Sodium in PDB 8pnx: Crystal Structure of D-Amino Acid Aminotransferase From Blastococcus Saxobsidens in Pmp Form

The structure of Crystal Structure of D-Amino Acid Aminotransferase From Blastococcus Saxobsidens in Pmp Form, PDB code: 8pnx was solved by I.O.Matyuta, K.M.Boyko, A.Y.Nikolaeva, S.A.Shilova, V.O.Popov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.55 / 1.80
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	105.437, 105.437, 51.144, 90, 90, 120
R / Rfree (%)	17.6 / 21.1

The binding sites of Sodium atom in the Crystal Structure of D-Amino Acid Aminotransferase From Blastococcus Saxobsidens in Pmp Form (pdb code 8pnx). 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 D-Amino Acid Aminotransferase From Blastococcus Saxobsidens in Pmp Form, PDB code: 8pnx:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of D-Amino Acid Aminotransferase From Blastococcus Saxobsidens in Pmp Form


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 D-Amino Acid Aminotransferase From Blastococcus Saxobsidens in Pmp Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Na303 b:6.7 occ:1.00 O A:HOH546 2.9 10.1 1.0 O A:HOH504 3.1 11.3 1.0 NH1 A:ARG277 3.2 8.6 1.0 O A:HOH612 3.3 12.6 1.0 CD A:ARG277 3.6 7.0 1.0 CG A:ARG277 3.6 6.5 1.0 CB A:ARG277 3.7 6.7 1.0 CZ A:ARG277 4.2 8.2 1.0 NE A:ARG277 4.3 7.7 1.0 CA A:ARG277 4.4 6.7 1.0 CD A:ARG126 4.4 7.0 1.0 CG A:ARG126 4.5 6.7 1.0 O A:ARG277 5.0 6.1 1.0 O A:HOH491 5.0 16.1 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of D-Amino Acid Aminotransferase From Blastococcus Saxobsidens in Pmp Form


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 D-Amino Acid Aminotransferase From Blastococcus Saxobsidens in Pmp Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Na304 b:15.3 occ:1.00 O A:HOH531 2.8 17.1 1.0 O A:HOH431 3.0 11.0 1.0 O A:HOH454 3.0 14.7 1.0 CD A:ARG254 3.8 6.6 1.0 CB A:ARG254 3.9 6.4 1.0 NE A:ARG254 3.9 6.7 1.0 CZ A:ARG254 4.0 7.2 1.0 NH1 A:ARG254 4.0 7.8 1.0 OG1 A:THR191 4.1 5.1 1.0 CG A:ARG254 4.5 6.5 1.0 CG2 A:THR122 4.5 7.6 1.0 OG1 A:THR122 4.5 8.7 1.0 O A:HOH578 4.5 20.5 1.0 OE1 A:GLN125 4.5 8.8 1.0 NH2 A:ARG254 4.7 7.1 1.0 O A:HOH507 4.7 18.8 1.0 CA A:ARG254 4.9 6.7 1.0 N A:ARG254 5.0 6.9 1.0

S.A.Shilova, A.Y.Nikolaeva, I.O.Matyuta, K.M.Boyko, V.O.Popov, E.Y.Bezsudnova. Structural Determinants of Dual Substrate Recognition in the Transaminase From Blastococcus Saxobsidens Specific to D-Amino Acids and R-Amines To Be Published.