Sodium in PDB 3rht: Crystal Structure of Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus

The structure of Crystal Structure of Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus, PDB code: 3rht was solved by K.Michalska, H.Li, J.Bearden, A.Joachimiak, Midwest Center For Structuralgenomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.83
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	42.287, 126.827, 101.964, 90.00, 96.60, 90.00
R / Rfree (%)	15.8 / 19.2

The structure of Crystal Structure of Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus also contains other interesting chemical elements:

Calcium	(Ca)	4 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Sodium atom in the Crystal Structure of Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus (pdb code 3rht). 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 Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus, PDB code: 3rht:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus


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 Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Na258 b:23.8 occ:1.00 O A:HOH412 2.3 25.1 1.0 O A:GLU176 2.4 27.5 1.0 O A:HOH415 2.5 31.5 1.0 O A:HOH413 2.6 33.8 1.0 OE1 A:GLU176 2.7 40.9 1.0 C A:GLU176 3.3 26.5 1.0 CA A:GLU176 3.8 27.9 1.0 CD A:GLU176 3.9 41.3 1.0 CB A:GLU176 4.1 30.5 1.0 N A:HIS177 4.5 24.4 1.0 O A:HOH414 4.6 28.2 1.0 CG A:GLU176 4.6 36.1 1.0 CA A:HIS177 4.9 25.4 1.0 OE2 A:GLU176 4.9 48.4 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus


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 Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus within 5.0Å range: probe atom residue distance (Å) B Occ C:Na258 b:22.7 occ:1.00 O C:HOH430 2.2 39.2 1.0 O C:HOH431 2.3 28.5 1.0 O C:GLU176 2.3 29.1 1.0 O C:HOH429 2.4 33.5 1.0 OE1 C:GLU176 2.5 43.9 1.0 C C:GLU176 3.3 26.9 1.0 CD C:GLU176 3.7 41.1 1.0 CA C:GLU176 3.8 27.6 1.0 O C:HOH432 4.2 26.0 1.0 CB C:GLU176 4.2 29.9 1.0 N C:HIS177 4.5 26.4 1.0 CG C:GLU176 4.6 35.9 1.0 OE2 C:GLU176 4.6 46.1 1.0 CA C:HIS177 5.0 26.4 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus


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 Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus within 5.0Å range: probe atom residue distance (Å) B Occ C:Na259 b:32.7 occ:1.00 O B:HOH273 2.2 33.8 1.0 O C:HOH337 2.4 31.1 1.0 O C:ASN116 2.4 14.1 1.0 O B:HOH285 2.4 24.4 1.0 O C:HOH568 2.7 7.3 0.5 O C:HOH569 3.6 11.2 0.5 C C:ASN116 3.6 11.5 1.0 N C:ASN116 4.3 10.8 1.0 CA C:ASN116 4.3 11.2 1.0 CB C:ASN116 4.4 10.8 1.0 OD1 C:ASP118 4.6 18.0 1.0 N C:PHE117 4.6 11.3 1.0 O B:GLY220 4.7 15.4 1.0 CA C:PHE117 4.8 9.8 1.0 NH1 B:ARG144 4.8 28.8 1.0 N C:ASP118 4.8 11.1 1.0

K.Michalska, H.Li, J.Bearden, A.Joachimiak, Midwest Center For Structural Genomics (Mcsg). Crystal Structure of Type 1 Glutamine Amidotransferase (GATASE1)-Like Protein From Planctomyces Limnophilus To Be Published.