Magnesium in PDB 5utm: Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh)

The structure of Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh), PDB code: 5utm was solved by N.Schormann, G.C.Ulett, D.Chattopadhyay, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	87.12 / 1.77
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	67.991, 108.258, 90.649, 90.00, 106.05, 90.00
R / Rfree (%)	19.6 / 22

The binding sites of Magnesium atom in the Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh) (pdb code 5utm). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh), PDB code: 5utm:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:23.8 occ:1.00 O A:VAL27 2.2 22.6 1.0 O A:HOH716 2.3 19.1 1.0 O A:VAL24 2.3 21.2 1.0 O A:HOH676 2.4 33.3 1.0 O A:ILE21 2.4 20.1 1.0 C A:VAL24 3.4 21.5 1.0 C A:VAL27 3.5 22.3 1.0 C A:ILE21 3.6 19.7 1.0 O A:HOH701 3.7 44.6 1.0 O A:HOH673 3.9 53.6 1.0 CG2 A:ILE21 3.9 18.5 1.0 N A:VAL24 4.0 21.1 1.0 CA A:VAL24 4.2 21.2 1.0 C A:GLN22 4.2 21.7 1.0 O A:GLN22 4.2 21.3 1.0 CA A:GLN22 4.3 21.9 1.0 N A:GLU28 4.3 23.3 1.0 CA A:GLU28 4.3 23.9 1.0 N A:GLN22 4.3 20.5 1.0 N A:VAL27 4.3 21.9 1.0 CB A:VAL24 4.4 21.2 1.0 O A:GLU25 4.4 21.5 1.0 CA A:VAL27 4.4 22.1 1.0 N A:GLU25 4.5 21.7 1.0 C A:GLU25 4.6 21.6 1.0 CA A:ILE21 4.6 18.7 1.0 CA A:GLU25 4.7 21.9 1.0 O A:HOH627 4.8 16.9 1.0 CB A:GLU28 4.8 26.1 1.0 N A:ASN23 4.8 21.6 1.0 CB A:ILE21 4.9 18.4 1.0 CB A:VAL27 5.0 22.2 1.0

Magnesium binding site 2 out of 4 in the Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh) within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:25.9 occ:1.00 O B:VAL27 2.3 31.0 1.0 O B:HOH663 2.3 33.6 1.0 O B:VAL24 2.4 31.5 1.0 O B:ILE21 2.4 22.2 1.0 O B:HOH698 2.4 33.6 1.0 O B:HOH674 2.6 34.6 1.0 C B:VAL24 3.4 31.7 1.0 C B:ILE21 3.6 22.0 1.0 C B:VAL27 3.6 32.1 1.0 CG2 B:ILE21 4.0 20.9 1.0 N B:VAL24 4.0 28.5 1.0 CA B:GLN22 4.2 24.5 1.0 CA B:VAL24 4.3 29.9 1.0 C B:GLN22 4.3 25.5 1.0 N B:GLN22 4.3 23.2 1.0 O B:GLN22 4.4 25.1 1.0 N B:GLU25 4.4 34.1 1.0 N B:VAL27 4.4 36.4 1.0 CG1 B:VAL27 4.5 37.0 1.0 N B:GLU28 4.5 30.8 1.0 CA B:GLU25 4.5 36.1 1.0 O B:GLU25 4.5 37.4 1.0 CA B:VAL27 4.5 34.4 1.0 CA B:GLU28 4.5 30.7 1.0 C B:GLU25 4.6 36.4 1.0 CA B:ILE21 4.6 20.9 1.0 CB B:VAL24 4.7 29.8 1.0 O B:HOH613 4.7 23.1 1.0 N B:ASN23 4.8 25.6 1.0 CB B:ILE21 4.9 20.7 1.0

Magnesium binding site 3 out of 4 in the Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh) within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:28.9 occ:1.00 O C:VAL27 2.2 38.5 1.0 O C:VAL24 2.4 36.7 1.0 O C:ILE21 2.4 28.2 1.0 O C:HOH666 2.8 33.0 1.0 C C:VAL27 3.5 39.8 1.0 C C:VAL24 3.5 37.4 1.0 C C:ILE21 3.6 28.1 1.0 O C:HOH660 3.7 40.2 1.0 CG2 C:ILE21 3.9 27.2 1.0 N C:VAL24 4.1 33.8 1.0 CA C:VAL24 4.3 35.5 1.0 CA C:GLU28 4.3 38.1 1.0 N C:GLU28 4.3 38.1 1.0 C C:GLN22 4.3 30.6 1.0 CA C:GLN22 4.4 30.2 1.0 N C:GLN22 4.4 28.9 1.0 N C:GLU25 4.4 40.1 1.0 N C:VAL27 4.4 42.8 1.0 O C:GLN22 4.5 30.6 1.0 CA C:VAL27 4.5 41.7 1.0 O C:HOH570 4.5 26.9 1.0 CA C:GLU25 4.6 42.4 1.0 CA C:ILE21 4.6 27.1 1.0 CB C:VAL24 4.7 35.4 1.0 CB C:GLU28 4.7 39.9 1.0 N C:ASN23 4.8 31.1 1.0 CB C:ILE21 4.9 26.9 1.0 CB C:VAL27 5.0 43.2 1.0

Magnesium binding site 4 out of 4 in the Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Mutant Structures of Streptococcus Agalactiae Gbs Glyceraldehyde-3- Phosphate Dehydrogenase (Gapdh) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:36.3 occ:1.00 O D:VAL27 2.1 42.4 1.0 O D:VAL24 2.3 43.5 1.0 O D:ILE21 2.4 33.2 1.0 C D:VAL27 3.4 43.6 1.0 C D:VAL24 3.5 44.2 1.0 C D:ILE21 3.6 32.6 1.0 CG2 D:ILE21 3.9 31.5 1.0 N D:VAL24 4.1 39.9 1.0 N D:GLU28 4.2 42.0 1.0 CA D:GLU28 4.2 41.6 1.0 CA D:VAL24 4.3 42.0 1.0 C D:GLN22 4.3 34.7 1.0 O D:GLN22 4.3 34.9 1.0 N D:VAL27 4.3 46.5 1.0 CA D:GLN22 4.4 34.4 1.0 CA D:VAL27 4.4 45.2 1.0 O D:HOH629 4.4 34.2 1.0 N D:GLN22 4.4 33.2 1.0 O D:GLU25 4.5 50.0 1.0 N D:GLU25 4.5 47.0 1.0 CB D:VAL24 4.6 42.0 1.0 C D:GLU25 4.6 47.9 1.0 CA D:ILE21 4.6 31.1 1.0 CA D:GLU25 4.6 48.8 1.0 CB D:GLU28 4.6 43.6 1.0 O D:HOH644 4.8 45.9 1.0 N D:ASN23 4.9 35.9 1.0 CB D:ILE21 4.9 31.0 1.0 CB D:VAL27 5.0 46.4 1.0

N.Schormann, G.C.Ulett, D.Chattopadhyay. Mutant Structures of Streptococcus Agalactiae Gapdh To Be Published.