Magnesium in PDB 9k6q: "Cryo-Em Structure of HAGO2D669A-Sirna-Target (14-Nt, Sesqui-Lobed)

The binding sites of Magnesium atom in the "Cryo-Em Structure of HAGO2D669A-Sirna-Target (14-Nt, Sesqui-Lobed) (pdb code 9k6q). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the "Cryo-Em Structure of HAGO2D669A-Sirna-Target (14-Nt, Sesqui-Lobed), PDB code: 9k6q:

Magnesium binding site 1 out of 1 in the "Cryo-Em Structure of HAGO2D669A-Sirna-Target (14-Nt, Sesqui-Lobed)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of "Cryo-Em Structure of HAGO2D669A-Sirna-Target (14-Nt, Sesqui-Lobed) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg901 b:31.6 occ:1.00 OD2 A:ASP597 2.5 9.4 1.0 OP2 C:G5 2.7 124.3 1.0 ND1 A:HIS807 3.2 2.0 1.0 CG A:ASP597 3.3 2.4 1.0 OP1 C:A4 3.5 126.2 1.0 OD1 A:ASP597 3.7 7.5 1.0 CE1 A:HIS807 3.9 0.0 1.0 P C:G5 4.0 131.9 1.0 O A:VAL598 4.0 0.1 1.0 CB A:THR599 4.1 11.8 1.0 CB A:ASP597 4.3 6.9 1.0 CG A:HIS807 4.3 0.1 1.0 C A:VAL598 4.4 8.2 1.0 CA A:THR599 4.4 15.3 1.0 N A:THR599 4.5 17.8 1.0 OP1 C:G5 4.5 124.2 1.0 CA A:HIS807 4.6 6.4 1.0 CB A:HIS807 4.6 2.5 1.0 C3' C:A4 4.7 123.5 1.0 CB A:ALA810 4.8 0.3 1.0 OG1 A:THR599 4.8 14.4 1.0 O3' C:A4 4.8 123.4 1.0 N A:VAL598 4.9 8.2 1.0 CE1 A:PHE811 4.9 6.6 1.0 P C:A4 5.0 119.8 1.0

Z.Li, Q.Xu, Y.Zhang, J.Zhong, T.Zhang, J.Xue, S.Liu, H.Gao, Z.Z.Z.Zhang, J.Wu, E.Z.Shen. Mechanistic Insights Into Rna Cleavage By Human ARGONAUTE2-Sirna Complex. Cell Res. V. 35 453 2025.
ISSN: ISSN 1001-0602
PubMed: 40240484
DOI: 10.1038/S41422-025-01114-7