Magnesium in PDB 5jc3: Crystal Structure of Chicken MDA5 with 5'P 10-Mer Dsrna and Adp-MG2+ at 2.6 A Resolution (Monoclinic Form, Twinned).

The structure of Crystal Structure of Chicken MDA5 with 5'P 10-Mer Dsrna and Adp-MG2+ at 2.6 A Resolution (Monoclinic Form, Twinned)., PDB code: 5jc3 was solved by S.Cusack, E.Uchikawa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	70.160, 138.700, 100.430, 90.00, 109.47, 90.00
R / Rfree (%)	27.1 / 29

The structure of Crystal Structure of Chicken MDA5 with 5'P 10-Mer Dsrna and Adp-MG2+ at 2.6 A Resolution (Monoclinic Form, Twinned). also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Magnesium atom in the Crystal Structure of Chicken MDA5 with 5'P 10-Mer Dsrna and Adp-MG2+ at 2.6 A Resolution (Monoclinic Form, Twinned). (pdb code 5jc3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Chicken MDA5 with 5'P 10-Mer Dsrna and Adp-MG2+ at 2.6 A Resolution (Monoclinic Form, Twinned)., PDB code: 5jc3:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Chicken MDA5 with 5'P 10-Mer Dsrna and Adp-MG2+ at 2.6 A Resolution (Monoclinic Form, Twinned).


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 Chicken MDA5 with 5'P 10-Mer Dsrna and Adp-MG2+ at 2.6 A Resolution (Monoclinic Form, Twinned). within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1002 b:36.8 occ:1.00 O1B A:ADP1001 1.9 59.6 1.0 O1A A:ADP1001 2.4 66.2 1.0 OG1 A:THR329 2.7 53.5 1.0 PB A:ADP1001 2.9 60.0 1.0 O3A A:ADP1001 3.0 63.1 1.0 PA A:ADP1001 3.3 66.8 1.0 CG2 A:THR329 3.6 51.5 1.0 CB A:THR329 3.7 51.3 1.0 O3B A:ADP1001 3.8 60.6 1.0 N A:THR329 4.0 50.1 1.0 O2B A:ADP1001 4.2 61.0 1.0 O5' A:ADP1001 4.3 66.2 1.0 C5' A:ADP1001 4.3 66.2 1.0 O2A A:ADP1001 4.4 65.0 1.0 CA A:THR329 4.5 50.2 1.0 CG A:LYS328 4.5 53.4 1.0 N A:LYS328 4.5 49.9 1.0 CA A:GLY327 4.8 50.0 1.0 C A:GLY327 5.0 49.1 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Chicken MDA5 with 5'P 10-Mer Dsrna and Adp-MG2+ at 2.6 A Resolution (Monoclinic Form, Twinned).


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 Chicken MDA5 with 5'P 10-Mer Dsrna and Adp-MG2+ at 2.6 A Resolution (Monoclinic Form, Twinned). within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1002 b:37.4 occ:1.00 O3B B:ADP1001 1.9 55.3 1.0 O1A B:ADP1001 2.1 63.2 1.0 OG1 B:THR329 2.9 53.3 1.0 PB B:ADP1001 3.1 56.4 1.0 PA B:ADP1001 3.2 63.4 1.0 O3A B:ADP1001 3.3 59.6 1.0 CG2 B:THR329 3.6 48.7 1.0 CB B:THR329 3.8 49.4 1.0 O1B B:ADP1001 4.1 58.2 1.0 O2A B:ADP1001 4.2 62.8 1.0 N B:THR329 4.2 48.2 1.0 O2B B:ADP1001 4.2 54.8 1.0 O5' B:ADP1001 4.4 63.3 1.0 CG B:LYS328 4.5 54.2 1.0 CA B:THR329 4.6 48.6 1.0 C5' B:ADP1001 4.7 63.0 1.0 N B:LYS328 4.8 49.2 1.0

E.Uchikawa, M.Lethier, H.Malet, J.Brunel, D.Gerlier, S.Cusack. Structural Analysis of Dsrna Binding to Anti-Viral Pattern Recognition Receptors LGP2 and MDA5. Mol.Cell V. 62 586 2016.
ISSN: ISSN 1097-2765
PubMed: 27203181
DOI: 10.1016/J.MOLCEL.2016.04.021