Magnesium in PDB 8io8: Cryo-Em Structure of Cyanobacteria Phosphoketolase Complexed with Amppnpin Dimeric Assembly

The binding sites of Magnesium atom in the Cryo-Em Structure of Cyanobacteria Phosphoketolase Complexed with Amppnpin Dimeric Assembly (pdb code 8io8). 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 Cyanobacteria Phosphoketolase Complexed with Amppnpin Dimeric Assembly, PDB code: 8io8:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of Cyanobacteria Phosphoketolase Complexed with Amppnpin Dimeric Assembly


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 Cyanobacteria Phosphoketolase Complexed with Amppnpin Dimeric Assembly within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg803 b:76.9 occ:1.00 OD1 A:ASP178 2.1 73.3 1.0 O1A A:TPP802 2.1 82.0 1.0 O A:TYR213 2.1 78.9 1.0 O2B A:TPP802 2.1 82.0 1.0 OD1 A:ASN211 2.1 72.3 1.0 CG A:ASN211 3.0 72.3 1.0 CG A:ASP178 3.0 73.3 1.0 PB A:TPP802 3.2 82.0 1.0 ND2 A:ASN211 3.2 72.3 1.0 C A:TYR213 3.3 78.9 1.0 PA A:TPP802 3.3 82.0 1.0 OD2 A:ASP178 3.4 73.3 1.0 O3A A:TPP802 3.4 82.0 1.0 O3B A:TPP802 3.6 82.0 1.0 N A:TYR213 4.0 78.9 1.0 N A:ASP178 4.0 73.3 1.0 N A:GLY179 4.1 73.4 1.0 CA A:LYS214 4.1 80.8 1.0 N A:LYS214 4.1 80.8 1.0 O7 A:TPP802 4.2 82.0 1.0 NZ A:LYS293 4.3 74.8 1.0 CA A:TYR213 4.3 78.9 1.0 O A:HIS209 4.3 66.5 1.0 CB A:ASP178 4.4 73.3 1.0 CG2 A:THR219 4.4 77.6 1.0 CB A:ASN211 4.4 72.3 1.0 O2A A:TPP802 4.4 82.0 1.0 O1B A:TPP802 4.5 82.0 1.0 N A:ASN211 4.5 72.3 1.0 CA A:ASP178 4.6 73.3 1.0 N A:GLY212 4.7 74.8 1.0 C A:ASP178 4.8 73.3 1.0 CE A:LYS293 4.8 74.8 1.0 CA A:ASN211 4.8 72.3 1.0 CD A:LYS293 4.8 74.8 1.0 CB A:LYS214 4.9 80.8 1.0 C A:GLY177 4.9 68.9 1.0 C A:ASN211 4.9 72.3 1.0 CA A:GLY179 5.0 73.4 1.0 CA A:GLY177 5.0 68.9 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Cyanobacteria Phosphoketolase Complexed with Amppnpin Dimeric Assembly


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 Cyanobacteria Phosphoketolase Complexed with Amppnpin Dimeric Assembly within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg803 b:76.6 occ:1.00 OD1 B:ASP178 2.0 74.0 1.0 O B:TYR213 2.0 78.8 1.0 O3B B:TPP802 2.0 83.2 1.0 OD1 B:ASN211 2.2 72.3 1.0 O2A B:TPP802 2.4 83.2 1.0 PB B:TPP802 2.8 83.2 1.0 CG B:ASP178 3.0 74.0 1.0 O2B B:TPP802 3.1 83.2 1.0 CG B:ASN211 3.1 72.3 1.0 C B:TYR213 3.2 78.8 1.0 O3A B:TPP802 3.2 83.2 1.0 ND2 B:ASN211 3.3 72.3 1.0 OD2 B:ASP178 3.3 74.0 1.0 PA B:TPP802 3.4 83.2 1.0 CA B:LYS214 4.0 81.7 1.0 N B:LYS214 4.0 81.7 1.0 N B:TYR213 4.1 78.8 1.0 N B:ASP178 4.1 74.0 1.0 N B:GLY179 4.1 74.2 1.0 NZ B:LYS293 4.2 73.9 1.0 O1B B:TPP802 4.3 83.2 1.0 CA B:TYR213 4.3 78.8 1.0 CB B:ASP178 4.4 74.0 1.0 O7 B:TPP802 4.4 83.2 1.0 CG2 B:THR219 4.4 77.8 1.0 O1A B:TPP802 4.5 83.2 1.0 O B:HIS209 4.5 66.9 1.0 CB B:ASN211 4.5 72.3 1.0 CE B:LYS293 4.7 73.9 1.0 CA B:ASP178 4.7 74.0 1.0 N B:ASN211 4.7 72.3 1.0 N B:GLY212 4.8 75.4 1.0 CB B:LYS214 4.8 81.7 1.0 CD B:LYS293 4.8 73.9 1.0 C B:ASP178 4.9 74.0 1.0 CA B:ASN211 5.0 72.3 1.0 O B:LYS214 5.0 81.7 1.0 C B:GLY177 5.0 69.6 1.0

C.-W.Chang, M.-D.Tsai. An Atp-Sensitive Phosphoketolase Regulates Carbon Fixation in Cyanobacteria. Nat Metab 2023.
ISSN: ISSN 2522-5812
DOI: 10.1038/S42255-023-00831-W