Magnesium in PDB 5vog: Crystal Structure of A Hypothetical Protein From Neisseria Gonorrhoeae with Bound Ppgpp

The structure of Crystal Structure of A Hypothetical Protein From Neisseria Gonorrhoeae with Bound Ppgpp, PDB code: 5vog 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)	40.64 / 1.50
Space group	F 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	81.270, 103.930, 105.540, 90.00, 90.00, 90.00
R / Rfree (%)	14.9 / 17.7

The binding sites of Magnesium atom in the Crystal Structure of A Hypothetical Protein From Neisseria Gonorrhoeae with Bound Ppgpp (pdb code 5vog). 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 A Hypothetical Protein From Neisseria Gonorrhoeae with Bound Ppgpp, PDB code: 5vog:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of A Hypothetical Protein From Neisseria Gonorrhoeae with Bound Ppgpp


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 A Hypothetical Protein From Neisseria Gonorrhoeae with Bound Ppgpp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg204 b:23.2 occ:1.00 O A:HOH316 2.0 22.3 1.0 O1D A:G4P203 2.0 23.0 1.0 O A:HOH317 2.1 24.1 1.0 O1 A:EDO202 2.1 23.7 1.0 O2C A:G4P203 2.1 24.5 1.0 O2 A:EDO202 2.2 23.7 1.0 C1 A:EDO202 3.0 23.8 1.0 C2 A:EDO202 3.1 26.0 1.0 PC A:G4P203 3.3 25.4 1.0 PD A:G4P203 3.3 23.1 1.0 O3C A:G4P203 3.5 24.6 1.0 O3' A:G4P203 3.7 25.2 1.0 OD1 A:ASP97 3.9 23.1 1.0 N A:GLY39 4.0 22.0 1.0 O2D A:G4P203 4.1 23.4 1.0 O A:GLY37 4.1 23.2 1.0 C3' A:G4P203 4.1 25.3 1.0 O A:HOH364 4.1 25.0 1.0 OD2 A:ASP97 4.1 25.8 1.0 N A:GLY38 4.4 21.5 1.0 OE1 A:GLU98 4.4 25.6 1.0 C A:GLY37 4.4 22.2 1.0 O3D A:G4P203 4.5 24.8 1.0 CA A:GLY39 4.5 22.2 1.0 CG A:ASP97 4.5 23.5 1.0 O A:ILE36 4.5 21.6 1.0 O1C A:G4P203 4.5 27.0 1.0 CG2 A:ILE36 4.7 22.5 1.0 O2' A:G4P203 4.7 26.8 1.0 OE2 A:GLU98 4.8 27.0 1.0 OG1 A:THR60 4.8 26.3 1.0 C2' A:G4P203 4.9 25.3 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of A Hypothetical Protein From Neisseria Gonorrhoeae with Bound Ppgpp


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 A Hypothetical Protein From Neisseria Gonorrhoeae with Bound Ppgpp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg205 b:34.5 occ:1.00 O A:HOH333 2.0 63.0 1.0 OD1 A:ASP82 2.1 47.2 1.0 O A:HOH312 2.3 38.6 1.0 O A:HOH428 2.4 33.0 0.5 O A:HOH450 2.4 46.1 1.0 O A:HOH369 2.6 46.8 1.0 CG A:ASP82 3.2 47.3 1.0 O A:HOH306 3.8 41.2 1.0 CB A:ASP82 4.0 43.6 1.0 O A:LEU81 4.1 34.1 1.0 OD2 A:ASP82 4.1 48.4 1.0 CA A:ASP82 4.2 41.3 1.0 OE2 A:GLU116 4.3 34.0 1.0 CD1 A:TRP80 4.3 27.9 1.0 O A:HOH330 4.7 32.2 1.0 C A:LEU81 4.8 33.0 1.0 NE1 A:TRP80 4.9 27.3 1.0 N A:ASP82 4.9 36.4 1.0 O A:HOH396 4.9 36.3 1.0 NZ A:LYS77 4.9 37.1 1.0

D.M.Dranow, J.Abendroth, D.D.Lorimer, T.E.Edwards. Crystal Structure of A Hypothetical Protein From Neisseria Gonorrhoeae with Bound Ppgpp To Be Published.