Magnesium in PDB 8uyh: Structure of Amp-Pnp-Bound Pediculus Humanus (pH) PINK1 Dimer

The binding sites of Magnesium atom in the Structure of Amp-Pnp-Bound Pediculus Humanus (pH) PINK1 Dimer (pdb code 8uyh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of Amp-Pnp-Bound Pediculus Humanus (pH) PINK1 Dimer, PDB code: 8uyh:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Structure of Amp-Pnp-Bound Pediculus Humanus (pH) PINK1 Dimer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Amp-Pnp-Bound Pediculus Humanus (pH) PINK1 Dimer within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg602 b:70.6 occ:1.00 N3B A:ANP601 2.2 94.0 1.0 O2B A:ANP601 2.3 93.5 1.0 PB A:ANP601 2.8 96.1 1.0 OD1 A:ASP357 3.0 72.4 1.0 OD2 A:ASP357 3.2 73.3 1.0 CG A:ASP357 3.5 71.3 1.0 O3A A:ANP601 3.8 93.6 1.0 PG A:ANP601 3.8 102.1 1.0 O1B A:ANP601 3.9 92.7 1.0 O3G A:ANP601 4.4 92.5 1.0 O1G A:ANP601 4.4 95.8 1.0 NZ A:LYS193 4.6 84.9 1.0 OG B:SER202 4.6 79.5 1.0 O1A A:ANP601 4.7 93.7 1.0 PA A:ANP601 4.8 100.9 1.0 OE2 A:GLU214 4.9 66.8 1.0 O2G A:ANP601 4.9 94.4 1.0 CB B:SER202 4.9 70.8 1.0

Magnesium binding site 2 out of 3 in the Structure of Amp-Pnp-Bound Pediculus Humanus (pH) PINK1 Dimer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Amp-Pnp-Bound Pediculus Humanus (pH) PINK1 Dimer within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg602 b:74.2 occ:1.00 O2B B:ANP601 2.1 86.0 1.0 N3B B:ANP601 3.0 84.3 1.0 PB B:ANP601 3.0 85.5 1.0 OD1 B:ASP357 3.4 65.7 1.0 OD2 B:ASP357 3.4 70.8 1.0 O1B B:ANP601 3.8 81.2 1.0 CG B:ASP357 3.8 69.4 1.0 O3A B:ANP601 4.3 82.0 1.0 CB A:SER202 4.6 73.1 1.0 PG B:ANP601 4.7 96.1 1.0 OG A:SER202 4.8 76.5 1.0 MG B:MG603 4.9 74.0 1.0

Magnesium binding site 3 out of 3 in the Structure of Amp-Pnp-Bound Pediculus Humanus (pH) PINK1 Dimer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Amp-Pnp-Bound Pediculus Humanus (pH) PINK1 Dimer within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg603 b:74.0 occ:1.00 OD2 B:ASP357 2.1 70.8 1.0 OD1 B:ASN339 2.6 72.8 1.0 CG B:ASP357 3.2 69.4 1.0 O3A B:ANP601 3.2 82.0 1.0 CB B:ASP357 3.5 56.2 1.0 O2A B:ANP601 3.6 80.9 1.0 CG B:ASN339 3.6 56.6 1.0 O B:ASP338 3.8 76.7 1.0 PA B:ANP601 3.9 86.4 1.0 O2B B:ANP601 3.9 86.0 1.0 PB B:ANP601 4.0 85.5 1.0 O1G B:ANP601 4.0 87.2 1.0 O5' B:ANP601 4.1 88.0 1.0 N3B B:ANP601 4.2 84.3 1.0 C5' B:ANP601 4.3 84.1 1.0 OD1 B:ASP357 4.3 65.7 1.0 CA B:ASN339 4.3 56.2 1.0 ND2 B:ASN339 4.4 67.9 1.0 C B:ASP338 4.5 73.3 1.0 CB B:ASN339 4.5 49.0 1.0 N B:ASN339 4.7 69.8 1.0 PG B:ANP601 4.7 96.1 1.0 MG B:MG602 4.9 74.2 1.0 CA B:ASP357 5.0 47.7 1.0

Z.Y.Gan, S.Callegari, T.N.Nguyen, N.S.Kirk, A.Leis, M.Lazarou, G.Dewson, D.Komander. Interaction of PINK1 with Nucleotides and Kinetin. Sci Adv V. 10 J7408 2024.
ISSN: ESSN 2375-2548
PubMed: 38241364
DOI: 10.1126/SCIADV.ADJ7408