Sodium in PDB 4o4v: Crystal Structure of Trichomonas Vaginalis Triosephosphate Isomerase TVAG_497370 (Ile-45 Variant)

All present enzymatic activity of Crystal Structure of Trichomonas Vaginalis Triosephosphate Isomerase TVAG_497370 (Ile-45 Variant):
5.3.1.1;

The structure of Crystal Structure of Trichomonas Vaginalis Triosephosphate Isomerase TVAG_497370 (Ile-45 Variant), PDB code: 4o4v was solved by S.Lara-Gonzalez, C.G.Benitez-Cardoza, L.G.Brieba, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.06 / 1.23
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	47.220, 56.750, 107.860, 90.00, 90.00, 90.00
R / Rfree (%)	14.5 / 15.6

The binding sites of Sodium atom in the Crystal Structure of Trichomonas Vaginalis Triosephosphate Isomerase TVAG_497370 (Ile-45 Variant) (pdb code 4o4v). 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 Trichomonas Vaginalis Triosephosphate Isomerase TVAG_497370 (Ile-45 Variant), PDB code: 4o4v:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Trichomonas Vaginalis Triosephosphate Isomerase TVAG_497370 (Ile-45 Variant)


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 Trichomonas Vaginalis Triosephosphate Isomerase TVAG_497370 (Ile-45 Variant) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:8.8 occ:1.00 O A:VAL227 2.3 8.7 1.0 O A:ALA222 2.3 8.7 1.0 O A:CYS224 2.3 9.2 1.0 O A:HOH598 2.4 15.3 1.0 OG A:SER251 2.4 11.5 1.0 CB A:SER251 3.4 10.4 1.0 HB2 A:SER251 3.5 12.4 1.0 C A:VAL227 3.5 7.3 1.0 C A:CYS224 3.5 9.2 1.0 C A:ALA222 3.5 9.0 1.0 HA A:SER251 3.6 13.8 1.0 HB A:VAL227 3.6 8.9 1.0 HE1 A:PHE4 3.6 10.2 1.0 H A:VAL227 3.7 8.4 1.0 HA A:PRO225 3.9 11.3 1.0 N A:CYS224 4.0 8.6 1.0 HA A:ASP228 4.0 9.1 1.0 CA A:SER251 4.1 11.5 1.0 C A:ALA223 4.1 9.9 1.0 HA A:ALA222 4.1 10.0 1.0 N A:VAL227 4.1 7.0 1.0 CA A:VAL227 4.2 7.5 1.0 O A:HOH604 4.2 22.3 1.0 HA A:ALA223 4.2 11.8 1.0 H A:CYS224 4.2 10.3 1.0 HB3 A:SER251 4.2 12.4 1.0 O A:PRO225 4.3 9.3 1.0 C A:PRO225 4.3 8.2 1.0 CB A:VAL227 4.3 7.4 1.0 CA A:PRO225 4.3 9.4 1.0 O A:ALA223 4.3 11.5 1.0 CA A:CYS224 4.4 9.0 1.0 H A:LYS252 4.4 22.2 1.0 N A:PRO225 4.4 8.9 1.0 CA A:ALA222 4.4 8.3 1.0 N A:ALA223 4.4 9.1 1.0 HG12 A:VAL227 4.5 11.2 1.0 CA A:ALA223 4.5 9.8 1.0 CE1 A:PHE4 4.5 8.5 1.0 HD1 A:PHE4 4.5 9.8 1.0 N A:ASP228 4.5 7.1 1.0 O A:HOH661 4.5 27.4 1.0 HB2 A:CYS224 4.5 10.2 1.0 O A:HOH602 4.6 20.1 1.0 O A:LEU221 4.7 9.1 1.0 CA A:ASP228 4.7 7.6 1.0 N A:LYS252 4.8 18.5 1.0 C A:SER251 4.8 13.8 1.0 HB1 A:ALA222 4.9 11.8 1.0 N A:ASP226 4.9 7.8 1.0 CG1 A:VAL227 4.9 9.3 1.0 CD1 A:PHE4 5.0 8.1 1.0 OXT A:LYS252 5.0 36.0 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Trichomonas Vaginalis Triosephosphate Isomerase TVAG_497370 (Ile-45 Variant)


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 Trichomonas Vaginalis Triosephosphate Isomerase TVAG_497370 (Ile-45 Variant) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:24.3 occ:1.00 O A:HOH637 2.1 29.4 1.0 O A:GLY136 2.3 14.2 1.0 O A:HOH632 2.4 27.7 1.0 O A:HOH627 2.6 28.6 1.0 C A:GLY136 3.5 10.5 1.0 HA3 A:GLY136 3.7 14.5 1.0 HD3 A:LYS137 3.9 18.4 1.0 HA A:LYS137 4.1 13.0 1.0 O A:HOH631 4.1 23.0 1.0 CA A:GLY136 4.1 12.1 1.0 HZ3 A:LYS137 4.3 28.6 1.0 HA2 A:GLY136 4.4 14.5 1.0 OE2 A:GLU140 4.5 22.2 1.0 OE1 A:GLU140 4.5 16.4 1.0 HE2 A:LYS137 4.5 24.7 1.0 N A:LYS137 4.5 9.6 1.0 O A:HOH630 4.6 22.6 1.0 CD A:LYS137 4.7 15.4 1.0 CA A:LYS137 4.8 10.8 1.0 HG2 A:LYS137 4.9 17.4 1.0 CD A:GLU140 4.9 17.5 1.0 HG A:SER139 4.9 18.6 0.5 CE A:LYS137 5.0 20.6 1.0

S.Lara-Gonzalez, C.G.Benitez-Cardoza, L.G.Brieba. Engineering Mutants with Altered Dimer-Monomer Equilibrium Reveal the Existence of Stable Monomeric Triosephosphate Isomerases To Be Published.