Magnesium in PDB 8a28: Structure of the Astacin Zymogen of Last-Mam From Limulus Polyphemus

The structure of Structure of the Astacin Zymogen of Last-Mam From Limulus Polyphemus, PDB code: 8a28 was solved by T.Guevara, A.Rodriguez Banqueri, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.73 / 2.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	115.83, 47.57, 236.4, 90, 102.91, 90
R / Rfree (%)	25.3 / 28.9

The structure of Structure of the Astacin Zymogen of Last-Mam From Limulus Polyphemus also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Magnesium atom in the Structure of the Astacin Zymogen of Last-Mam From Limulus Polyphemus (pdb code 8a28). 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 Structure of the Astacin Zymogen of Last-Mam From Limulus Polyphemus, PDB code: 8a28:

Magnesium binding site 1 out of 1 in the Structure of the Astacin Zymogen of Last-Mam From Limulus Polyphemus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Astacin Zymogen of Last-Mam From Limulus Polyphemus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:47.4 occ:1.00 O A:HIS31 2.0 65.2 1.0 O A:LEU34 2.8 47.9 1.0 C A:HIS31 3.2 63.9 1.0 O A:SER32 3.4 62.9 1.0 C A:SER32 3.6 62.2 1.0 CA A:SER32 3.6 63.2 1.0 N A:GLY37 3.7 43.9 1.0 ND2 A:ASN174 3.7 54.8 1.0 CA A:GLY37 3.7 43.4 1.0 N A:SER32 3.8 63.4 1.0 C A:LEU34 4.0 49.8 1.0 CE A:MET171 4.0 55.2 1.0 SD A:MET171 4.0 70.1 1.0 CE1 A:PHE203 4.0 52.0 1.0 N A:LEU34 4.0 52.0 1.0 CA A:HIS31 4.4 61.1 1.0 N A:HIS31 4.5 57.0 1.0 CA A:LEU34 4.5 49.4 1.0 N A:ASN33 4.5 60.7 1.0 CG A:ASN174 4.6 54.6 1.0 OD1 A:ASN174 4.6 57.0 1.0 CZ A:PHE203 4.6 53.0 1.0 C A:GLY37 4.7 44.1 1.0 C A:GLU36 4.9 45.4 1.0 C A:TYR30 4.9 54.3 1.0 O A:GLY37 4.9 46.3 1.0 CD1 A:PHE203 4.9 51.4 1.0 N A:GLU36 5.0 49.3 1.0

T.Guevara, A.Rodriguez-Banqueri, M.Ksiazek, J.Potempa, F.X.Gomis-Ruth. Structure-Based Mechanism of Cysteine-Switch Latency and of Catalysis By Pappalysin-Family Metallopeptidases Iucrj V. 7 18 2020.
ISSN: ESSN 2052-2525
DOI: 10.1107/S2059798322009688