Magnesium in PDB 9di0: Cryo-Em Structure of KIF18A Bound to A Microtubule

All present enzymatic activity of Cryo-Em Structure of KIF18A Bound to A Microtubule:
2.1.1.63;

The binding sites of Magnesium atom in the Cryo-Em Structure of KIF18A Bound to A Microtubule (pdb code 9di0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em Structure of KIF18A Bound to A Microtubule, PDB code: 9di0:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of KIF18A Bound to A Microtubule


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 KIF18A Bound to A Microtubule within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg602 b:47.4 occ:1.00 OG1 A:THR120 2.0 49.9 1.0 CB A:THR120 2.4 53.2 1.0 NH2 A:ARG227 2.4 41.5 1.0 CG2 A:THR120 2.6 46.8 1.0 CZ A:ARG227 2.6 39.8 1.0 O3A A:ADP601 2.9 68.5 1.0 NH1 A:ARG227 3.0 41.6 1.0 CG2 A:THR224 3.0 59.6 1.0 NE A:ARG227 3.3 34.4 1.0 O2B A:ADP601 3.5 59.1 1.0 CB A:THR224 3.6 62.0 1.0 O1A A:ADP601 3.7 68.1 1.0 PA A:ADP601 3.9 74.7 1.0 PB A:ADP601 3.9 72.9 1.0 CA A:THR120 3.9 52.7 1.0 OG1 A:THR224 4.2 60.3 1.0 CD A:ARG227 4.3 40.4 1.0 O3B A:ADP601 4.5 58.9 1.0 N A:THR120 4.5 49.8 1.0 O2A A:ADP601 4.5 63.9 1.0 C A:THR120 4.8 50.0 1.0 NZ A:LYS119 4.9 46.8 1.0 OD2 A:ASP258 4.9 34.4 1.0 CA A:THR224 4.9 61.8 1.0 OE1 A:GLN216 4.9 54.5 1.0 NH2 A:ARG214 4.9 25.5 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of KIF18A Bound to A Microtubule


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of KIF18A Bound to A Microtubule within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg502 b:41.2 occ:1.00 OE2 L:GLU71 2.3 49.4 1.0 O1B L:GTP501 2.4 46.1 1.0 O1G L:GTP501 2.8 47.9 1.0 CD L:GLU71 3.4 47.4 1.0 PB L:GTP501 3.6 47.2 1.0 CG L:GLU71 3.8 42.0 1.0 O3B L:GTP501 3.8 44.0 1.0 PG L:GTP501 3.8 48.1 1.0 NZ K:LYS252 3.9 32.9 1.0 OD1 K:ASN247 4.0 46.5 1.0 OE1 L:GLN11 4.1 30.8 1.0 CB L:GLN11 4.2 20.3 1.0 O2B L:GTP501 4.4 36.6 1.0 O2G L:GTP501 4.4 41.6 1.0 OE1 L:GLU71 4.4 48.5 1.0 OD1 L:ASP69 4.6 41.7 1.0 OD2 L:ASP69 4.6 37.9 1.0 CB L:ASP98 4.6 45.9 1.0 CD L:GLN11 4.8 23.5 1.0 N L:GLN11 4.8 22.3 1.0 O3A L:GTP501 4.8 50.3 1.0 OD2 L:ASP98 4.9 49.2 1.0 O1A L:GTP501 4.9 34.5 1.0

J.M.Perez-Bertoldi, Y.Zhao, A.Thawani, A.Yildiz, E.Nogales. Hurp Regulates KIF18A Recruitment and Activity to Synergistically Control Microtubule Dynamics. Nat Commun V. 15 9687 2024.
ISSN: ESSN 2041-1723
PubMed: 39516196
DOI: 10.1038/S41467-024-53691-7