Manganese in PDB 4amq: A Megaviridae Orfan Gene Encodes A New Nucleotidyl Transferase

The structure of A Megaviridae Orfan Gene Encodes A New Nucleotidyl Transferase, PDB code: 4amq was solved by A.Lartigue, J.M.Claverie, S.Priet, C.Abergel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.290 / 2.17
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	60.445, 91.092, 152.994, 90.00, 90.00, 90.00
R / Rfree (%)	21.92 / 24.42

The structure of A Megaviridae Orfan Gene Encodes A New Nucleotidyl Transferase also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Manganese atom in the A Megaviridae Orfan Gene Encodes A New Nucleotidyl Transferase (pdb code 4amq). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the A Megaviridae Orfan Gene Encodes A New Nucleotidyl Transferase, PDB code: 4amq:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the A Megaviridae Orfan Gene Encodes A New Nucleotidyl Transferase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of A Megaviridae Orfan Gene Encodes A New Nucleotidyl Transferase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn639 b:75.0 occ:1.00 O A:HOH2030 2.3 48.0 1.0 OD1 A:ASP44 2.4 42.4 1.0 OD2 A:ASP44 2.6 44.7 1.0 OD2 A:ASP46 2.6 42.9 1.0 CG A:ASP44 2.8 39.5 1.0 CG A:ASP46 3.3 40.3 1.0 O A:HOH2032 3.4 45.2 1.0 OD1 A:ASP46 3.5 37.2 1.0 MN A:MN640 3.7 38.9 1.0 OG A:SER34 3.7 33.9 1.0 O A:HOH2018 3.9 33.5 1.0 O A:HOH2029 4.0 46.8 1.0 O A:HOH2011 4.2 54.7 1.0 O A:ASP44 4.2 36.7 1.0 CB A:ASP44 4.2 34.1 1.0 N A:SER34 4.4 33.5 1.0 C A:ASP44 4.4 32.8 1.0 OG1 A:THR43 4.5 34.1 1.0 CB A:ASP46 4.5 36.3 1.0 CB A:SER34 4.6 35.2 1.0 CA A:ASP44 4.8 29.0 1.0 N A:ASP46 4.8 28.7 1.0 N A:ASP44 4.8 27.2 1.0 N A:ILE45 5.0 33.6 1.0

Manganese binding site 2 out of 2 in the A Megaviridae Orfan Gene Encodes A New Nucleotidyl Transferase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of A Megaviridae Orfan Gene Encodes A New Nucleotidyl Transferase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn640 b:38.9 occ:1.00 OD2 A:ASP44 2.2 44.7 1.0 OD1 A:ASP46 2.3 37.2 1.0 OD2 A:ASP191 2.6 41.3 1.0 O A:HOH2031 2.6 41.3 1.0 O A:HOH2032 3.0 45.2 1.0 CG A:ASP46 3.2 40.3 1.0 CG A:ASP44 3.4 39.5 1.0 OD2 A:ASP46 3.5 42.9 1.0 CG A:ASP191 3.6 37.2 1.0 MN A:MN639 3.7 75.0 1.0 O A:HOH2067 4.0 50.3 1.0 O A:HOH2074 4.0 31.3 1.0 CB A:ASP191 4.1 32.2 1.0 OD1 A:ASP44 4.2 42.4 1.0 CB A:ASP44 4.3 34.1 1.0 CB A:ASP46 4.6 36.3 1.0 OD1 A:ASP191 4.6 36.0 1.0 O A:HOH2011 4.6 54.7 1.0 O A:ILE45 4.8 30.6 1.0 O A:HOH2012 4.8 43.3 1.0

A.Ciaccafava, A.Lartigue, P.Mansuelle, S.Jeudy, C.Abergel. A Megaviridae Orphan Gene Encodes A New Nucleotidyl Transferase To Be Published.