Magnesium in PDB 4a36: Structure of Duck Rig-I Helicase Domain Bound to 19-Mer Dsrna and Atp Transition State Analogue

The structure of Structure of Duck Rig-I Helicase Domain Bound to 19-Mer Dsrna and Atp Transition State Analogue, PDB code: 4a36 was solved by E.Kowalinski, T.Lunardi, A.A.Mccarthy, S.Cusack, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.95 / 3.70
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	129.270, 129.270, 106.310, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 26.3

The structure of Structure of Duck Rig-I Helicase Domain Bound to 19-Mer Dsrna and Atp Transition State Analogue also contains other interesting chemical elements:

Fluorine	(F)	6 atoms
Aluminium	(Al)	2 atoms

The binding sites of Magnesium atom in the Structure of Duck Rig-I Helicase Domain Bound to 19-Mer Dsrna and Atp Transition State Analogue (pdb code 4a36). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Duck Rig-I Helicase Domain Bound to 19-Mer Dsrna and Atp Transition State Analogue, PDB code: 4a36:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of Duck Rig-I Helicase Domain Bound to 19-Mer Dsrna and Atp Transition State Analogue


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Duck Rig-I Helicase Domain Bound to 19-Mer Dsrna and Atp Transition State Analogue within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1795 b:35.9 occ:1.00 F3 A:AF31796 1.9 39.5 1.0 O2B A:ADP1794 1.9 66.5 1.0 OD2 A:ASP375 3.0 65.1 1.0 OD1 A:ASP375 3.2 67.3 1.0 PB A:ADP1794 3.4 68.7 1.0 OG1 A:THR274 3.4 67.6 1.0 CG A:ASP375 3.5 67.2 1.0 OE1 A:GLU376 3.5 83.0 1.0 AL A:AF31796 3.5 34.3 1.0 NZ A:LYS273 3.7 70.5 1.0 NE2 A:GLN309 3.7 65.4 1.0 O2A A:ADP1794 3.9 60.9 1.0 O3B A:ADP1794 4.1 63.0 1.0 O A:GLY704 4.1 80.0 1.0 O1B A:ADP1794 4.2 66.1 1.0 CA A:GLY704 4.3 80.6 1.0 O3A A:ADP1794 4.4 63.8 1.0 CD A:GLU376 4.5 82.2 1.0 PA A:ADP1794 4.5 60.6 1.0 F2 A:AF31796 4.5 35.8 1.0 O1A A:ADP1794 4.5 60.7 1.0 F1 A:AF31796 4.6 35.2 1.0 C A:GLY704 4.7 81.4 1.0 CB A:THR274 4.8 64.0 1.0 CE A:LYS273 4.8 72.2 1.0 CD A:GLN309 4.8 64.5 1.0 N A:THR274 4.9 71.1 1.0

Magnesium binding site 2 out of 2 in the Structure of Duck Rig-I Helicase Domain Bound to 19-Mer Dsrna and Atp Transition State Analogue


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Duck Rig-I Helicase Domain Bound to 19-Mer Dsrna and Atp Transition State Analogue within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1795 b:35.5 occ:1.00 O2B B:ADP1794 2.1 69.6 1.0 F3 B:AF31796 2.3 41.5 1.0 OD2 B:ASP375 2.7 74.0 1.0 OD1 B:ASP375 2.9 77.1 1.0 CG B:ASP375 3.2 75.7 1.0 OE2 B:GLU376 3.4 75.5 1.0 OG1 B:THR274 3.4 69.8 1.0 PB B:ADP1794 3.6 68.3 1.0 NE2 B:GLN309 3.6 65.8 1.0 NZ B:LYS273 3.8 79.3 1.0 AL B:AF31796 3.8 39.3 1.0 O2A B:ADP1794 4.1 61.6 1.0 O B:GLY704 4.3 70.7 1.0 CD B:GLU376 4.3 76.1 1.0 O1B B:ADP1794 4.3 67.8 1.0 O1A B:ADP1794 4.4 60.0 1.0 CA B:GLY704 4.4 73.4 1.0 O3A B:ADP1794 4.4 64.7 1.0 O3B B:ADP1794 4.4 60.6 1.0 PA B:ADP1794 4.5 61.0 1.0 F1 B:AF31796 4.8 40.1 1.0 CB B:ASP375 4.8 76.1 1.0 CD B:GLN309 4.8 66.3 1.0 CB B:THR274 4.8 70.8 1.0 C B:GLY704 4.9 68.1 1.0 CE B:LYS273 4.9 73.9 1.0 N B:THR274 5.0 74.0 1.0

E.Kowalinski, T.Lunardi, A.A.Mccarthy, J.Louber, J.Brunel, B.Grigorov, D.Gerlier, S.Cusack. Structural Basis For the Activation of Innate Immune Pattern Recognition Receptor Rig-I By Viral Rna. Cell(Cambridge,Mass.) V. 147 423 2011.
ISSN: ISSN 0092-8674
PubMed: 22000019
DOI: 10.1016/J.CELL.2011.09.039