Magnesium in PDB 4ief: Complex of Porphyromonas Gingivalis Rgpb Pro- and Mature Domains

All present enzymatic activity of Complex of Porphyromonas Gingivalis Rgpb Pro- and Mature Domains:
3.4.22.37;

The structure of Complex of Porphyromonas Gingivalis Rgpb Pro- and Mature Domains, PDB code: 4ief was solved by I.De Diego, F.T.Veillard, T.Guevara, B.Potempa, M.Sztukowska, J.Potempa, F.X.Gomis-Ruth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.67 / 2.30
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	84.420, 133.140, 109.830, 90.00, 90.52, 90.00
R / Rfree (%)	18.9 / 22.5

The structure of Complex of Porphyromonas Gingivalis Rgpb Pro- and Mature Domains also contains other interesting chemical elements:

Barium	(Ba)	4 atoms
Chlorine	(Cl)	1 atom
Calcium	(Ca)	14 atoms
Sodium	(Na)	3 atoms

The binding sites of Magnesium atom in the Complex of Porphyromonas Gingivalis Rgpb Pro- and Mature Domains (pdb code 4ief). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Complex of Porphyromonas Gingivalis Rgpb Pro- and Mature Domains, PDB code: 4ief:

Magnesium binding site 1 out of 1 in the Complex of Porphyromonas Gingivalis Rgpb Pro- and Mature Domains


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Complex of Porphyromonas Gingivalis Rgpb Pro- and Mature Domains within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg705 b:50.4 occ:1.00 OD2 H:ASP258 2.3 33.8 1.0 O F:HOH810 2.3 28.1 1.0 O F:ASP614 2.6 37.3 1.0 OE2 H:GLU254 2.6 73.6 1.0 O F:HOH929 3.1 32.7 1.0 CG H:ASP258 3.4 31.7 1.0 C F:ASP614 3.7 36.6 1.0 CD H:GLU254 3.7 77.8 1.0 OD1 H:ASP258 3.8 34.4 1.0 CB F:ASP614 3.8 34.9 1.0 NA F:NA708 3.9 42.9 1.0 NA F:NA706 4.1 38.3 1.0 O H:HOH922 4.3 67.6 1.0 CA F:ASP614 4.4 31.9 1.0 O H:ASP614 4.5 37.3 1.0 OE1 H:GLU254 4.5 86.1 1.0 OD1 H:ASP255 4.6 51.0 1.0 O F:ASP613 4.6 34.2 1.0 CG H:GLU254 4.6 47.5 1.0 OD2 F:ASP258 4.6 47.0 1.0 CB H:ASP258 4.6 28.5 1.0 N F:GLY615 4.7 33.1 1.0 OD1 F:ASP258 4.8 44.3 1.0 CA F:GLY615 5.0 33.4 1.0

I.De Diego, F.T.Veillard, T.Guevara, B.Potempa, M.Sztukowska, J.Potempa, F.X.Gomis-Ruth. Porphyromonas Gingivalis Virulence Factor Gingipain Rgpb Shows A Unique Zymogenic Mechanism For Cysteine Peptidases. J.Biol.Chem. V. 288 14287 2013.
ISSN: ISSN 0021-9258
PubMed: 23558682
DOI: 10.1074/JBC.M112.444927