Sodium in PDB 6xwb: Crystal Structure of An R-Selective Transaminase From Thermomyces Stellatus.

The structure of Crystal Structure of An R-Selective Transaminase From Thermomyces Stellatus., PDB code: 6xwb was solved by L.J.Gourlay, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.60 / 2.20
Space group	I 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	67.770, 98.010, 117.258, 90.00, 91.22, 90.00
R / Rfree (%)	20.1 / 23.1

The binding sites of Sodium atom in the Crystal Structure of An R-Selective Transaminase From Thermomyces Stellatus. (pdb code 6xwb). 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 An R-Selective Transaminase From Thermomyces Stellatus., PDB code: 6xwb:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of An R-Selective Transaminase From Thermomyces Stellatus.


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 An R-Selective Transaminase From Thermomyces Stellatus. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na515 b:31.6 occ:1.00 HA A:LEU78 2.5 31.1 1.0 OG A:SER81 2.8 20.7 1.0 O A:TYR58 2.8 19.2 1.0 HB3 A:LYS178 2.8 24.4 1.0 OD2 A:ASP59 2.8 21.4 1.0 HG A:SER81 2.9 24.9 1.0 HB2 A:SER81 3.0 23.3 1.0 HG2 A:ARG77 3.1 23.0 1.0 HB2 A:ASP59 3.2 23.4 1.0 CB A:SER81 3.3 19.4 1.0 HD12 A:LEU78 3.4 33.9 1.0 HD13 A:LEU78 3.4 33.9 1.0 CA A:LEU78 3.4 25.9 1.0 OG1 A:THR57 3.5 25.0 1.0 H A:LYS178 3.5 20.7 1.0 HB3 A:SER81 3.6 23.3 1.0 CG A:ASP59 3.6 20.9 1.0 HB2 A:LYS178 3.6 24.4 1.0 CB A:LYS178 3.6 20.3 1.0 O A:ARG77 3.7 18.6 1.0 HE A:ARG77 3.7 20.9 1.0 N A:LEU78 3.7 22.6 1.0 HG1 A:THR57 3.8 30.0 1.0 C A:TYR58 3.8 25.1 1.0 HB2 A:LEU78 3.8 24.6 1.0 CD1 A:LEU78 3.8 28.2 1.0 CB A:ASP59 3.8 19.5 1.0 C A:ARG77 3.8 20.3 1.0 H A:TYR58 4.0 28.0 1.0 CG A:ARG77 4.0 19.1 1.0 CB A:LEU78 4.1 20.5 1.0 H A:LEU78 4.2 27.1 1.0 N A:LYS178 4.2 17.2 1.0 HA A:ASP59 4.3 30.2 1.0 HB3 A:ARG77 4.3 30.5 1.0 NE A:ARG77 4.3 17.4 1.0 H A:SER81 4.4 28.1 1.0 HG2 A:LYS178 4.4 32.6 1.0 N A:TYR58 4.5 23.3 1.0 CA A:ASP59 4.5 25.1 1.0 CA A:LYS178 4.5 22.7 1.0 C A:LEU78 4.5 27.2 1.0 N A:ASP59 4.5 25.6 1.0 O A:LEU78 4.6 24.8 1.0 HG3 A:ARG77 4.6 23.0 1.0 HD11 A:LEU78 4.6 33.9 1.0 O A:LYS178 4.6 23.6 1.0 CG A:LEU78 4.6 25.5 1.0 HG23 A:THR57 4.6 27.5 1.0 CB A:ARG77 4.6 25.4 1.0 HB3 A:ASP59 4.6 23.4 1.0 CG A:LYS178 4.6 27.2 1.0 OD1 A:ASP59 4.7 20.9 1.0 CD A:ARG77 4.7 15.2 1.0 CA A:SER81 4.7 25.6 1.0 CA A:TYR58 4.7 19.8 1.0 HD2 A:ARG77 4.8 18.3 1.0 CB A:THR57 4.8 24.5 1.0 CA A:ARG77 4.9 26.8 1.0 O A:HOH634 4.9 19.4 1.0 HA A:VAL177 4.9 19.8 1.0 HG21 A:THR57 4.9 27.5 1.0 N A:SER81 4.9 23.4 1.0 HD3 A:LYS178 5.0 36.8 1.0 HB3 A:LEU78 5.0 24.6 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of An R-Selective Transaminase From Thermomyces Stellatus.


