Sodium in PDB 3on4: Crystal Structure of Tetr Transcriptional Regulator From Legionella Pneumophila

The structure of Crystal Structure of Tetr Transcriptional Regulator From Legionella Pneumophila, PDB code: 3on4 was solved by K.Michalska, H.Li, M.Gu, A.Joachimiak, Midwest Center For Structuralgenomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.19 / 1.85
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	81.380, 124.990, 151.380, 90.00, 90.00, 90.00
R / Rfree (%)	17.9 / 21.8

The binding sites of Sodium atom in the Crystal Structure of Tetr Transcriptional Regulator From Legionella Pneumophila (pdb code 3on4). 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 Tetr Transcriptional Regulator From Legionella Pneumophila, PDB code: 3on4:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of Tetr Transcriptional Regulator From Legionella Pneumophila


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 Tetr Transcriptional Regulator From Legionella Pneumophila within 5.0Å range: probe atom residue distance (Å) B Occ A:Na189 b:16.8 occ:1.00 O B:HOH757 2.3 16.6 1.0 O A:HOH756 2.4 17.0 1.0 OG B:SER111 2.4 13.7 1.0 OD1 B:ASP112 2.4 15.5 1.0 OG A:SER111 2.5 14.0 1.0 OD1 A:ASP112 2.5 15.7 1.0 CG B:ASP112 3.3 15.7 1.0 CB A:SER111 3.4 13.7 1.0 CG A:ASP112 3.4 15.2 1.0 CB B:SER111 3.5 13.9 1.0 OD2 B:ASP112 3.7 17.2 1.0 OD2 A:ASP112 3.9 15.7 1.0 C B:SER111 4.2 14.3 1.0 C A:SER111 4.2 14.5 1.0 N B:ASP112 4.2 14.1 1.0 O A:HOH276 4.2 17.2 1.0 N A:ASP112 4.2 13.1 1.0 O A:HOH277 4.2 15.5 1.0 O B:HOH278 4.3 18.1 1.0 O B:HOH275 4.3 16.1 1.0 O B:MSE108 4.4 14.0 1.0 O A:MSE108 4.4 13.9 1.0 CA A:SER111 4.5 14.0 1.0 CA B:SER111 4.5 14.1 1.0 O B:SER111 4.5 14.5 1.0 CB B:ASP112 4.5 14.6 1.0 O A:SER111 4.5 15.6 1.0 CA B:ASP112 4.6 14.9 1.0 CA A:ASP112 4.6 14.3 1.0 CB A:ASP112 4.6 14.3 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of Tetr Transcriptional Regulator From Legionella Pneumophila


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 Tetr Transcriptional Regulator From Legionella Pneumophila within 5.0Å range: probe atom residue distance (Å) B Occ C:Na189 b:26.6 occ:1.00 O H:HOH742 2.2 29.4 1.0 OD1 H:ASP112 2.4 26.1 1.0 OG H:SER111 2.5 20.1 1.0 O C:HOH597 2.5 33.2 1.0 OD1 C:ASP112 2.5 23.9 1.0 OG C:SER111 2.5 20.1 1.0 CG H:ASP112 3.3 24.3 1.0 CG C:ASP112 3.4 21.9 1.0 CB C:SER111 3.4 21.8 1.0 CB H:SER111 3.4 20.0 1.0 OD2 H:ASP112 3.7 26.0 1.0 OD2 C:ASP112 3.8 27.3 1.0 O C:HOH207 4.1 34.5 1.0 C C:SER111 4.1 22.0 1.0 C H:SER111 4.2 21.8 1.0 N H:ASP112 4.3 21.9 1.0 N C:ASP112 4.3 21.5 1.0 O C:SER111 4.4 22.0 1.0 CA C:SER111 4.4 21.2 1.0 CA H:SER111 4.4 19.9 1.0 O H:MSE108 4.5 21.3 1.0 O C:MSE108 4.5 18.7 1.0 O H:SER111 4.5 22.6 1.0 CB H:ASP112 4.6 24.0 1.0 CB C:ASP112 4.6 22.3 1.0 CA H:ASP112 4.7 23.9 1.0 CA C:ASP112 4.7 22.7 1.0 O C:HOH333 4.8 27.2 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of Tetr Transcriptional Regulator From Legionella Pneumophila


