Sodium in PDB 7x8c: Crystal Structure of A Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani

The structure of Crystal Structure of A Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani, PDB code: 7x8c was solved by Z.F.Zhang, K.L.Zhu, Y.Y.Chen, P.Cao, Y.Gong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.73
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	42.929, 66.763, 87.768, 90, 90, 90
R / Rfree (%)	21.9 / 27.8

The binding sites of Sodium atom in the Crystal Structure of A Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani (pdb code 7x8c). 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 A Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani, PDB code: 7x8c:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of A Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani


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 Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani within 5.0Å range: probe atom residue distance (Å) B Occ A:Na101 b:10.7 occ:1.00 OG A:SER8 3.0 56.9 1.0 N A:SER9 3.3 38.7 1.0 O A:HOH203 3.3 45.6 1.0 CB A:SER8 3.4 40.4 1.0 CA A:SER8 3.4 56.1 1.0 OG A:SER51 3.5 25.1 1.0 OG A:SER9 3.8 39.9 1.0 C A:SER8 3.9 38.6 1.0 N A:GLY53 4.0 34.6 1.0 CA A:GLY53 4.1 34.1 1.0 CB A:SER9 4.4 35.7 1.0 CA A:SER9 4.4 37.0 1.0 N A:ASP10 4.6 31.0 1.0 CB A:SER51 4.7 27.6 1.0 N A:LYS54 4.8 42.4 1.0 N A:SER8 4.8 48.9 1.0 C A:GLY53 4.9 39.4 1.0 N A:HIS52 4.9 27.4 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of A Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani


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 A Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani within 5.0Å range: probe atom residue distance (Å) B Occ B:Na101 b:7.8 occ:1.00 OG B:SER8 2.9 35.3 1.0 OG B:SER51 3.2 37.1 1.0 OG B:SER9 3.4 37.8 1.0 O B:HOH211 3.5 37.7 1.0 N B:GLY53 3.7 36.2 1.0 N B:SER9 3.8 39.8 1.0 CB B:SER8 3.9 24.4 1.0 CA B:GLY53 4.1 30.8 1.0 CA B:SER8 4.2 34.2 1.0 CB B:SER51 4.2 41.2 1.0 CA B:SER51 4.2 42.9 1.0 N B:HIS52 4.4 37.6 1.0 C B:SER51 4.5 40.3 1.0 C B:SER8 4.5 32.6 1.0 CB B:SER9 4.6 36.3 1.0 CA B:SER9 4.7 47.3 1.0 N B:LYS54 4.8 23.0 1.0 C B:HIS52 4.9 34.7 1.0 N B:ASP10 4.9 32.2 1.0 C B:GLY53 5.0 27.6 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of A Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani


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 A Ktsc Family Protein From Euryarchaeon Methanolobus Vulcani within 5.0Å range: probe atom residue distance (Å) B Occ C:Na101 b:12.5 occ:1.00 OG C:SER8 2.2 16.6 1.0 CB C:SER8 3.1 23.9 1.0 CA C:SER8 3.3 21.5 1.0 N C:GLY53 3.4 29.5 1.0 OG C:SER51 3.5 37.7 1.0 N C:SER9 3.7 26.4 1.0 CA C:GLY53 3.9 20.9 1.0 N C:HIS52 3.9 19.4 1.0 C C:SER8 4.0 24.1 1.0 O C:ARG7 4.1 38.5 1.0 OG C:SER9 4.3 23.4 1.0 CA C:SER51 4.3 22.4 1.0 CB C:SER51 4.3 21.0 1.0 C C:SER51 4.3 21.4 1.0 C C:HIS52 4.4 27.6 1.0 N C:SER8 4.6 26.1 1.0 CA C:HIS52 4.6 20.9 1.0 N C:LYS54 4.8 14.3 1.0 O C:HOH203 4.8 25.2 1.0 C C:ARG7 4.8 25.5 1.0 CB C:HIS52 4.8 15.4 1.0 CA C:SER9 4.9 21.9 1.0 C C:GLY53 4.9 18.8 1.0

L.Tian, K.Zhu, Y.Chen, X.Zheng, H.Zhang, Z.Geng, W.Li, N.Ding, J.Chen, Y.Dong, P.Cao, Y.Gong, Z.Zhang. Biochemical and Structural Characterization of A Ktsc Family Single-Stranded Dna-Binding Protein From Euryarchaea. Int.J.Biol.Macromol. V. 216 618 2022.
ISSN: ISSN 0141-8130
PubMed: 35809674
DOI: 10.1016/J.IJBIOMAC.2022.07.015