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 An R-Selective Transaminase From Thermomyces Stellatus. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na516 b:21.1 occ:1.00 HH11 A:ARG238 2.0 17.9 1.0 OG1 A:THR227 2.6 16.1 1.0 O A:PRO228 2.7 13.8 1.0 HD2 A:PRO228 2.7 18.3 1.0 HG21 A:VAL232 2.8 18.2 1.0 O A:HOH655 2.8 14.8 1.0 HD2 A:ARG238 2.8 21.5 1.0 NH1 A:ARG238 2.8 14.9 1.0 HD3 A:ARG238 3.1 21.5 1.0 HH12 A:ARG238 3.2 17.9 1.0 HG23 A:THR227 3.3 21.6 1.0 N A:PRO228 3.3 15.4 1.0 HD22 A:ASN216 3.4 20.5 1.0 CD A:ARG238 3.4 17.9 1.0 CD A:PRO228 3.4 15.3 1.0 HB3 A:ASN216 3.5 17.3 1.0 HB2 A:PRO228 3.5 19.9 1.0 C A:PRO228 3.6 18.6 1.0 CB A:THR227 3.7 18.9 1.0 CG2 A:VAL232 3.7 15.2 1.0 ND2 A:ASN216 3.8 17.1 1.0 HG23 A:VAL232 3.8 18.2 1.0 C A:THR227 3.8 16.0 1.0 HG11 A:VAL232 3.8 15.3 1.0 CA A:PRO228 3.8 15.8 1.0 CZ A:ARG238 3.9 17.6 1.0 CG2 A:THR227 3.9 18.0 1.0 H A:ILE217 3.9 19.8 1.0 CB A:PRO228 4.0 16.6 1.0 NE A:ARG238 4.1 16.9 1.0 O A:ILE217 4.1 11.0 1.0 HD3 A:PRO228 4.2 18.3 1.0 HD21 A:ASN216 4.2 20.5 1.0 HB A:VAL232 4.2 15.8 1.0 HG21 A:THR227 4.2 21.6 1.0 CA A:THR227 4.2 17.1 1.0 CG A:PRO228 4.2 17.3 1.0 CB A:ASN216 4.3 14.4 1.0 CG A:ASN216 4.3 17.6 1.0 HA A:THR227 4.3 20.5 1.0 HG2 A:PRO228 4.4 20.7 1.0 HG22 A:VAL232 4.4 18.2 1.0 CB A:VAL232 4.4 13.2 1.0 HB A:THR227 4.5 22.7 1.0 O A:THR227 4.5 15.0 1.0 CG1 A:VAL232 4.6 12.8 1.0 HG3 A:ARG238 4.6 19.6 1.0 CG A:ARG238 4.6 16.3 1.0 N A:ILE217 4.7 16.5 1.0 HA A:ASN216 4.7 17.2 1.0 HG22 A:THR227 4.8 21.6 1.0 HA A:PRO228 4.8 18.9 1.0 O A:THR210 4.8 14.5 1.0 HG13 A:VAL254 4.8 20.3 1.0 N A:ASP229 4.8 15.0 1.0 HE A:ARG238 4.9 20.3 1.0 HB3 A:PRO228 4.9 19.9 1.0 O A:LEU233 5.0 14.5 1.0 HG13 A:VAL232 5.0 15.3 1.0 HA A:ASP229 5.0 20.7 1.0 HB2 A:ASN216 5.0 17.3 1.0

F.Paradisi, C.Heckmann, L.Gourlay. Structure of A Transaminase From Thermomyces Stellatus. To Be Published.