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 Tetr Transcriptional Regulator From Legionella Pneumophila within 5.0Å range: probe atom residue distance (Å) B Occ D:Na189 b:21.4 occ:1.00 O G:HOH207 2.4 31.7 1.0 O D:HOH219 2.4 24.2 1.0 OG D:SER111 2.4 18.9 1.0 OG G:SER111 2.5 20.8 1.0 OD1 D:ASP112 2.5 21.8 1.0 OD1 G:ASP112 2.5 24.4 1.0 CG D:ASP112 3.4 21.4 1.0 CG G:ASP112 3.4 23.0 1.0 CB G:SER111 3.4 20.9 1.0 CB D:SER111 3.5 19.7 1.0 OD2 D:ASP112 3.8 23.7 1.0 OD2 G:ASP112 3.8 25.6 1.0 C D:SER111 4.1 19.9 1.0 C G:SER111 4.2 21.3 1.0 O G:HOH592 4.2 31.7 1.0 N G:ASP112 4.3 20.6 1.0 O G:HOH200 4.3 38.2 1.0 N D:ASP112 4.3 19.1 1.0 O D:HOH347 4.4 29.2 1.0 O G:HOH215 4.4 34.7 1.0 O D:SER111 4.4 19.5 1.0 CA G:SER111 4.4 20.4 1.0 CA D:SER111 4.4 19.1 1.0 O G:SER111 4.5 22.2 1.0 O G:MSE108 4.5 20.3 1.0 O D:MSE108 4.5 16.7 1.0 CB G:ASP112 4.6 21.7 1.0 CA G:ASP112 4.6 21.9 1.0 CB D:ASP112 4.6 20.8 1.0 CA D:ASP112 4.7 21.4 1.0

Sodium binding site 4 out of 4 in the Crystal Structure of Tetr Transcriptional Regulator From Legionella Pneumophila


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 Tetr Transcriptional Regulator From Legionella Pneumophila within 5.0Å range: probe atom residue distance (Å) B Occ E:Na189 b:16.8 occ:1.00 O E:HOH769 2.3 15.7 1.0 O F:HOH206 2.4 17.2 1.0 OD1 E:ASP112 2.4 18.7 1.0 OD1 F:ASP112 2.5 14.5 1.0 OG E:SER111 2.5 13.8 1.0 OG F:SER111 2.5 11.9 1.0 CG E:ASP112 3.4 17.3 1.0 CG F:ASP112 3.4 14.3 1.0 CB E:SER111 3.5 13.1 1.0 CB F:SER111 3.5 13.3 1.0 OD2 E:ASP112 3.7 16.8 1.0 OD2 F:ASP112 3.8 15.9 1.0 N E:ASP112 4.2 13.2 1.0 O E:HOH360 4.2 17.5 1.0 C E:SER111 4.2 14.1 1.0 C F:SER111 4.2 14.0 1.0 N F:ASP112 4.2 13.4 1.0 O E:HOH191 4.2 16.1 1.0 O E:HOH359 4.3 15.9 1.0 O E:HOH361 4.3 16.8 1.0 O E:MSE108 4.4 13.9 1.0 O F:MSE108 4.5 12.0 1.0 CA E:SER111 4.5 13.6 1.0 CA F:SER111 4.5 12.8 1.0 CB E:ASP112 4.6 14.6 1.0 CB F:ASP112 4.6 14.2 1.0 O E:SER111 4.6 14.2 1.0 CA F:ASP112 4.6 14.1 1.0 CA E:ASP112 4.6 14.7 1.0 O F:SER111 4.6 13.8 1.0

K.Michalska, H.Li, M.Gu, A.Joachimiak. Crystal Structure of Tetr Transcriptional Regulator From Legionella Pneumophila To Be Published.