Magnesium in PDB 4ok9: Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans

The structure of Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans, PDB code: 4ok9 was solved by V.Thiruselvam, M.N.Ponnuswamy, T.S.Kumarevel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.01 / 1.91
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	90.811, 90.811, 76.672, 90.00, 90.00, 120.00
R / Rfree (%)	17.6 / 23.2

The binding sites of Magnesium atom in the Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans (pdb code 4ok9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans, PDB code: 4ok9:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg201 b:20.6 occ:1.00 O A:HOH382 1.9 17.6 1.0 OXT A:HIS204 2.1 18.5 1.0 NE2 A:HIS78 2.3 21.6 1.0 N A:HIS204 2.3 25.4 1.0 NE2 A:HIS74 2.6 25.6 1.0 C A:HIS204 2.9 22.8 1.0 CA A:HIS204 3.1 24.8 1.0 CE1 A:HIS78 3.2 24.4 1.0 CE1 A:HIS74 3.2 18.9 1.0 CD2 A:HIS78 3.3 20.8 1.0 CD2 A:HIS74 3.5 16.5 1.0 O A:HIS204 4.1 20.6 1.0 ND1 A:HIS74 4.1 22.3 1.0 CG A:HIS74 4.3 21.0 1.0 ND1 A:HIS78 4.3 23.0 1.0 CG A:HIS78 4.4 21.5 1.0 CB A:HIS204 4.5 24.0 1.0 OH A:TYR70 4.8 27.0 1.0

Magnesium binding site 2 out of 6 in the Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:17.4 occ:0.33 O A:HOH302 2.0 19.4 1.0 OE2 A:GLU93 2.1 19.0 1.0 CD A:GLU93 2.9 25.5 1.0 OE1 A:GLU93 3.1 20.7 1.0 OD2 A:ASP96 4.2 23.6 1.0 O A:HOH306 4.2 21.3 1.0 NE2 A:GLN91 4.2 24.0 1.0 CG A:GLU93 4.3 24.1 1.0 MG A:MG203 4.8 19.6 0.2 O A:VAL92 4.8 23.4 1.0

Magnesium binding site 3 out of 6 in the Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg203 b:19.6 occ:0.22 OD2 A:ASP96 2.4 23.6 1.0 O A:HOH313 2.5 33.6 1.0 O A:HOH317 3.3 29.5 0.3 CG A:ASP96 3.4 27.2 1.0 OD1 A:ASP96 3.6 28.7 1.0 O A:HOH302 4.0 19.4 1.0 O A:HOH368 4.1 34.4 1.0 O A:HOH393 4.4 53.3 1.0 CB A:ASP96 4.7 21.9 1.0 MG A:MG202 4.8 17.4 0.3

Magnesium binding site 4 out of 6 in the Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg201 b:21.0 occ:1.00 O B:HOH371 1.9 19.3 1.0 O B:HIS204 2.1 20.6 1.0 NE2 B:HIS74 2.2 21.2 1.0 NE2 B:HIS78 2.2 21.3 1.0 N B:HIS204 2.4 25.9 1.0 C B:HIS204 3.0 24.5 1.0 CD2 B:HIS74 3.0 20.5 1.0 CE1 B:HIS78 3.2 23.7 1.0 CA B:HIS204 3.2 25.2 1.0 CD2 B:HIS78 3.2 21.8 1.0 CE1 B:HIS74 3.2 22.4 1.0 OXT B:HIS204 4.2 21.4 1.0 CG B:HIS74 4.2 20.6 1.0 ND1 B:HIS74 4.3 19.0 1.0 ND1 B:HIS78 4.3 24.2 1.0 CG B:HIS78 4.4 22.0 1.0 CB B:HIS204 4.5 25.4 1.0 OH B:TYR70 4.8 23.4 1.0

Magnesium binding site 5 out of 6 in the Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg202 b:18.2 occ:0.33 O B:HOH303 2.1 21.1 1.0 OE2 B:GLU93 2.2 21.0 1.0 CD B:GLU93 3.0 28.8 1.0 OE1 B:GLU93 3.2 23.0 1.0 O B:HOH311 4.1 22.9 1.0 NE2 B:GLN91 4.2 22.1 1.0 OD2 B:ASP96 4.2 22.8 1.0 CG B:GLU93 4.4 26.2 1.0 O B:VAL92 4.8 24.1 1.0

Magnesium binding site 6 out of 6 in the Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg203 b:27.8 occ:0.32 O B:HOH382 2.2 36.0 1.0 OD2 B:ASP96 2.4 22.8 1.0 O B:HOH324 3.1 61.8 0.3 CG B:ASP96 3.4 32.9 1.0 OD1 B:ASP96 3.7 27.5 1.0 O B:HOH303 4.1 21.1 1.0 CB B:ASP96 4.8 24.3 1.0

V.Thiruselvam, P.Sivaraman, M.N.Ponnuswamy. Crystal Structure of the Single-Stranded Rna Binding Protein Hutp From Geobacillus Thermodenitrificans Biochem.Biophys.Res.Commun. 2014.
ISSN: ESSN 1090-2104