Calcium in PDB 8afj: Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock

The structure of Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock, PDB code: 8afj was solved by P.Van Der Linden, S.Engilberge, M.Atta, P.Carpentier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.62 / 1.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	117.276, 51.845, 78.183, 90, 90.63, 90
R / Rfree (%)	20 / 22.8

The structure of Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock also contains other interesting chemical elements:

Iron	(Fe)	4 atoms
Chlorine	(Cl)	1 atom

The binding sites of Calcium atom in the Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock (pdb code 8afj). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock, PDB code: 8afj:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca306 b:22.6 occ:1.00 O B:ASP8 2.3 22.3 1.0 O B:HOH407 2.3 23.3 1.0 O B:LEU11 2.4 21.0 1.0 C B:ASP8 3.5 21.1 1.0 C B:LEU11 3.6 26.0 1.0 O B:ALA9 3.9 23.8 1.0 CA B:ALA9 4.1 31.8 1.0 C B:ALA9 4.2 21.8 1.0 N B:ALA9 4.2 24.7 1.0 C B:GLY12 4.4 27.5 1.0 O B:HOH465 4.5 26.7 1.0 N B:GLY12 4.5 21.1 1.0 CA B:ASP8 4.5 22.6 1.0 CA B:GLY12 4.5 21.7 1.0 N B:LEU11 4.5 20.6 1.0 N B:CYS13 4.5 21.0 1.0 CA B:LEU11 4.5 20.6 1.0 O B:GLY12 4.9 28.8 1.0 CB B:LEU11 4.9 17.4 1.0 CB B:ASP8 5.0 29.5 1.0

Calcium binding site 2 out of 3 in the Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca307 b:63.5 occ:1.00 O B:GLU21 2.8 22.4 1.0 O B:HOH523 2.9 63.0 1.0 C B:GLU21 3.7 20.1 1.0 N B:ALA25 3.7 18.4 1.0 CB B:LEU24 3.8 21.8 1.0 CB B:ALA25 3.9 22.6 1.0 CA B:GLU21 4.0 24.3 1.0 CA B:ALA25 4.2 23.0 1.0 C B:LEU24 4.2 22.8 1.0 CB B:GLU21 4.5 22.5 1.0 CA B:LEU24 4.5 24.0 1.0 CD1 B:LEU24 4.8 24.4 1.0 N B:LEU24 4.9 17.2 1.0 O B:LEU24 4.9 21.8 1.0 CG B:GLU21 4.9 44.4 1.0 CG B:LEU24 4.9 28.6 1.0 N B:ALA22 4.9 22.9 1.0

Calcium binding site 3 out of 3 in the Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca307 b:47.9 occ:0.50 O A:HOH483 2.1 40.9 1.0 O A:HOH464 2.2 32.3 0.5 O A:GLY84 3.5 42.1 1.0 CD A:PRO86 4.2 49.5 1.0 OE2 A:GLU28 4.4 43.3 1.0 OE1 A:GLU28 4.5 36.2 1.0 C A:GLY84 4.6 43.8 1.0 CG A:PRO86 4.7 44.8 1.0 CD A:GLU28 4.9 37.1 1.0

P.Van Der Linden, S.Engilberge, M.Atta, P.Carpentier. Trna Modifying Enzyme Miae Soaked in Na-Dithionite in A Glovebox and Flash-Cooled Using A Miniature-Airlock To Be Published.