Sodium in PDB 3igr: The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A

All present enzymatic activity of The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A:
2.3.1.128;

The structure of The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A, PDB code: 3igr was solved by A.J.Stein, A.Sather, G.Shackelford, A.Joachimiak, Midwest Center Forstructural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.00
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	63.504, 107.173, 145.719, 90.00, 90.00, 90.00
R / Rfree (%)	20.5 / 23.7

The binding sites of Sodium atom in the The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A (pdb code 3igr). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A, PDB code: 3igr:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A within 5.0Å range: probe atom residue distance (Å) B Occ A:Na185 b:20.8 occ:1.00 NE A:ARG114 3.2 13.3 1.0 ND2 B:ASN76 3.4 9.3 1.0 ND2 A:ASN118 3.5 12.1 1.0 ND1 B:HIS9 3.8 7.7 1.0 CA A:ARG115 3.8 11.7 1.0 CD A:ARG114 3.9 13.1 1.0 CB B:HIS9 3.9 7.4 1.0 CG A:ARG115 3.9 10.9 1.0 CG A:ARG114 3.9 11.3 1.0 CG B:HIS9 4.0 7.5 1.0 N A:ARG115 4.0 11.2 1.0 OD1 B:ASN76 4.0 7.5 1.0 CB A:ASN118 4.1 11.0 1.0 CG B:ASN76 4.1 10.0 1.0 O A:ARG114 4.2 11.6 1.0 C A:ARG114 4.2 11.3 1.0 CZ A:ARG114 4.2 11.0 1.0 CG A:ASN118 4.3 12.4 1.0 NH2 A:ARG114 4.3 10.6 1.0 CB A:ARG115 4.4 11.8 1.0 CE1 B:HIS9 4.6 5.8 1.0 CB A:ARG114 4.7 12.0 1.0 CD2 A:LEU151 4.8 15.2 1.0 CD2 B:HIS9 5.0 5.8 1.0

Sodium binding site 2 out of 3 in the The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A within 5.0Å range: probe atom residue distance (Å) B Occ A:Na186 b:20.4 occ:1.00 O A:HOH207 2.8 11.4 1.0 N A:GLY167 3.2 12.6 1.0 N A:ASN166 3.7 12.5 1.0 CE2 A:TYR164 3.7 10.6 1.0 CD2 A:TYR164 3.8 11.2 1.0 CA A:ASN166 4.0 12.7 1.0 CA A:GLY167 4.0 12.4 1.0 CB A:LYS40 4.0 8.0 1.0 C A:ASN166 4.1 12.3 1.0 C A:ILE165 4.5 12.6 1.0 CD A:LYS40 4.6 7.3 1.0 N A:LYS40 4.8 8.1 1.0 O A:HOH206 4.8 4.0 1.0 CG A:LYS40 4.8 8.3 1.0 CZ A:TYR164 4.9 11.4 1.0 O A:TYR164 5.0 11.2 1.0 CA A:LYS40 5.0 8.7 1.0 CA A:ILE165 5.0 12.5 1.0

Sodium binding site 3 out of 3 in the The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A within 5.0Å range: probe atom residue distance (Å) B Occ B:Na185 b:23.1 occ:1.00 ND2 B:ASN141 3.0 10.2 1.0 O B:HOH266 3.2 11.4 1.0 N B:ILE138 3.2 10.7 1.0 O B:HOH233 3.3 13.5 1.0 CA B:TYR137 3.6 11.4 1.0 CB B:TYR137 3.9 11.6 1.0 C B:TYR137 3.9 11.1 1.0 CG B:ASN141 4.0 10.9 1.0 CG1 B:ILE138 4.0 10.7 1.0 CB B:ASN141 4.1 11.7 1.0 CB B:ILE138 4.2 10.5 1.0 CA B:ILE138 4.2 10.8 1.0 CD1 B:ILE138 4.3 10.7 1.0 CE3 B:TRP37 4.4 10.0 1.0 O B:ALA136 4.5 12.1 1.0 O B:TRP37 4.5 10.8 1.0 O B:ILE138 4.7 10.5 1.0 CE1 B:HIS172 4.8 7.5 1.0 N B:TYR137 4.9 11.1 1.0 CB B:TRP37 4.9 10.9 1.0

A.J.Stein, A.Sather, G.Shackelford, A.Joachimiak. The Crystal Structure of Ribosomal-Protein-S5-Alanine Acetyltransferase From Vibrio Fischeri to 2.0A To Be Published.