Sodium in PDB 8c6g: Crystal Structure of Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5

The structure of Crystal Structure of Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5, PDB code: 8c6g was solved by K.E.Tsitsanou, C.E.Drakou, S.E.Zographos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.73 / 2.05
Space group	I 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	60.355, 57.03, 67.34, 90, 100.21, 90
R / Rfree (%)	19.3 / 22.9

The binding sites of Sodium atom in the Crystal Structure of Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5 (pdb code 8c6g). 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 Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5, PDB code: 8c6g:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5


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 Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:29.7 occ:1.00 O A:PRO119 2.3 24.3 1.0 OG1 A:THR118 2.4 21.6 1.0 OG A:SER35 2.4 20.6 1.0 O A:ALA115 2.4 19.1 1.0 O A:THR118 2.6 25.1 1.0 O A:HOH302 2.7 26.4 1.0 C A:THR118 3.1 25.1 1.0 CB A:SER35 3.1 18.8 1.0 C A:PRO119 3.1 26.5 1.0 C A:ALA115 3.4 18.4 1.0 CB A:THR118 3.4 23.1 1.0 NA A:NA202 3.5 30.2 1.0 N A:PRO119 3.7 27.2 1.0 CA A:ALA115 3.7 17.0 1.0 CA A:THR118 3.7 24.1 1.0 CA A:PRO119 3.9 27.9 1.0 CB A:PHE122 4.0 25.1 1.0 N A:ASP120 4.0 28.1 1.0 N A:THR118 4.1 22.6 1.0 O A:SER35 4.1 19.0 1.0 CA A:ASP120 4.2 28.7 1.0 O A:PHE122 4.4 25.5 1.0 O A:ALA114 4.4 19.1 1.0 CA A:SER35 4.4 17.7 1.0 CB A:ALA115 4.6 15.4 1.0 N A:PHE122 4.6 27.5 1.0 N A:ASP116 4.7 18.8 1.0 C A:SER35 4.7 18.0 1.0 OD1 A:ASP120 4.8 29.7 1.0 CA A:PHE122 4.8 27.0 1.0 CG2 A:THR118 4.8 22.6 1.0 C A:ASP120 4.8 29.4 1.0 N A:ALA115 4.8 16.5 1.0 O A:HOH323 4.9 29.0 1.0 CD2 A:PHE122 4.9 22.9 1.0 CG A:PHE122 4.9 25.2 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5


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 Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na202 b:30.2 occ:1.00 O A:THR118 2.3 25.1 1.0 O A:HOH343 2.4 31.9 1.0 O A:HOH302 2.4 26.4 1.0 O A:HOH340 2.4 48.7 1.0 O A:ASP116 2.8 22.8 1.0 O A:ALA115 2.9 19.1 1.0 C A:ASP116 3.5 21.5 1.0 NA A:NA201 3.5 29.7 1.0 C A:THR118 3.5 25.1 1.0 CA A:ASP116 3.8 20.4 1.0 C A:ALA115 3.9 18.4 1.0 O A:HOH301 3.9 29.2 1.0 N A:THR118 4.2 22.6 1.0 OD1 A:ASP120 4.2 29.7 1.0 CA A:PRO119 4.3 27.9 1.0 N A:ASP116 4.3 18.8 1.0 C A:PRO119 4.4 26.5 1.0 N A:PRO119 4.4 27.2 1.0 N A:PHE117 4.5 20.5 1.0 CA A:THR118 4.5 24.1 1.0 C A:PHE117 4.5 23.5 1.0 O A:PRO119 4.6 24.3 1.0 O A:PHE117 4.8 24.2 1.0 OG1 A:THR118 4.9 21.6 1.0 N A:ASP120 4.9 28.1 1.0 O A:SER35 4.9 19.0 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5


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 Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na203 b:46.2 occ:1.00 OD2 A:ASP116 2.3 24.6 1.0 CG A:ASP116 3.4 22.4 1.0 CB A:ASP116 3.8 21.0 1.0 CE A:LYS112 4.2 21.1 1.0 OD1 A:ASP116 4.4 24.1 1.0 NZ A:LYS112 4.6 19.3 1.0 CG A:LYS112 4.9 16.0 1.0 CD A:LYS112 5.0 17.7 1.0

Sodium binding site 4 out of 4 in the Crystal Structure of Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5


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 Odorant Binding Protein 4 From Anopheles Gambiae (AGAMOBP4) at pH 6.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na204 b:51.5 occ:1.00 OE1 A:GLN6 2.3 24.9 1.0 O A:ALA1 2.9 33.0 1.0 CD A:GLN6 3.3 27.4 1.0 O A:HOH329 3.5 36.5 1.0 N A:THR3 3.5 24.6 1.0 CA A:MET2 3.6 28.1 1.0 NE2 A:GLN6 3.6 27.2 1.0 C A:MET2 3.8 26.5 1.0 C A:ALA1 3.9 33.8 1.0 CG2 A:THR3 3.9 25.1 1.0 N A:MET2 4.1 31.3 1.0 CA A:THR3 4.6 23.5 1.0 CG A:GLN6 4.7 24.6 1.0 CB A:THR3 4.7 24.1 1.0 O A:MET2 4.7 26.0 1.0 CB A:MET2 4.7 27.4 1.0 OG1 A:THR3 4.9 23.9 1.0

B.Mam, K.E.Tsitsanou, P.G.V.Liggri, F.Saitta, E.C.V.Stamati, J.Mahita, G.Leonis, C.E.Drakou, M.Papadopoulos, P.Arnaud, B.Offmann, D.Fessas, R.Sowdhamini, S.E.Zographos. Influence of pH on Indole-Dependent Heterodimeric Interactions Between Anopheles Gambiae Odorant-Binding Proteins OBP1 and OBP4. To Be Published.