Magnesium in PDB 3zc1: Crystal Structure of AFC3PO

The structure of Crystal Structure of AFC3PO, PDB code: 3zc1 was solved by E.A.Parizotto, E.D.Lowe, J.S.Parker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	53.560 / 3.27
Space group	P 42 21 2
Cell size a, b, c (Å), α, β, γ (°)	183.310, 183.310, 111.280, 90.00, 90.00, 90.00
R / Rfree (%)	22.05 / 28.13

The binding sites of Magnesium atom in the Crystal Structure of AFC3PO (pdb code 3zc1). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Crystal Structure of AFC3PO, PDB code: 3zc1:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in the Crystal Structure of AFC3PO


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 AFC3PO within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg197 b:93.6 occ:1.00 O B:HOH2001 2.1 80.6 1.0 O B:HOH2002 2.1 95.2 1.0 O B:HOH2003 2.1 96.1 1.0 OE2 B:GLU83 2.1 91.1 1.0 OE1 B:GLU118 2.2 0.6 1.0 CD B:GLU83 3.1 99.4 1.0 CD B:GLU118 3.4 0.6 1.0 OE1 B:GLU83 3.5 0.4 1.0 O B:ASP114 3.7 76.8 1.0 OE2 B:GLU118 3.9 89.0 1.0 CG B:GLU83 4.5 91.8 1.0 C B:ASP114 4.5 77.3 1.0 CG B:GLU118 4.6 87.2 1.0 CB B:ASP114 4.7 89.5 1.0 CB B:GLU118 4.8 79.1 1.0 CG B:ASP114 4.8 96.9 1.0 OD2 B:ASP114 4.9 0.4 1.0 CA B:ASP114 5.0 76.8 1.0

Magnesium binding site 2 out of 5 in the Crystal Structure of AFC3PO


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 AFC3PO within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg197 b:75.9 occ:1.00 OE2 C:GLU83 2.1 76.7 1.0 OE2 C:GLU118 2.2 0.5 1.0 CD C:GLU83 3.1 84.1 1.0 CD C:GLU118 3.2 0.0 1.0 OE1 C:GLU83 3.5 90.5 1.0 CG C:GLU118 3.8 83.7 1.0 OE1 C:GLU118 4.3 0.2 1.0 O C:ASP114 4.4 60.6 1.0 CG C:GLU83 4.5 79.1 1.0 CD1 C:ILE35 4.9 75.4 1.0 OD1 C:ASP114 4.9 98.1 1.0 CB C:ASP114 5.0 88.3 1.0

Magnesium binding site 3 out of 5 in the Crystal Structure of AFC3PO


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of AFC3PO within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg197 b:90.4 occ:1.00 OE2 D:GLU83 2.0 85.9 1.0 O D:HOH2001 2.1 76.9 1.0 OE1 D:GLU118 2.3 0.9 1.0 CD D:GLU83 3.0 90.4 1.0 OE1 D:GLU83 3.3 0.6 1.0 CD D:GLU118 3.5 0.6 1.0 O D:ASP114 3.9 72.9 1.0 OE2 D:GLU118 4.1 0.4 1.0 CG D:GLU83 4.4 88.7 1.0 CG D:GLU118 4.6 85.3 1.0 CG D:ASP114 4.6 0.7 1.0 OD2 D:ASP114 4.7 96.6 1.0 C D:ASP114 4.7 75.4 1.0 OD1 D:ASP114 4.7 0.6 1.0 CB D:GLU118 4.8 71.7 1.0

Magnesium binding site 4 out of 5 in the Crystal Structure of AFC3PO


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of AFC3PO within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg197 b:95.3 occ:1.00 O F:HOH2001 2.0 80.4 1.0 O F:HOH2003 2.1 92.5 1.0 O F:HOH2002 2.1 94.6 1.0 OE2 F:GLU83 2.1 92.5 1.0 OE1 F:GLU118 2.2 0.7 1.0 CD F:GLU83 3.2 97.7 1.0 CD F:GLU118 3.4 98.1 1.0 OE1 F:GLU83 3.5 98.5 1.0 O F:ASP114 3.7 78.3 1.0 OE2 F:GLU118 3.9 89.7 1.0 CG F:GLU83 4.5 91.8 1.0 C F:ASP114 4.5 75.7 1.0 CG F:GLU118 4.6 79.9 1.0 CB F:ASP114 4.7 84.0 1.0 CB F:GLU118 4.8 75.0 1.0 CG F:ASP114 4.9 98.2 1.0 OD2 F:ASP114 5.0 0.5 1.0

Magnesium binding site 5 out of 5 in the Crystal Structure of AFC3PO


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of AFC3PO within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg197 b:74.1 occ:1.00 OE2 G:GLU83 2.0 69.0 1.0 O G:HOH2001 2.1 63.1 1.0 OE2 G:GLU118 2.2 0.3 1.0 CD G:GLU83 3.1 78.2 1.0 CD G:GLU118 3.2 0.1 1.0 OE1 G:GLU83 3.6 91.9 1.0 CG G:GLU118 3.7 82.0 1.0 OE1 G:GLU118 4.2 0.8 1.0 O G:ASP114 4.3 67.6 1.0 CG G:GLU83 4.4 75.8 1.0 OD1 G:ASP114 4.8 88.8 1.0 CB G:ASP114 4.9 88.1 1.0 C G:ASP114 4.9 80.0 1.0 CD1 G:ILE35 4.9 77.8 1.0 CG G:ASP114 4.9 96.2 1.0

E.A.Parizotto, E.D.Lowe, J.S.Parker. Structural Basis For Duplex Rna Recognition and Cleavage By Archaeoglobus Fulgidus C3PO. Nat.Struct.Mol.Biol. V. 20 380 2013.
ISSN: ISSN 1545-9993
PubMed: 23353787
DOI: 10.1038/NSMB.2487