Sodium in PDB 4b30: Structure of the Mutant V44A of the Fluorescent Protein Killerred

The structure of Structure of the Mutant V44A of the Fluorescent Protein Killerred, PDB code: 4b30 was solved by P.Carpentier, E.De Rosny, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	116.32 / 2.10
Space group	P 62
Cell size a, b, c (Å), α, β, γ (°)	134.310, 134.310, 76.220, 90.00, 90.00, 120.00
R / Rfree (%)	16.5 / 19.9

The structure of Structure of the Mutant V44A of the Fluorescent Protein Killerred also contains other interesting chemical elements:

Chlorine

(Cl)

8 atoms

The binding sites of Sodium atom in the Structure of the Mutant V44A of the Fluorescent Protein Killerred (pdb code 4b30). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of the Mutant V44A of the Fluorescent Protein Killerred, PDB code: 4b30:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of the Mutant V44A of the Fluorescent Protein Killerred


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Mutant V44A of the Fluorescent Protein Killerred within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1236 b:35.7 occ:1.00 O2 A:SO41231 2.5 29.9 0.7 OD1 A:ASP93 2.6 28.1 1.0 O3 A:SO41231 2.8 26.1 0.7 S A:SO41231 2.9 35.1 0.7 NE2 A:HIS107 2.9 31.7 1.0 OD2 A:ASP93 2.9 23.9 1.0 NA A:NA1237 3.0 40.7 1.0 O4 A:SO41231 3.0 30.9 0.7 CG A:ASP93 3.1 24.8 1.0 CD2 A:HIS107 3.8 30.1 1.0 CG2 A:THR105 3.8 24.9 1.0 CE1 A:HIS107 3.8 32.9 1.0 O A:HOH2083 4.0 45.0 1.0 O1 A:SO41231 4.3 28.0 0.7 CB A:ASP93 4.6 22.6 1.0 O A:HOH2087 4.8 45.4 1.0 CG2 A:THR95 5.0 25.8 0.5

Sodium binding site 2 out of 2 in the Structure of the Mutant V44A of the Fluorescent Protein Killerred


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of the Mutant V44A of the Fluorescent Protein Killerred within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1237 b:40.7 occ:1.00 O2 A:SO41231 1.9 29.9 0.7 O3 A:SO41231 2.6 26.1 0.7 S A:SO41231 2.6 35.1 0.7 NA A:NA1236 3.0 35.7 1.0 OD2 A:ASP93 3.2 23.9 1.0 O1 A:SO41231 3.2 28.0 0.7 NE2 A:HIS107 3.4 31.7 1.0 O A:HOH2084 3.7 42.2 1.0 CG A:ASP93 3.7 24.8 1.0 CE1 A:HIS107 3.9 32.9 1.0 O4 A:SO41231 4.0 30.9 0.7 OD1 A:ASP93 4.1 28.1 1.0 CD2 A:HIS107 4.2 30.1 1.0 CB A:ASP93 4.7 22.6 1.0 ND1 A:HIS107 4.8 30.9 1.0 CG A:HIS107 5.0 28.0 1.0

E.De Rosny, P.Carpentier. Gfp-Like Phototransformation Mechanisms in the Cytotoxic Fluorescent Protein Killerred Unraveled By Structural and Spectroscopic Investigations. J.Am.Chem.Soc. V. 134 18015 2012.
ISSN: ISSN 0002-7863
PubMed: 23025285
DOI: 10.1021/JA3073337