Sodium in PDB 7y52: Crystal Structure of Peptidyl-Trna Hydrolase From Enterococcus Faecium

All present enzymatic activity of Crystal Structure of Peptidyl-Trna Hydrolase From Enterococcus Faecium:
3.1.1.29;

The structure of Crystal Structure of Peptidyl-Trna Hydrolase From Enterococcus Faecium, PDB code: 7y52 was solved by R.Pandey, M.Zohib, S.Mundra, R.K.Pal, A.Arora, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.78 / 1.92
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	38.821, 74.835, 63.751, 90, 104.85, 90
R / Rfree (%)	18.4 / 23.4

The binding sites of Sodium atom in the Crystal Structure of Peptidyl-Trna Hydrolase From Enterococcus Faecium (pdb code 7y52). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Peptidyl-Trna Hydrolase From Enterococcus Faecium, PDB code: 7y52:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Peptidyl-Trna Hydrolase From Enterococcus Faecium


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 Peptidyl-Trna Hydrolase From Enterococcus Faecium within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:24.8 occ:1.00 O A:HOH460 2.6 40.8 1.0 O A:HOH428 2.7 34.4 1.0 N A:GLN104 3.0 21.7 1.0 CD A:ARG103 3.6 33.2 1.0 CA A:ARG103 3.8 19.4 1.0 CB A:GLN104 3.8 19.0 1.0 CA A:GLN104 3.9 18.1 1.0 C A:ARG103 3.9 22.5 1.0 N A:LYS105 3.9 18.1 1.0 CB A:ARG103 4.0 22.5 1.0 CE A:MET182 4.0 15.9 1.0 CG A:LYS105 4.1 23.2 1.0 C A:GLN104 4.3 22.5 1.0 CG A:ARG103 4.4 25.1 1.0 O A:LYS105 4.4 20.1 1.0 CE A:LYS105 4.5 30.8 1.0 CG A:GLN104 4.5 17.6 1.0 NE A:ARG103 4.8 42.0 1.0 OE1 A:GLN104 4.8 25.7 1.0 SD A:MET182 4.8 22.6 1.0 CA A:LYS105 4.9 21.1 1.0 CD A:LYS105 4.9 25.1 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Peptidyl-Trna Hydrolase From Enterococcus Faecium


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 Peptidyl-Trna Hydrolase From Enterococcus Faecium within 5.0Å range: probe atom residue distance (Å) B Occ A:Na203 b:29.3 occ:1.00 O A:ASN9 2.7 23.2 1.0 O A:GLY11 2.8 24.9 1.0 ND2 A:ASN20 3.1 21.5 1.0 N A:GLY11 3.3 27.4 1.0 C A:PRO10 3.6 26.4 1.0 O A:HOH341 3.6 33.3 1.0 C A:GLY11 3.6 30.2 1.0 CA A:GLN15 3.7 24.2 1.0 N A:GLN15 3.8 22.5 1.0 CA A:PRO10 3.8 22.7 1.0 C A:ASN9 3.8 21.8 1.0 CB A:GLN15 3.9 26.2 1.0 CD2 A:PHE23 4.0 21.5 1.0 CE2 A:PHE23 4.0 22.5 1.0 CA A:GLY11 4.0 33.8 1.0 C A:TYR14 4.0 26.1 1.0 CB A:TYR14 4.1 21.1 1.0 O A:HOH324 4.1 21.8 1.0 N A:PRO10 4.3 21.7 1.0 O A:PRO10 4.3 25.6 1.0 CG A:ASN20 4.4 18.9 1.0 O A:TYR14 4.5 20.3 1.0 CA A:TYR14 4.5 23.3 1.0 O A:HOH440 4.6 27.5 1.0 N A:TYR14 4.7 25.4 1.0 N A:THR12 4.8 27.2 1.0 OD1 A:ASN20 4.9 18.6 1.0

R.Pandey, M.Zohib, S.Mundra, R.K.Pal, A.Arora. Crystal Structure of Peptidyl-Trna Hydrolase From Enterococcus Faecium To Be Published.