Sodium in PDB 6nxs: Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant

All present enzymatic activity of Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant:
5.3.1.1;

The structure of Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant, PDB code: 6nxs was solved by P.Jimenez-Sandoval, C.Diaz-Quezada, A.Torres-Larios, L.G.Brieba, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	68.20 / 1.52
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	47.380, 97.211, 68.148, 90.00, 91.92, 90.00
R / Rfree (%)	19 / 20.8

The binding sites of Sodium atom in the Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant (pdb code 6nxs). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant, PDB code: 6nxs:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant


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 Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:15.3 occ:1.00 O A:HOH570 2.2 22.0 1.0 O A:VAL227 2.4 10.5 1.0 O A:GLY222 2.4 13.2 1.0 O A:GLN224 2.4 12.7 1.0 O A:HOH445 2.5 21.8 1.0 C A:GLY222 3.5 14.2 1.0 C A:VAL227 3.5 9.7 1.0 C A:GLN224 3.5 13.0 1.0 C A:GLY223 3.9 12.0 1.0 N A:GLN224 3.9 12.9 1.0 N A:VAL227 4.2 7.8 1.0 CA A:GLY223 4.2 14.7 1.0 CA A:VAL227 4.3 9.2 1.0 N A:GLY223 4.3 13.1 1.0 O A:GLY223 4.3 14.7 1.0 O A:ALA225 4.4 15.1 1.0 CA A:GLN224 4.4 12.6 1.0 C A:ALA225 4.4 11.9 1.0 N A:ALA225 4.5 11.4 1.0 N A:ASP228 4.5 6.3 1.0 CB A:VAL227 4.5 10.2 1.0 O A:HOH537 4.6 16.5 1.0 CA A:GLY222 4.6 11.6 1.0 CA A:ALA225 4.6 11.6 1.0 CA A:ASP228 4.8 9.2 1.0 OD1 A:ASP228 4.8 14.1 1.0 CE1 A:PHE5 4.9 11.2 1.0 N A:ASP226 4.9 11.5 1.0 O A:LEU221 5.0 11.7 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant


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 Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Na301 b:13.0 occ:1.00 O B:HOH566 2.3 21.3 1.0 O B:HOH561 2.3 21.6 1.0 O B:VAL227 2.3 9.3 1.0 O B:GLY222 2.4 12.6 1.0 O B:HOH504 2.4 18.4 1.0 O B:GLN224 2.4 11.0 1.0 C B:VAL227 3.6 6.4 1.0 C B:GLY222 3.6 11.8 1.0 C B:GLN224 3.6 10.9 1.0 C B:GLY223 4.0 11.6 1.0 N B:GLN224 4.0 9.1 1.0 N B:VAL227 4.1 6.2 1.0 O B:HOH571 4.2 25.0 1.0 CA B:GLY223 4.2 9.1 1.0 CA B:VAL227 4.3 7.0 1.0 O B:GLY223 4.3 13.5 1.0 O B:ALA225 4.3 10.3 1.0 N B:GLY223 4.4 9.7 1.0 C B:ALA225 4.4 8.4 1.0 CA B:GLN224 4.4 10.8 1.0 O B:HOH542 4.5 21.5 1.0 N B:ALA225 4.5 8.8 1.0 N B:ASP228 4.6 7.0 1.0 CA B:GLY222 4.6 11.0 1.0 CA B:ALA225 4.6 11.1 1.0 CB B:VAL227 4.6 6.7 1.0 CA B:ASP228 4.7 7.4 1.0 OD1 B:ASP228 4.8 13.5 1.0 CE1 B:PHE5 4.9 11.2 1.0 N B:ASP226 4.9 7.3 1.0 O B:LEU221 5.0 10.0 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant


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 Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Na302 b:22.8 occ:1.00 O B:HOH437 2.0 30.1 1.0 O B:ALA101 2.3 19.5 1.0 OD1 B:ASN104 2.3 26.6 1.0 C B:ALA101 3.4 14.1 1.0 CG B:ASN104 3.5 20.6 1.0 CA B:ALA101 4.1 11.0 1.0 ND2 B:ASN104 4.2 29.4 1.0 N B:ILE102 4.5 12.9 1.0 O B:ARG100 4.6 11.3 1.0 CB B:ASN104 4.7 13.4 1.0 CA B:ILE102 4.8 14.0 1.0 CA B:ASN104 4.8 11.6 1.0 N B:ASN104 4.8 10.9 1.0 O B:ILE102 4.9 16.2 1.0 C B:ILE102 4.9 13.6 1.0

Sodium binding site 4 out of 4 in the Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C218Y Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Na303 b:28.1 occ:1.00 O B:HOH528 2.0 23.1 1.0 OD1 B:ASP187 2.2 15.5 1.0 O B:HOH403 2.3 20.0 1.0 O B:HOH543 2.4 32.4 1.0 OD2 B:ASP226 2.5 13.7 1.0 CG B:ASP187 3.1 16.0 1.0 CG B:ASP226 3.2 13.3 1.0 OD1 B:ASP226 3.3 11.7 1.0 OD2 B:ASP187 3.9 26.0 1.0 CB B:ASP187 3.9 9.0 1.0 CA B:ASP187 4.2 8.0 1.0 O B:HOH472 4.4 21.6 1.0 NE2 B:GLN183 4.5 8.9 1.0 CB B:ASP226 4.6 10.4 1.0 O B:ASP187 4.8 8.8 1.0 O B:HOH584 4.8 19.4 1.0 CE B:LYS191 4.8 22.1 1.0 O B:HOH512 5.0 16.6 1.0 C B:ASP187 5.0 10.1 1.0

P.Jimenez-Sandoval, C.Diaz-Quezada, A.Torres-Larios, L.G.Brieba. Crystal Structure of Arabidopsis Thaliana Cytosolic Triosephosphate Isomerase C13A Mutant To Be Published.