Sodium in PDB 3d76: Crystal Structure of A Pheromone Binding Protein Mutant D35N, From Apis Mellifera, Soaked at pH 7.0

The structure of Crystal Structure of A Pheromone Binding Protein Mutant D35N, From Apis Mellifera, Soaked at pH 7.0, PDB code: 3d76 was solved by M.E.Pesenti, S.Spinelli, V.Bezirard, L.Briand, J.C.Pernollet, M.Tegoni, C.Cambillau, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.00 / 1.90
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	78.991, 84.196, 47.558, 90.00, 90.00, 90.00
R / Rfree (%)	19 / 24.1

The binding sites of Sodium atom in the Crystal Structure of A Pheromone Binding Protein Mutant D35N, From Apis Mellifera, Soaked at pH 7.0 (pdb code 3d76). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of A Pheromone Binding Protein Mutant D35N, From Apis Mellifera, Soaked at pH 7.0, PDB code: 3d76:

Sodium binding site 1 out of 1 in the Crystal Structure of A Pheromone Binding Protein Mutant D35N, From Apis Mellifera, Soaked at pH 7.0


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 A Pheromone Binding Protein Mutant D35N, From Apis Mellifera, Soaked at pH 7.0 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na120 b:25.0 occ:1.00 OG A:SER44 2.7 25.3 1.0 OE1 A:GLU42 2.7 27.5 1.0 N A:SER44 3.1 26.2 1.0 CB A:SER44 3.4 26.7 1.0 N A:PRO43 3.5 28.2 1.0 CB A:GLU42 3.5 28.2 1.0 CD A:PRO43 3.6 28.6 1.0 C A:GLU42 3.7 28.0 1.0 CD A:GLU42 3.7 26.8 1.0 CA A:SER44 3.8 26.8 1.0 CA A:GLU42 3.9 28.1 1.0 C A:PRO43 4.0 27.8 1.0 CG A:GLU42 4.1 27.6 1.0 CA A:PRO43 4.1 27.6 1.0 CB A:PRO43 4.2 28.2 1.0 CG A:PRO43 4.2 29.6 1.0 O A:GLU42 4.3 28.4 1.0 OE2 A:GLU42 4.8 29.6 1.0 C A:SER44 4.9 26.9 1.0 O A:HOH137 5.0 20.3 1.0 N A:ILE45 5.0 26.6 1.0

M.E.Pesenti, S.Spinelli, V.Bezirard, L.Briand, J.C.Pernollet, V.Campanacci, M.Tegoni, C.Cambillau. Queen Bee Pheromone Binding Protein pH-Induced Domain Swapping Favors Pheromone Release J.Mol.Biol. V. 390 981 2009.
ISSN: ISSN 0022-2836
PubMed: 19481550
DOI: 10.1016/J.JMB.2009.05.067