Magnesium in PDB 5e3h: Structural Basis For Rna Recognition and Activation of Rig-I

All present enzymatic activity of Structural Basis For Rna Recognition and Activation of Rig-I:
3.6.4.13;

The structure of Structural Basis For Rna Recognition and Activation of Rig-I, PDB code: 5e3h was solved by F.Jiang, M.T.Miller, J.Marcotrigiano, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.97 / 2.70
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	176.030, 176.030, 108.071, 90.00, 90.00, 120.00
R / Rfree (%)	23.4 / 26.8

The structure of Structural Basis For Rna Recognition and Activation of Rig-I also contains other interesting chemical elements:

Fluorine	(F)	3 atoms
Zinc	(Zn)	1 atom

The binding sites of Magnesium atom in the Structural Basis For Rna Recognition and Activation of Rig-I (pdb code 5e3h). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structural Basis For Rna Recognition and Activation of Rig-I, PDB code: 5e3h:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Structural Basis For Rna Recognition and Activation of Rig-I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural Basis For Rna Recognition and Activation of Rig-I within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1002 b:65.8 occ:0.50 ND2 A:ASN341 3.6 65.6 1.0 CG2 A:ILE337 3.8 66.9 1.0 CG1 A:ILE337 3.8 70.8 1.0 CB A:ILE337 4.1 78.0 1.0 CA A:ILE337 4.2 80.0 1.0 CG A:ASN341 4.6 62.3 1.0 OG1 A:THR322 4.6 59.1 1.0 CD1 A:ILE337 4.7 70.7 1.0 O A:ILE337 4.7 67.6 1.0 OD1 A:ASN341 4.7 69.2 1.0 C A:ILE337 5.0 78.9 1.0

Magnesium binding site 2 out of 3 in the Structural Basis For Rna Recognition and Activation of Rig-I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structural Basis For Rna Recognition and Activation of Rig-I within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1003 b:78.1 occ:1.00 O3B A:ADP1006 2.4 0.8 1.0 F1 A:BEF1007 2.5 76.8 1.0 OD2 A:ASP372 3.2 72.5 1.0 PB A:ADP1006 3.8 98.5 1.0 OD1 A:ASP372 3.9 68.5 1.0 CG A:ASP372 4.0 64.5 1.0 BE A:BEF1007 4.0 72.8 1.0 OE2 A:GLU373 4.0 55.8 1.0 NZ A:LYS270 4.1 76.7 1.0 OG1 A:THR271 4.1 0.4 1.0 O1B A:ADP1006 4.3 86.3 1.0 O1A A:ADP1006 4.4 70.7 1.0 O2B A:ADP1006 4.7 85.0 1.0 F3 A:BEF1007 4.7 65.8 1.0 O3A A:ADP1006 4.8 80.0 1.0 CB A:LYS270 4.9 72.2 1.0 F2 A:BEF1007 5.0 65.8 1.0

Magnesium binding site 3 out of 3 in the Structural Basis For Rna Recognition and Activation of Rig-I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structural Basis For Rna Recognition and Activation of Rig-I within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1004 b:70.8 occ:1.00 ND2 A:ASN298 3.2 81.1 1.0 NE2 A:HIS381 3.5 69.6 1.0 OD1 A:ASN376 4.0 58.7 1.0 CD2 A:HIS381 4.1 69.0 1.0 O2' C:U12 4.3 62.6 1.0 CG A:ASN298 4.4 93.9 1.0 N2 C:G11 4.5 69.6 1.0 CG A:ASN376 4.7 53.4 1.0 CE1 A:HIS381 4.7 73.4 1.0 C1' B:G5 4.8 65.2 1.0 C1' C:U12 4.8 63.1 1.0 O4' B:G5 4.8 65.7 1.0 CB A:ASN298 4.9 77.0 1.0

F.Jiang, A.Ramanathan, M.T.Miller, G.Q.Tang, M.Gale, S.S.Patel, J.Marcotrigiano. Structural Basis of Rna Recognition and Activation By Innate Immune Receptor Rig-I. Nature V. 479 423 2011.
ISSN: ESSN 1476-4687
PubMed: 21947008
DOI: 10.1038/NATURE10537