Sodium in PDB 6r8t: Crystal Structure of AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp

The structure of Crystal Structure of AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp, PDB code: 6r8t was solved by O.Kravchenko, V.Arkhipova, A.Gabdulkhakov, E.Stolboushkina, O.Nikonov, M.Garber, S.Nikonov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.39 / 2.10
Space group	I 2 3
Cell size a, b, c (Å), α, β, γ (°)	186.585, 186.585, 186.585, 90.00, 90.00, 90.00
R / Rfree (%)	18.2 / 20.6

The structure of Crystal Structure of AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Sodium atom in the Crystal Structure of AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp (pdb code 6r8t). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp, PDB code: 6r8t:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp


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 AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp within 5.0Å range: probe atom residue distance (Å) B Occ A:Na526 b:24.7 occ:1.00 O A:HOH1078 2.4 36.8 1.0 O A:HOH970 2.5 33.7 1.0 O A:LYS171 2.6 19.7 1.0 O A:GLN168 2.6 16.7 1.0 O A:PHE169 2.7 12.1 1.0 C A:PHE169 3.3 14.8 1.0 C A:LYS171 3.6 20.9 1.0 C A:GLN168 3.7 14.8 1.0 N A:LYS171 3.7 16.1 1.0 CA A:PHE169 3.7 15.5 1.0 O A:HOH1215 3.7 33.2 1.0 O A:HOH972 3.8 26.8 1.0 O A:HOH890 4.0 22.9 1.0 CA A:LYS171 4.0 18.5 1.0 N A:PHE169 4.2 14.2 1.0 N A:THR170 4.2 11.3 1.0 C A:THR170 4.2 18.0 1.0 CB A:LYS171 4.3 21.7 1.0 O A:HOH907 4.3 23.8 1.0 O A:HOH1049 4.4 46.0 1.0 CG2 A:THR173 4.6 16.9 1.0 O A:HOH1075 4.6 42.6 1.0 CA A:THR170 4.6 13.3 1.0 N A:GLY172 4.8 20.2 1.0 O A:THR170 4.8 15.6 1.0 CA A:GLN168 5.0 13.7 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp


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 AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp within 5.0Å range: probe atom residue distance (Å) B Occ A:Na527 b:33.1 occ:1.00 O A:MET111 2.3 17.3 1.0 O A:HOH776 2.5 16.6 1.0 O A:HOH1208 2.5 23.8 1.0 O A:HOH909 2.6 19.0 1.0 O A:HOH1032 2.7 23.8 1.0 O A:HOH781 2.7 28.1 1.0 O A:HOH1207 2.8 26.9 1.0 O A:HOH923 3.2 33.1 1.0 C A:MET111 3.4 14.4 1.0 O A:HOH1150 4.1 36.1 1.0 N A:ASP112 4.2 11.5 1.0 CA A:ASP112 4.2 13.6 1.0 O A:HOH1223 4.3 50.5 1.0 N A:MET111 4.4 12.9 1.0 O A:HOH1198 4.4 36.5 1.0 OD1 A:ASP112 4.4 15.3 1.0 CA A:MET111 4.4 14.9 1.0 O A:HOH630 4.5 55.9 1.0 O A:HOH1200 4.5 34.3 1.0 O A:ALA109 4.6 16.7 1.0 O A:HOH908 4.6 25.8 1.0 O A:HOH873 4.7 21.4 1.0 O A:HOH1175 4.8 30.2 1.0 CG2 A:VAL141 4.8 11.7 1.0 O A:ALA108 4.8 11.8 1.0 C A:LEU110 4.9 17.7 1.0 O A:HOH852 5.0 19.7 1.0 C A:ASP112 5.0 14.1 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp


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 AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp within 5.0Å range: probe atom residue distance (Å) B Occ A:Na528 b:11.8 occ:1.00 O A:VAL151 2.3 11.4 1.0 O A:VAL154 2.3 10.9 1.0 O A:HOH1101 2.4 13.6 1.0 C A:VAL151 3.3 11.6 1.0 C A:VAL154 3.5 9.6 1.0 C A:SER155 4.0 15.6 1.0 CB A:VAL151 4.0 14.9 1.0 CA A:VAL151 4.1 10.8 1.0 N A:LYS156 4.2 11.8 1.0 O A:SER155 4.2 15.4 1.0 N A:ASP152 4.2 9.6 1.0 CA A:SER155 4.3 16.3 1.0 N A:VAL154 4.3 10.4 1.0 N A:SER155 4.4 11.1 1.0 CA A:ASP152 4.4 13.7 1.0 CG2 A:VAL154 4.5 10.4 1.0 CG2 A:VAL151 4.5 12.9 1.0 CA A:VAL154 4.5 13.7 1.0 C A:ASP152 4.6 13.7 1.0 CA A:LYS156 4.7 16.7 1.0 O A:HOH1187 4.8 15.2 1.0 O A:ASP152 4.9 13.2 1.0

O.Nikonov, O.Kravchenko, E.Stolboushkina, N.Nevskaya, M.Garber, S.Nikonov. Crystal Structure of AIF2GAMMA Subunit I181T From Archaeon Sulfolobus Solfataricus Complexed with Gdpcp To Be Published.