Magnesium in PDB 9b3i: Cryo-Em Structure of Yeast (NAP1)2-H2A-H2B-KAP114-Rangtp

The binding sites of Magnesium atom in the Cryo-Em Structure of Yeast (NAP1)2-H2A-H2B-KAP114-Rangtp (pdb code 9b3i). 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 Yeast (NAP1)2-H2A-H2B-KAP114-Rangtp, PDB code: 9b3i:

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of Yeast (NAP1)2-H2A-H2B-KAP114-Rangtp


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 Yeast (NAP1)2-H2A-H2B-KAP114-Rangtp within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg201 b:41.1 occ:1.00 O1G D:GTP202 1.8 41.0 1.0 O3A D:GTP202 2.0 41.0 1.0 O2A D:GTP202 2.2 41.0 1.0 PA D:GTP202 2.5 41.0 1.0 PB D:GTP202 2.9 41.0 1.0 PG D:GTP202 2.9 41.0 1.0 CE1 D:TYR41 3.0 49.7 1.0 O3B D:GTP202 3.0 41.0 1.0 O2B D:GTP202 3.0 41.0 1.0 O D:ILE42 3.4 47.8 1.0 O1A D:GTP202 3.4 41.0 1.0 CD1 D:TYR41 3.5 49.7 1.0 OG1 D:THR26 3.5 44.0 1.0 O5' D:GTP202 3.8 41.0 1.0 O3G D:GTP202 3.8 41.0 1.0 O2G D:GTP202 4.0 41.0 1.0 CA D:ALA43 4.0 45.9 1.0 N D:THR44 4.1 46.1 1.0 CZ D:TYR41 4.1 49.7 1.0 C D:ILE42 4.1 47.8 1.0 CB D:THR26 4.2 44.0 1.0 O1B D:GTP202 4.2 41.0 1.0 OG1 D:THR44 4.3 46.1 1.0 OH D:TYR41 4.4 49.7 1.0 N D:ALA43 4.5 45.9 1.0 C D:ALA43 4.5 45.9 1.0 N D:GLY22 4.8 42.4 1.0 CG D:TYR41 4.9 49.7 1.0 N D:THR26 4.9 44.0 1.0 CA D:GLY22 5.0 42.4 1.0 CB D:THR44 5.0 46.1 1.0 N D:ILE42 5.0 47.8 1.0

H.Y.J.Fung, J.Jiou, A.B.Neisman, N.E.Bernardes, Y.M.Chook. NAP1 and KAP114 Co-Chaperone H2A-H2B and Facilitate Targeted Histone Release in the Nucleus J.Cell Biol. 2024.
ISSN: ESSN 1540-8140
DOI: 10.1083/JCB.202408193