Magnesium in PDB 4w5q: The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8

The structure of The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8, PDB code: 4w5q was solved by N.T.Schirle, I.J.Macrae, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.29 / 3.10
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	55.500, 116.655, 70.066, 90.00, 92.26, 90.00
R / Rfree (%)	19 / 23.3

The binding sites of Magnesium atom in the The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8 (pdb code 4w5q). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8, PDB code: 4w5q:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg901 b:38.1 occ:1.00 O A:VAL598 2.4 47.7 1.0 OD1 A:ASP597 2.5 45.4 1.0 CG A:ASP597 3.4 37.6 1.0 C A:VAL598 3.4 39.0 1.0 OD2 A:ASP597 3.6 41.4 1.0 OD1 A:ASP669 3.9 45.9 1.0 N3 B:C10 3.9 82.0 1.0 N A:VAL598 3.9 35.7 1.0 O2 B:C10 4.0 57.2 1.0 CE1 A:HIS807 4.1 44.9 1.0 N A:THR599 4.2 38.2 1.0 CA A:VAL598 4.3 36.4 1.0 C2 B:C10 4.3 73.3 1.0 CA A:THR599 4.3 39.0 1.0 OG1 A:THR599 4.4 49.6 1.0 CB A:ASP597 4.7 36.6 1.0 C4 B:C10 4.8 81.0 1.0 ND1 A:HIS807 4.8 44.2 1.0 O A:ASP669 4.8 41.8 1.0 NE2 A:HIS807 4.9 42.0 1.0 C A:ASP597 4.9 34.5 1.0 CA A:GLY670 4.9 39.3 1.0 CB A:THR599 5.0 41.1 1.0

Magnesium binding site 2 out of 3 in the The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg101 b:76.7 occ:1.00 OP2 B:A13 2.5 0.1 1.0 OP2 B:C12 3.5 90.5 1.0 O5' B:C12 3.6 0.5 1.0 P B:C12 3.7 98.2 1.0 OP1 B:C12 3.8 0.7 1.0 N6 B:A14 3.9 0.5 1.0 P B:A13 4.0 0.2 1.0 N7 B:A13 4.0 98.7 1.0 N7 B:A14 4.1 0.3 1.0 C8 B:A13 4.4 0.0 1.0 O5' B:A13 4.5 0.5 1.0 C6 B:A14 4.6 0.2 1.0 C5 B:A14 4.7 0.9 1.0 C5' B:C12 4.7 98.5 1.0 O3' B:C12 4.7 0.9 1.0 C3' B:C12 4.8 1.0 1.0 O6 B:G15 4.9 1.0 1.0

Magnesium binding site 3 out of 3 in the The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of The Crystal Structure of Human ARGONAUTE2 Bound to A Guide and Target Rna Containing Seed Pairing From 2-8 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg101 b:45.9 occ:1.00 O4 D:U4 2.1 60.9 1.0 C4 D:U4 3.3 59.5 1.0 C5 D:U4 3.9 61.0 1.0 O6 D:G5 4.0 48.5 1.0 N3 D:U4 4.4 54.7 1.0 N6 D:A3 4.6 53.6 1.0 N7 D:A3 4.8 53.7 1.0 C6 D:G5 5.0 50.8 1.0

N.T.Schirle, J.Sheu-Gruttadauria, I.J.Macrae. Gene Regulation. Structural Basis For Microrna Targeting. Science V. 346 608 2014.
ISSN: ESSN 1095-9203
PubMed: 25359968
DOI: 10.1126/SCIENCE.1258040