis Nrtr, PDB code: 3gz5 was solved by N.Huang, H.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.32 / 2.20
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	75.157, 75.157, 172.511, 90.00, 90.00, 120.00
R / Rfree (%)	22.1 / 27.3

The binding sites of Sodium atom in the Crystal Structure of Shewanella Oneidensis Nrtr (pdb code 3gz5). 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 Shewanella Oneidensis Nrtr, PDB code: 3gz5:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Shewanella Oneidensis Nrtr


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 Shewanella Oneidensis Nrtr within 5.0Å range: probe atom residue distance (Å) B Occ A:Na238 b:43.7 occ:1.00 O A:ILE119 2.2 54.5 1.0 O A:VAL122 2.2 48.1 1.0 O A:VAL125 2.2 42.5 1.0 C A:ILE119 3.4 55.4 1.0 C A:VAL122 3.4 48.4 1.0 C A:VAL125 3.5 42.3 1.0 CB A:LYS126 3.9 41.5 1.0 CG1 A:VAL122 4.1 50.2 1.0 N A:VAL122 4.1 49.7 1.0 CA A:LYS126 4.2 41.5 1.0 O A:ALA120 4.2 53.5 1.0 CA A:VAL122 4.3 48.9 1.0 N A:ALA120 4.3 54.7 1.0 N A:LYS126 4.3 42.0 1.0 N A:VAL125 4.3 42.5 1.0 C A:ALA120 4.3 53.6 1.0 CA A:ILE119 4.3 56.4 1.0 CB A:ILE119 4.4 56.3 1.0 CA A:ALA120 4.4 54.1 1.0 N A:SER123 4.4 47.6 1.0 CA A:VAL125 4.4 42.7 1.0 CA A:SER123 4.5 46.5 1.0 C A:SER123 4.6 45.7 1.0 CG1 A:ILE119 4.7 55.8 1.0 CB A:VAL122 4.8 49.1 1.0 O A:HOH243 4.8 34.6 1.0 O A:SER123 4.8 44.9 1.0 CB A:VAL125 4.9 43.3 1.0 CD1 A:ILE119 4.9 54.9 1.0 N A:SER121 4.9 52.7 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Shewanella Oneidensis Nrtr


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 Shewanella Oneidensis Nrtr within 5.0Å range: probe atom residue distance (Å) B Occ B:Na238 b:72.9 occ:1.00 O B:VAL122 2.2 74.0 1.0 O B:ILE119 2.2 75.6 1.0 O B:VAL125 2.3 69.9 1.0 C B:VAL122 3.4 74.1 1.0 C B:ILE119 3.5 76.7 1.0 C B:VAL125 3.5 68.4 1.0 O B:ALA120 3.8 76.8 1.0 N B:VAL122 4.1 75.5 1.0 CA B:VAL122 4.2 74.6 1.0 C B:ALA120 4.2 77.0 1.0 CA B:LYS126 4.3 65.0 1.0 CA B:ALA120 4.3 77.2 1.0 N B:ALA120 4.4 76.9 1.0 N B:LYS126 4.4 66.8 1.0 CB B:VAL122 4.4 74.8 1.0 N B:SER123 4.5 73.3 1.0 CG1 B:ILE119 4.5 77.5 1.0 CA B:ILE119 4.5 76.8 1.0 O B:HOH317 4.5 55.5 1.0 CA B:VAL125 4.5 69.5 1.0 CG2 B:ILE119 4.6 77.6 1.0 N B:VAL125 4.6 70.2 1.0 CB B:LYS126 4.6 65.2 1.0 CA B:SER123 4.7 72.8 1.0 CB B:ILE119 4.7 77.0 1.0 CB B:VAL125 4.8 69.5 1.0

N.Huang, J.De Ingeniis, L.Galeazzi, C.Mancini, Y.D.Korostelev, A.B.Rakhmaninova, M.S.Gelfand, D.A.Rodionov, N.Raffaelli, H.Zhang. Structure and Function of An Adp-Ribose-Dependent Transcriptional Regulator of Nad Metabolism Structure V. 17 939 2009.
ISSN: ISSN 0969-2126
PubMed: 19604474
DOI: 10.1016/J.STR.2009.05.012