Sodium in PDB 5yl8: The Crystal Structure of Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution

All present enzymatic activity of The Crystal Structure of Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution:
3.1.1.29;

The structure of The Crystal Structure of Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution, PDB code: 5yl8 was solved by H.R.Bairagya, P.Sharma, N.Iqbal, P.K.Singh, P.Kaur, S.Sharma, T.P.Singh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	76.90 / 1.79
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	34.530, 98.490, 123.090, 90.00, 90.00, 90.00
R / Rfree (%)	17.5 / 20.8

The binding sites of Sodium atom in the The Crystal Structure of Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution (pdb code 5yl8). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the The Crystal Structure of Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution, PDB code: 5yl8:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the The Crystal Structure of Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution


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 Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:48.5 occ:1.00 OD2 A:ASP98 2.3 42.7 1.0 O A:GLY113 2.3 33.4 1.0 O A:HOH389 2.7 50.5 1.0 O A:HOH309 2.8 47.2 1.0 CG A:ASP98 3.3 34.5 1.0 C A:GLY113 3.3 26.4 1.0 OD1 A:ASP98 3.6 44.4 1.0 CA A:GLY113 3.8 25.2 1.0 N A:GLY114 4.4 22.1 1.0 OE2 A:GLU96 4.5 28.7 1.0 CB A:ASP98 4.6 26.2 1.0 CA A:GLY114 4.9 24.8 1.0

Sodium binding site 2 out of 2 in the The Crystal Structure of Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution


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 Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Na201 b:40.7 occ:1.00 O B:HOH301 2.1 40.8 1.0 O B:HOH382 2.1 55.3 1.0 O B:HOH353 2.2 39.1 1.0 O B:HOH377 2.3 53.1 1.0 O B:GLY113 2.5 39.6 1.0 OD2 B:ASP98 2.5 40.3 1.0 O B:HOH378 3.5 54.3 1.0 C B:GLY113 3.6 32.8 1.0 CG B:ASP98 3.7 36.1 1.0 CA B:GLY113 4.2 30.4 1.0 OE2 B:GLU96 4.3 30.2 1.0 OD1 B:ASP98 4.5 42.9 1.0 CB B:ASP98 4.6 30.3 1.0 N B:GLY114 4.7 26.3 1.0

H.R.Bairagya, P.Sharma, N.Iqbal, P.Kaur, S.Sharma, T.P.Singh. The Crystal Structure of Inactive Dimeric Peptidyl-Trna Hydrolase From Acinetobacter Baumannii at 1.79 A Resolution To Be Published.