Magnesium in PDB 8znj: Cryo-Em Structure of A Short Prokaryotic Argonaute System From Archaeon Suldolobus Islandicus

The binding sites of Magnesium atom in the Cryo-Em Structure of A Short Prokaryotic Argonaute System From Archaeon Suldolobus Islandicus (pdb code 8znj). 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 A Short Prokaryotic Argonaute System From Archaeon Suldolobus Islandicus, PDB code: 8znj:

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of A Short Prokaryotic Argonaute System From Archaeon Suldolobus Islandicus


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 A Short Prokaryotic Argonaute System From Archaeon Suldolobus Islandicus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:59.1 occ:1.00 HZ1 A:LYS183 1.6 40.1 1.0 OP2 D:U1 1.9 60.1 1.0 P D:U1 2.3 59.1 1.0 NZ A:LYS183 2.4 37.3 1.0 HZ3 A:LYS183 2.7 42.1 1.0 OP1 D:U1 2.7 57.6 1.0 HZ1 A:LYS142 2.8 59.0 1.0 HZ2 A:LYS183 2.8 39.9 1.0 O A:LEU459 2.8 64.8 1.0 OE1 A:GLN179 3.5 38.0 1.0 NZ A:LYS142 3.5 57.9 1.0 CE A:LYS183 3.5 43.8 1.0 HZ2 A:LYS142 3.6 61.0 1.0 HE3 A:LYS183 3.6 43.2 1.0 HE22 A:GLN153 3.7 48.2 1.0 HE2 A:LYS183 3.7 43.8 1.0 HE3 A:LYS142 3.8 63.3 1.0 O5' D:U1 3.8 50.4 1.0 OE2 A:GLU419 3.9 61.2 1.0 OP1 D:A3 3.9 30.5 1.0 HA A:GLN153 3.9 47.6 1.0 C A:LEU459 4.0 57.2 1.0 HE2 A:HIS138 4.1 68.5 1.0 NE2 A:GLN153 4.1 47.3 1.0 CE A:LYS142 4.1 62.0 1.0 OE1 A:GLN153 4.1 42.3 1.0 HZ3 A:LYS142 4.2 59.5 1.0 H A:PHE154 4.3 49.2 1.0 HE2 A:LYS142 4.3 63.8 1.0 CD A:GLN153 4.4 43.8 1.0 HE22 A:GLN179 4.4 45.5 1.0 CD A:GLN179 4.5 41.8 1.0 HH11 A:ARG436 4.6 55.3 1.0 HE21 A:GLN153 4.6 47.7 1.0 O A:THR152 4.6 49.4 1.0 HH12 A:ARG436 4.8 56.5 1.0 HB3 A:LEU459 4.8 50.5 1.0 C5' D:U1 4.9 62.7 1.0 CD A:LYS183 4.9 40.8 1.0 NE2 A:GLN179 4.9 44.4 1.0 H5'' D:U1 4.9 62.2 1.0 NE2 A:HIS138 4.9 67.5 1.0 CA A:GLN153 4.9 45.1 1.0 H5' D:U1 5.0 62.7 1.0

Z.Dai, Y.Chen, Z.Guan, X.Chen, K.Tan, K.Yang, X.Yan, Y.Liu, Z.Gong, W.Han, T.Zou. Structural and Mechanistic Insights Into the Activation of A Short Prokaryotic Argonaute System From Archaeon Sulfolobus Islandicus. Nucleic Acids Res. V. 53 2025.
ISSN: ESSN 1362-4962
PubMed: 39898546
DOI: 10.1093/NAR/GKAF059