Magnesium in PDB 5iu0: Rubisco From Arabidopsis Thaliana

All present enzymatic activity of Rubisco From Arabidopsis Thaliana:
4.1.1.39;

The structure of Rubisco From Arabidopsis Thaliana, PDB code: 5iu0 was solved by K.Valegaard, D.Hasse, L.Gunn, I.Andersson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.43 / 1.50
Space group	I 4
Cell size a, b, c (Å), α, β, γ (°)	111.860, 111.860, 197.710, 90.00, 90.00, 90.00
R / Rfree (%)	13.6 / 15.2

The binding sites of Magnesium atom in the Rubisco From Arabidopsis Thaliana (pdb code 5iu0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Rubisco From Arabidopsis Thaliana, PDB code: 5iu0:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Rubisco From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rubisco From Arabidopsis Thaliana within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:13.7 occ:1.00 OQ2 A:KCX201 2.0 12.8 1.0 OD1 A:ASP203 2.0 12.3 1.0 OE1 A:GLU204 2.0 12.8 1.0 O7 A:CAP502 2.2 13.7 1.0 O3 A:CAP502 2.2 13.0 1.0 O2 A:CAP502 2.3 13.2 1.0 C2 A:CAP502 2.8 13.1 1.0 C A:CAP502 2.8 13.2 1.0 CX A:KCX201 3.0 12.3 1.0 C3 A:CAP502 3.1 12.9 1.0 CD A:GLU204 3.1 12.2 1.0 CG A:ASP203 3.2 12.5 1.0 OQ1 A:KCX201 3.3 12.4 1.0 OE2 A:GLU204 3.6 12.5 1.0 N A:GLU204 3.7 12.0 1.0 NZ A:LYS177 3.7 12.6 1.0 OD2 A:ASP203 3.9 12.7 1.0 CG2 A:THR173 3.9 12.6 1.0 ND2 B:ASN123 3.9 13.6 1.0 NZ A:LYS175 4.0 12.7 1.0 NE2 A:HIS294 4.0 12.6 1.0 O6 A:CAP502 4.1 14.1 1.0 NZ A:KCX201 4.1 12.3 1.0 CA A:ASP203 4.1 11.7 1.0 CB A:ASP203 4.2 11.7 1.0 C4 A:CAP502 4.2 12.9 1.0 C1 A:CAP502 4.3 13.3 1.0 OG1 A:THR173 4.3 12.4 1.0 CG A:GLU204 4.3 11.6 1.0 CB A:GLU204 4.4 12.9 1.0 C A:ASP203 4.5 11.5 1.0 CD2 A:HIS294 4.6 11.4 1.0 CB A:THR173 4.6 12.0 1.0 C5 A:CAP502 4.7 12.8 1.0 CA A:GLU204 4.7 11.2 1.0 O1 A:CAP502 4.8 13.5 1.0 CE1 A:HIS294 4.9 11.6 1.0

Magnesium binding site 2 out of 2 in the Rubisco From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rubisco From Arabidopsis Thaliana within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg501 b:14.1 occ:1.00 OD1 B:ASP203 1.9 13.3 1.0 OE1 B:GLU204 2.0 12.8 1.0 O6 B:CAP502 2.1 13.8 1.0 OQ1 B:KCX201 2.1 12.9 1.0 O2 B:CAP502 2.3 14.7 1.0 O3 B:CAP502 2.3 13.3 1.0 C B:CAP502 2.8 14.2 1.0 C2 B:CAP502 2.8 13.9 1.0 CD B:GLU204 3.1 12.2 1.0 CG B:ASP203 3.1 13.4 1.0 C3 B:CAP502 3.1 13.2 1.0 CX B:KCX201 3.1 12.4 1.0 OQ2 B:KCX201 3.4 13.6 1.0 OE2 B:GLU204 3.5 13.7 1.0 NZ B:LYS177 3.7 13.8 1.0 N B:GLU204 3.8 12.1 1.0 OD2 B:ASP203 3.8 14.0 1.0 ND2 A:ASN123 3.8 13.1 1.0 CG2 B:THR173 3.9 12.9 1.0 NZ B:LYS175 3.9 13.6 1.0 O7 B:CAP502 4.0 13.4 1.0 NE2 B:HIS294 4.1 11.8 1.0 CB B:ASP203 4.2 12.6 1.0 CA B:ASP203 4.2 11.9 1.0 C4 B:CAP502 4.2 13.6 1.0 C1 B:CAP502 4.3 13.5 1.0 NZ B:KCX201 4.3 12.1 1.0 CG B:GLU204 4.3 12.0 1.0 OG1 B:THR173 4.4 12.3 1.0 CB B:GLU204 4.4 11.9 1.0 C B:ASP203 4.5 11.8 1.0 CB B:THR173 4.7 12.9 1.0 C5 B:CAP502 4.7 13.2 1.0 CA B:GLU204 4.7 11.9 1.0 O1 B:CAP502 4.7 14.5 1.0 CD2 B:HIS294 4.8 12.3 1.0 CE1 B:HIS294 5.0 11.8 1.0

K.Valegard, D.Hasse, I.Andersson, L.H.Gunn. Structure of Rubisco From Arabidopsis Thaliana in Complex with 2-Carboxyarabinitol-1,5-Bisphosphate. Acta Crystallogr D Struct V. 74 1 2018BIOL.
ISSN: ISSN 2059-7983
PubMed: 29372894
DOI: 10.1107/S2059798317017132