Sodium in PDB 5cl2: Crystal Structure of SPO0M, Sporulation Control Protein, From Bacillus Subtilis.

The structure of Crystal Structure of SPO0M, Sporulation Control Protein, From Bacillus Subtilis., PDB code: 5cl2 was solved by Y.Sonoda, K.Mizutani, B.Mikami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.62 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	65.995, 74.228, 133.075, 90.00, 90.00, 90.00
R / Rfree (%)	22.7 / 27.3

The binding sites of Sodium atom in the Crystal Structure of SPO0M, Sporulation Control Protein, From Bacillus Subtilis. (pdb code 5cl2). 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 SPO0M, Sporulation Control Protein, From Bacillus Subtilis., PDB code: 5cl2:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of SPO0M, Sporulation Control Protein, From Bacillus Subtilis.


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 SPO0M, Sporulation Control Protein, From Bacillus Subtilis. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:59.2 occ:1.00 O A:HOH416 2.0 41.0 1.0 OD2 A:ASP130 2.3 52.1 1.0 OD2 A:ASP128 2.4 56.2 1.0 OD1 A:ASP130 2.5 49.3 1.0 O A:THR20 2.6 52.2 1.0 CG A:ASP130 2.7 53.8 1.0 CG A:ASP128 3.2 51.5 1.0 OD1 A:ASP128 3.4 50.8 1.0 C A:THR20 3.6 49.1 1.0 OD1 A:ASP19 3.6 62.7 1.0 N A:THR20 3.7 52.8 1.0 O A:HOH406 4.0 50.6 1.0 CA A:THR20 4.1 47.7 1.0 O A:HIS129 4.2 52.7 1.0 CB A:ASP130 4.2 49.5 1.0 CB A:THR20 4.3 47.4 1.0 CB A:ASP128 4.5 44.4 1.0 C A:HIS129 4.6 54.9 1.0 C A:ASP19 4.7 52.0 1.0 CA A:ASP130 4.8 50.7 1.0 N A:ILE21 4.8 49.2 1.0 CG A:ASP19 4.8 60.9 1.0 N A:ASP130 4.9 47.9 1.0 N A:HIS129 4.9 52.8 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of SPO0M, Sporulation Control Protein, From Bacillus Subtilis.


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 SPO0M, Sporulation Control Protein, From Bacillus Subtilis. within 5.0Å range: probe atom residue distance (Å) B Occ B:Na301 b:67.6 occ:1.00 OD1 B:ASP130 2.3 71.3 1.0 O B:THR20 2.4 70.4 1.0 OD2 B:ASP128 2.6 74.0 1.0 OD2 B:ASP130 2.9 72.8 1.0 CG B:ASP130 2.9 73.5 1.0 OD1 B:ASP19 3.3 85.9 1.0 CG B:ASP128 3.5 68.0 1.0 C B:THR20 3.5 71.0 1.0 N B:THR20 3.5 73.2 1.0 OD1 B:ASP128 3.6 64.5 1.0 CA B:THR20 4.0 69.1 1.0 CG B:ASP19 4.0 82.2 1.0 CB B:THR20 4.4 63.1 1.0 CB B:ASP130 4.4 73.0 1.0 OD2 B:ASP19 4.4 80.0 1.0 C B:ASP19 4.4 72.6 1.0 O B:HIS129 4.5 71.8 1.0 N B:ILE21 4.6 69.5 1.0 CA B:ASP19 4.7 73.5 1.0 CB B:ASP128 4.9 67.5 1.0 C B:HIS129 5.0 73.0 1.0

Y.Sonoda, K.Mizutani, B.Mikami. Structure of SPO0M, A Sporulation-Control Protein From Bacillus Subtilis. Acta Crystallogr.,Sect.F V. 71 1488 2015.
ISSN: ESSN 2053-230X
PubMed: 26625291
DOI: 10.1107/S2053230X15020919