Magnesium in PDB 9jc1: Engineering of Atp Synthase

All present enzymatic activity of Engineering of Atp Synthase:
7.1.2.2;

The binding sites of Magnesium atom in the Engineering of Atp Synthase (pdb code 9jc1). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Engineering of Atp Synthase, PDB code: 9jc1:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Engineering of Atp Synthase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Engineering of Atp Synthase within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg601 b:63.9 occ:1.00 ND2 E:ASN253 2.7 32.6 1.0 O E:ASP252 3.1 50.2 1.0 OE1 E:GLU190 3.3 47.6 1.0 CD E:GLU190 3.7 46.8 1.0 CE E:LYS164 3.7 44.7 1.0 CG E:ASN253 3.8 32.9 1.0 OG1 E:THR165 4.1 60.0 1.0 CB E:LYS164 4.1 43.4 1.0 OD1 E:ASP252 4.1 48.9 1.0 OE2 E:GLU190 4.1 47.3 1.0 CB E:ASN253 4.2 28.4 1.0 C E:ASP252 4.3 39.7 1.0 CB E:ALA305 4.3 27.2 1.0 CG E:GLU190 4.4 42.4 1.0 CD E:LYS164 4.4 43.6 1.0 O2B E:ADP600 4.6 64.3 1.0 OD1 E:ASN253 4.7 36.8 1.0 NZ E:LYS164 4.8 52.2 1.0 N E:THR165 4.8 56.0 1.0 CG E:ASP252 4.8 57.9 1.0 CA E:ASN253 4.9 35.9 1.0 CG E:LYS164 4.9 44.7 1.0 N E:ASN253 5.0 37.7 1.0

Magnesium binding site 2 out of 4 in the Engineering of Atp Synthase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Engineering of Atp Synthase within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg601 b:83.0 occ:1.00 N I:LYS253 3.6 38.6 1.0 N I:GLY252 3.6 45.4 1.0 CA I:GLY252 4.0 42.8 1.0 CG I:LYS253 4.2 45.4 1.0 N I:THR251 4.3 54.4 1.0 NZ I:LYS253 4.3 35.2 1.0 C I:GLY252 4.3 42.8 1.0 N I:GLN250 4.4 60.8 1.0 CB I:LYS253 4.4 39.2 1.0 OG1 I:THR251 4.5 55.7 1.0 CA I:LYS253 4.6 35.2 1.0 N I:THR254 4.6 32.4 1.0 CE I:LYS253 4.7 33.4 1.0 C I:THR251 4.7 56.1 1.0 OG1 I:THR254 4.7 52.1 1.0 CA I:ARG249 4.9 46.4 1.0 O I:ASP248 4.9 53.0 1.0 CA I:THR251 5.0 51.9 1.0

Magnesium binding site 3 out of 4 in the Engineering of Atp Synthase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Engineering of Atp Synthase within 5.0Å range: probe atom residue distance (Å) B Occ J:Mg601 b:53.4 occ:1.00 OD1 J:ASP339 2.7 43.3 1.0 O J:ASP339 3.4 58.4 1.0 OE1 J:GLN278 3.6 46.9 1.0 OG1 J:THR254 3.8 45.5 1.0 OD1 J:ASP340 4.0 46.3 1.0 CG J:ASP339 4.0 49.4 1.0 CD J:GLN278 4.3 42.5 1.0 CD2 J:PHE396 4.3 32.3 1.0 NE2 J:GLN278 4.3 31.5 1.0 CG J:ASP340 4.3 45.0 1.0 CE J:LYS253 4.4 25.8 1.0 C J:ASP339 4.5 42.8 1.0 OD2 J:ASP340 4.5 47.6 1.0 OD2 J:ASP339 4.8 50.2 1.0 NZ J:LYS253 4.9 35.6 1.0 CB J:ASP339 4.9 41.1 1.0 CE2 J:PHE396 4.9 35.5 1.0

Magnesium binding site 4 out of 4 in the Engineering of Atp Synthase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Engineering of Atp Synthase within 5.0Å range: probe atom residue distance (Å) B Occ K:Mg601 b:71.1 occ:1.00 OG1 K:THR254 2.5 50.2 1.0 CB K:THR254 3.9 44.1 1.0 N K:THR254 4.0 36.0 1.0 CA K:THR254 4.5 39.7 1.0 CB K:LYS253 4.6 43.5 1.0 CG2 K:THR254 4.8 43.1 1.0 N K:LYS253 4.9 49.2 1.0 C K:LYS253 4.9 43.1 1.0

H.Ueno, K.Yasuda, N.Hamaguchi-Suzuki, R.Marui, N.Adachi, T.Senda, T.Murata, H.Noji. Engineering of Atp Synthase For Enhancement of Proton-to-Atp Ratio Nat Commun 2025.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-025-61227-W