Magnesium in PDB 4z4i: Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna

The structure of Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna, PDB code: 4z4i 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)	44.69 / 2.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	55.595, 116.624, 69.622, 90.00, 92.42, 90.00
R / Rfree (%)	19.2 / 23.3

The binding sites of Magnesium atom in the Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna (pdb code 4z4i). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna, PDB code: 4z4i:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg901 b:23.4 occ:1.00 O A:HOH1003 2.0 42.1 1.0 O A:VAL598 2.1 25.5 1.0 O A:HOH1016 2.5 37.0 1.0 O A:HOH1004 2.6 25.6 1.0 O A:HOH1012 2.8 30.7 1.0 OD1 A:ASP597 2.9 37.6 1.0 C A:VAL598 3.3 21.9 1.0 O2 B:C10 3.7 48.3 1.0 CG A:ASP597 3.9 36.4 1.0 C2 B:C10 4.2 50.3 1.0 OD2 A:ASP597 4.2 37.5 1.0 N A:VAL598 4.2 22.1 1.0 N A:THR599 4.2 22.0 1.0 CA A:THR599 4.3 25.1 1.0 CA A:VAL598 4.3 19.9 1.0 N3 B:C10 4.3 50.1 1.0 OE2 A:GLU637 4.6 29.2 1.0 OE1 A:GLU637 4.7 33.3 1.0 CA A:GLY670 4.7 26.4 1.0 O A:ASP669 4.8 29.6 1.0 CD2 A:HIS600 4.8 24.0 1.0 CB A:VAL598 4.8 20.4 1.0 CE1 A:HIS807 4.9 35.4 1.0 OG1 A:THR599 4.9 31.5 1.0 O A:GLY670 5.0 36.4 1.0

Magnesium binding site 2 out of 3 in the Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg101 b:61.6 occ:1.00 O B:HOH202 2.1 50.2 1.0 O B:HOH201 2.2 53.7 1.0 OP2 B:A13 2.6 66.9 1.0 O6 B:G15 3.8 86.0 1.0 P B:A13 3.9 67.2 1.0 N6 B:A14 4.0 65.4 1.0 N7 B:A14 4.3 66.8 1.0 OP1 B:C12 4.3 58.8 1.0 O5' B:A13 4.5 76.7 1.0 OP1 B:A13 4.7 69.5 1.0 N7 B:A13 4.7 61.4 1.0 OP2 B:C12 4.7 60.1 1.0 C6 B:G15 4.7 86.1 1.0 O5' B:C12 4.8 58.9 1.0 P B:C12 4.8 58.5 1.0 C6 B:A14 4.9 67.0 1.0 C8 B:A13 4.9 61.0 1.0

Magnesium binding site 3 out of 3 in the Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Human ARGONAUTE2 A481T Mutant Bound to T1-G Target Rna within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg101 b:39.6 occ:1.00 O D:HOH201 2.1 36.9 1.0 O4 D:U4 2.2 33.9 1.0 C4 D:U4 3.3 33.1 1.0 O6 D:G5 3.8 30.9 1.0 C5 D:U4 4.1 33.0 1.0 N3 D:U4 4.4 32.8 1.0 N6 D:A3 4.5 25.4 1.0 N6 B:A6 4.5 26.9 1.0 N4 B:C5 4.7 22.9 1.0 N7 D:A3 4.7 30.9 1.0 C6 D:G5 4.8 31.6 1.0

N.T.Schirle, J.Sheu-Gruttadauria, S.D.Chandradoss, C.Joo, I.J.Macrae. Water-Mediated Recognition of T1-Adenosine Anchors ARGONAUTE2 to Microrna Targets. Elife V. 4 2015.
ISSN: ESSN 2050-084X
PubMed: 26359634
DOI: 10.7554/ELIFE.07646