Magnesium in PDB 5hto: Crystal Structure of Plasmodium Vivax Ldh in Complex with A Dna Aptamer Called PL1 (Tetrameric Ldh in An Asymmetric Unit)

All present enzymatic activity of Crystal Structure of Plasmodium Vivax Ldh in Complex with A Dna Aptamer Called PL1 (Tetrameric Ldh in An Asymmetric Unit):
1.1.1.27;

The structure of Crystal Structure of Plasmodium Vivax Ldh in Complex with A Dna Aptamer Called PL1 (Tetrameric Ldh in An Asymmetric Unit), PDB code: 5hto was solved by S.J.Choi, C.Ban, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	85.512, 86.539, 209.128, 90.00, 90.00, 90.00
R / Rfree (%)	16.9 / 20

The binding sites of Magnesium atom in the Crystal Structure of Plasmodium Vivax Ldh in Complex with A Dna Aptamer Called PL1 (Tetrameric Ldh in An Asymmetric Unit) (pdb code 5hto). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Plasmodium Vivax Ldh in Complex with A Dna Aptamer Called PL1 (Tetrameric Ldh in An Asymmetric Unit), PDB code: 5hto:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Plasmodium Vivax Ldh in Complex with A Dna Aptamer Called PL1 (Tetrameric Ldh in An Asymmetric Unit)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Plasmodium Vivax Ldh in Complex with A Dna Aptamer Called PL1 (Tetrameric Ldh in An Asymmetric Unit) within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg101 b:15.8 occ:1.00 OP2 C:DT8 2.0 17.3 1.0 O C:HOH211 2.0 17.1 1.0 O C:HOH242 2.1 18.9 1.0 O C:HOH243 2.1 18.6 1.0 O C:HOH248 2.2 18.5 1.0 N7 C:DG9 2.2 16.7 1.0 C8 C:DG9 3.1 17.9 1.0 C5 C:DG9 3.4 16.8 1.0 P C:DT8 3.4 24.8 1.0 O6 C:DG9 3.7 18.4 1.0 C6 C:DG9 3.9 19.9 1.0 OP1 C:DT8 3.9 24.0 1.0 C3' C:DT7 4.1 21.9 1.0 O C:HOH235 4.1 19.1 1.0 O3' C:DT7 4.2 24.5 1.0 N9 C:DG9 4.3 16.9 1.0 O5' C:DT8 4.4 25.4 1.0 O C:HOH216 4.4 25.3 1.0 C4 C:DG9 4.5 15.1 1.0 OP2 C:DG16 4.5 23.7 1.0 OP1 C:DT7 4.5 18.9 1.0 O6 C:DG10 4.6 18.0 1.0 C2' C:DT7 4.7 21.2 1.0 O C:HOH238 4.8 28.4 1.0 C5' C:DG16 5.0 20.1 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Plasmodium Vivax Ldh in Complex with A Dna Aptamer Called PL1 (Tetrameric Ldh in An Asymmetric Unit)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Plasmodium Vivax Ldh in Complex with A Dna Aptamer Called PL1 (Tetrameric Ldh in An Asymmetric Unit) within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg101 b:23.5 occ:1.00 OP2 F:DT8 2.1 23.3 1.0 O F:HOH203 2.2 23.5 1.0 O F:HOH227 2.2 27.9 1.0 O F:HOH213 2.2 24.3 1.0 O F:HOH229 2.2 23.1 1.0 N7 F:DG9 2.3 21.3 1.0 C8 F:DG9 3.2 23.5 1.0 C5 F:DG9 3.3 22.0 1.0 P F:DT8 3.5 33.5 1.0 O6 F:DG9 3.6 24.1 1.0 C6 F:DG9 3.9 23.1 1.0 OP1 F:DT8 4.0 35.7 1.0 O F:HOH224 4.0 23.1 1.0 C3' F:DT7 4.3 35.2 1.0 N9 F:DG9 4.4 23.0 1.0 O3' F:DT7 4.4 39.4 1.0 C4 F:DG9 4.5 20.1 1.0 O5' F:DT8 4.5 34.9 1.0 O6 F:DG10 4.5 22.3 1.0 OP2 F:DG16 4.6 29.3 1.0 OP1 F:DT7 4.7 40.6 1.0 O F:HOH204 4.7 29.3 1.0 C2' F:DT7 4.8 34.7 1.0 C5' F:DG16 4.9 24.6 1.0

S.J.Choi, C.Ban. Crystal Structure of A Dna Aptamer Bound to Pvldh Elucidates Novel Single-Stranded Dna Structural Elements For Folding and Recognition Sci Rep V. 6 34998 2016.
ISSN: ESSN 2045-2322
PubMed: 27725738
DOI: 10.1038/SREP34998