Magnesium in PDB 4p8r: Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei

All present enzymatic activity of Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei:
1.2.1.12;

The structure of Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei, PDB code: 4p8r was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.89 / 2.20
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	86.700, 86.700, 701.370, 90.00, 90.00, 120.00
R / Rfree (%)	15 / 19.7

The binding sites of Magnesium atom in the Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei (pdb code 4p8r). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei, PDB code: 4p8r:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:29.9 occ:1.00 O A:ILE27 2.4 37.9 1.0 O A:HOH559 2.4 32.7 1.0 O A:ALA21 2.4 31.1 1.0 O A:ARG24 2.7 39.6 1.0 C A:ALA21 3.5 29.4 1.0 C A:ILE27 3.6 33.7 1.0 CA A:GLU28 3.8 37.7 1.0 C A:ARG24 3.8 33.3 1.0 CA A:GLN22 4.1 31.7 1.0 CB A:GLU28 4.1 48.0 1.0 N A:GLN22 4.2 31.7 1.0 N A:GLU28 4.2 32.2 1.0 C A:GLN22 4.3 32.1 1.0 O A:GLN22 4.3 32.3 1.0 N A:ARG24 4.3 33.4 1.0 CA A:ALA21 4.5 25.3 1.0 CA A:ARG24 4.5 32.6 1.0 CB A:ALA21 4.5 21.4 1.0 CA A:ILE27 4.7 36.8 1.0 CB A:ARG24 4.7 32.5 1.0 O A:HOH560 4.8 37.2 1.0 N A:ILE27 4.8 29.1 1.0 N A:ASN25 4.9 34.4 1.0

Magnesium binding site 2 out of 3 in the Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg401 b:39.7 occ:1.00 O B:ILE27 2.3 30.6 1.0 O B:ARG24 2.4 40.9 1.0 O B:ALA21 2.4 26.5 1.0 O B:HOH536 3.5 20.9 1.0 C B:ILE27 3.5 32.2 1.0 C B:ALA21 3.6 34.0 1.0 C B:ARG24 3.6 31.0 1.0 OE2 B:GLU28 3.9 67.0 1.0 CD B:GLU28 4.1 58.8 1.0 CA B:GLN22 4.2 31.8 1.0 O B:GLN22 4.2 34.6 1.0 N B:ARG24 4.3 34.1 1.0 N B:GLN22 4.3 35.5 1.0 C B:GLN22 4.3 35.8 1.0 CA B:GLU28 4.4 33.3 1.0 CA B:ARG24 4.4 29.9 1.0 N B:GLU28 4.4 30.7 1.0 OE1 B:GLU28 4.4 57.6 1.0 CA B:ILE27 4.5 32.1 1.0 N B:ILE27 4.5 36.4 1.0 N B:ASN25 4.6 32.4 1.0 CA B:ALA21 4.6 23.8 1.0 CG B:GLU28 4.6 50.5 1.0 CA B:ASN25 4.7 36.5 1.0 CB B:ARG24 4.7 30.5 1.0 CB B:ILE27 4.8 38.8 1.0 CB B:ALA21 4.8 19.9 1.0 C B:ASN25 4.9 37.2 1.0 N B:ARG23 5.0 43.7 1.0

Magnesium binding site 3 out of 3 in the Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg401 b:33.6 occ:1.00 O D:ILE27 2.3 34.3 1.0 O D:ARG24 2.4 50.4 1.0 O D:ALA21 2.6 33.4 1.0 C D:ILE27 3.5 34.8 1.0 C D:ARG24 3.6 39.8 1.0 O D:HOH629 3.6 42.8 1.0 C D:ALA21 3.6 35.9 1.0 OE2 D:GLU28 4.0 72.8 1.0 CD D:GLU28 4.1 68.9 1.0 CA D:GLN22 4.1 32.5 1.0 O D:GLN22 4.2 29.9 1.0 N D:ARG24 4.2 38.8 1.0 C D:GLN22 4.2 29.6 1.0 CA D:GLU28 4.3 37.1 1.0 N D:GLN22 4.3 34.5 1.0 N D:GLU28 4.3 31.9 1.0 OE1 D:GLU28 4.3 72.0 1.0 CA D:ARG24 4.4 38.4 1.0 N D:ILE27 4.4 29.9 1.0 CA D:ILE27 4.5 31.6 1.0 N D:ASN25 4.6 35.5 1.0 CG D:GLU28 4.6 57.5 1.0 CB D:ARG24 4.7 42.9 1.0 CA D:ALA21 4.7 29.9 1.0 CA D:ASN25 4.7 38.8 1.0 CB D:ALA21 4.9 23.2 1.0 C D:ASN25 4.9 42.8 1.0 CB D:ILE27 4.9 36.0 1.0 N D:ARG23 5.0 30.4 1.0

Seattle Structural Genomics Center For Infectious Disease(Ssgcid), J.Abendroth, D.Lorimer, T.E.Edwards. Structure of A Glycosomal Glyceraldehyde 3-Phosphate Dehydrogenase From Trypanosoma Brucei To Be Published.