Magnesium in PDB 8dzg: Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp

The structure of Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp also contains other interesting chemical elements:

Zinc

(Zn)

6 atoms

The binding sites of Magnesium atom in the Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp (pdb code 8dzg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp, PDB code: 8dzg:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp


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 Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:43.4 occ:1.00 O2B A:ADP602 2.1 20.0 1.0 OG A:SER267 2.2 43.8 1.0 PB A:ADP602 3.4 20.0 1.0 O1B A:ADP602 3.6 20.0 1.0 CB A:SER267 3.6 43.8 1.0 OE2 A:GLU295 3.7 73.0 1.0 O3B A:ADP602 4.3 20.0 1.0 N A:SER267 4.4 43.8 1.0 O3A A:ADP602 4.4 20.0 1.0 CA A:SER267 4.5 43.8 1.0 CD A:GLU295 4.9 73.0 1.0

Magnesium binding site 2 out of 6 in the Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp


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 Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:41.8 occ:1.00 O2B B:ADP602 2.1 20.0 1.0 OG B:SER267 2.2 43.1 1.0 PB B:ADP602 3.4 20.0 1.0 O1B B:ADP602 3.6 20.0 1.0 CB B:SER267 3.6 43.1 1.0 OE2 B:GLU295 3.7 71.6 1.0 O3B B:ADP602 4.3 20.0 1.0 N B:SER267 4.4 43.1 1.0 O3A B:ADP602 4.4 20.0 1.0 CA B:SER267 4.5 43.1 1.0 CD B:GLU295 4.9 71.6 1.0

Magnesium binding site 3 out of 6 in the Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg601 b:40.0 occ:1.00 O2B C:ADP602 2.1 20.0 1.0 OG C:SER267 2.2 42.8 1.0 PB C:ADP602 3.4 20.0 1.0 O1B C:ADP602 3.6 20.0 1.0 CB C:SER267 3.6 42.8 1.0 OE2 C:GLU295 3.7 72.5 1.0 O3B C:ADP602 4.3 20.0 1.0 N C:SER267 4.4 42.8 1.0 O3A C:ADP602 4.4 20.0 1.0 CA C:SER267 4.5 42.8 1.0 CD C:GLU295 4.9 72.5 1.0

Magnesium binding site 4 out of 6 in the Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg601 b:43.3 occ:1.00 O2B D:ADP602 2.1 20.0 1.0 OG D:SER267 2.2 43.2 1.0 PB D:ADP602 3.4 20.0 1.0 O1B D:ADP602 3.6 20.0 1.0 CB D:SER267 3.6 43.2 1.0 OE2 D:GLU295 3.7 72.2 1.0 O3B D:ADP602 4.3 20.0 1.0 N D:SER267 4.4 43.2 1.0 O3A D:ADP602 4.4 20.0 1.0 CA D:SER267 4.5 43.2 1.0 CD D:GLU295 4.9 72.2 1.0

Magnesium binding site 5 out of 6 in the Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg601 b:41.4 occ:1.00 O2B E:ADP602 2.1 20.0 1.0 OG E:SER267 2.2 43.3 1.0 PB E:ADP602 3.4 20.0 1.0 O1B E:ADP602 3.6 20.0 1.0 CB E:SER267 3.6 43.3 1.0 OE2 E:GLU295 3.7 71.6 1.0 O3B E:ADP602 4.3 20.0 1.0 N E:SER267 4.4 43.3 1.0 O3A E:ADP602 4.4 20.0 1.0 CA E:SER267 4.5 43.3 1.0 CD E:GLU295 4.9 71.6 1.0

Magnesium binding site 6 out of 6 in the Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of Bundle-Forming Pilus Extension Atpase From E.Coli in the Presence of Adp within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg601 b:40.2 occ:1.00 O2B F:ADP602 2.1 20.0 1.0 OG F:SER267 2.2 42.5 1.0 PB F:ADP602 3.4 20.0 1.0 O1B F:ADP602 3.6 20.0 1.0 CB F:SER267 3.6 42.5 1.0 OE2 F:GLU295 3.7 72.6 1.0 O3B F:ADP602 4.3 20.0 1.0 N F:SER267 4.4 42.5 1.0 O3A F:ADP602 4.4 20.0 1.0 CA F:SER267 4.5 42.5 1.0 CD F:GLU295 4.9 72.6 1.0

A.R.Nayak, P.K.Singh, J.Zhao, M.Samso, M.S.Donnenberg. Cryo-Em Structure of the Type IV Pilus Extension Atpase From Enteropathogenic Escherichia Coli. Mbio V. 13 2022.
ISSN: ESSN 2150-7511
PubMed: 36326250
DOI: 10.1128/MBIO.02270-22