Magnesium in PDB 5jyg: Cryo-Em Structure of the Mamk Filament at 6.5 A

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>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of the Mamk Filament at 6.5 A (pdb code 5jyg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 14 binding sites of Magnesium where determined in the Cryo-Em Structure of the Mamk Filament at 6.5 A, PDB code: 5jyg:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


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 the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:0.0 occ:1.00 O3B A:ADP402 2.5 0.0 1.0 O2A A:ADP402 3.4 0.0 1.0 OD2 A:ASP161 3.6 0.0 1.0 PB A:ADP402 3.7 0.0 1.0 OE1 A:GLU143 3.7 0.0 1.0 O1B A:ADP402 3.8 0.0 1.0 CD A:GLU143 4.1 0.0 1.0 OE2 A:GLU143 4.1 0.0 1.0 OD1 A:ASP17 4.2 0.0 1.0 CG A:ASP161 4.4 0.0 1.0 PA A:ADP402 4.4 0.0 1.0 OD1 A:ASP161 4.4 0.0 1.0 O3A A:ADP402 4.5 0.0 1.0 O A:LEU18 4.9 0.0 1.0 O2B A:ADP402 5.0 0.0 1.0

Magnesium binding site 2 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


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 the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg401 b:0.0 occ:1.00 OE1 B:GLU143 3.1 0.0 1.0 O2B B:ADP402 3.2 0.0 1.0 OE2 B:GLU143 3.2 0.0 1.0 O3B B:ADP402 3.2 0.0 1.0 CD B:GLU143 3.3 0.0 1.0 OD2 B:ASP161 3.7 0.0 1.0 PB B:ADP402 3.7 0.0 1.0 OD1 B:ASP17 4.0 0.0 1.0 O2A B:ADP402 4.2 0.0 1.0 OD1 B:ASP161 4.3 0.0 1.0 CG B:ASP161 4.4 0.0 1.0 CG B:GLU143 4.4 0.0 1.0 CA B:GLY19 4.4 0.0 1.0 OD2 B:ASP17 4.8 0.0 1.0 O1B B:ADP402 4.8 0.0 1.0 CG B:ASP17 4.8 0.0 1.0 O3A B:ADP402 4.9 0.0 1.0 CB B:GLU143 5.0 0.0 1.0

Magnesium binding site 3 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


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 the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg401 b:0.0 occ:1.00 O3B C:ADP402 2.6 0.0 1.0 OE1 C:GLU143 3.3 0.0 1.0 PB C:ADP402 3.7 0.0 1.0 CD C:GLU143 3.9 0.0 1.0 O2B C:ADP402 4.0 0.0 1.0 OD1 C:ASP17 4.1 0.0 1.0 O3A C:ADP402 4.1 0.0 1.0 OE2 C:GLU143 4.2 0.0 1.0 O2A C:ADP402 4.3 0.0 1.0 OG1 C:THR166 4.5 0.0 1.0 OD2 C:ASP17 4.7 0.0 1.0 PA C:ADP402 4.7 0.0 1.0 OD2 C:ASP161 4.8 0.0 1.0 CG C:ASP17 4.8 0.0 1.0 CG C:GLU143 5.0 0.0 1.0

Magnesium binding site 4 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


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 the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg401 b:0.0 occ:1.00 O3B D:ADP402 2.5 0.0 1.0 OE1 D:GLU143 3.2 0.0 1.0 OE2 D:GLU143 3.3 0.0 1.0 O2A D:ADP402 3.4 0.0 1.0 CD D:GLU143 3.4 0.0 1.0 OD2 D:ASP161 3.5 0.0 1.0 O D:LEU18 3.7 0.0 1.0 PB D:ADP402 4.0 0.0 1.0 OD1 D:ASP17 4.3 0.0 1.0 CG D:ASP161 4.4 0.0 1.0 PA D:ADP402 4.4 0.0 1.0 OD1 D:ASP161 4.5 0.0 1.0 CG D:GLU143 4.5 0.0 1.0 O3A D:ADP402 4.6 0.0 1.0 O2B D:ADP402 4.8 0.0 1.0 O1A D:ADP402 4.8 0.0 1.0 C D:LEU18 4.9 0.0 1.0 CA D:GLY19 5.0 0.0 1.0 O1B D:ADP402 5.0 0.0 1.0

Magnesium binding site 5 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


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 the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg401 b:0.0 occ:1.00 O3B E:ADP402 2.5 0.0 1.0 O2A E:ADP402 3.4 0.0 1.0 OD2 E:ASP161 3.6 0.0 1.0 PB E:ADP402 3.7 0.0 1.0 OE1 E:GLU143 3.7 0.0 1.0 O1B E:ADP402 3.8 0.0 1.0 CD E:GLU143 4.1 0.0 1.0 OE2 E:GLU143 4.1 0.0 1.0 OD1 E:ASP17 4.2 0.0 1.0 CG E:ASP161 4.4 0.0 1.0 PA E:ADP402 4.4 0.0 1.0 OD1 E:ASP161 4.4 0.0 1.0 O3A E:ADP402 4.5 0.0 1.0 O E:LEU18 4.9 0.0 1.0 O2B E:ADP402 5.0 0.0 1.0

Magnesium binding site 6 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


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 the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg401 b:0.0 occ:1.00 OE1 F:GLU143 3.1 0.0 1.0 O2B F:ADP402 3.2 0.0 1.0 OE2 F:GLU143 3.2 0.0 1.0 O3B F:ADP402 3.2 0.0 1.0 CD F:GLU143 3.3 0.0 1.0 OD2 F:ASP161 3.7 0.0 1.0 PB F:ADP402 3.7 0.0 1.0 OD1 F:ASP17 4.0 0.0 1.0 O2A F:ADP402 4.2 0.0 1.0 OD1 F:ASP161 4.3 0.0 1.0 CG F:ASP161 4.4 0.0 1.0 CG F:GLU143 4.4 0.0 1.0 CA F:GLY19 4.4 0.0 1.0 OD2 F:ASP17 4.8 0.0 1.0 O1B F:ADP402 4.8 0.0 1.0 CG F:ASP17 4.8 0.0 1.0 O3A F:ADP402 4.9 0.0 1.0 CB F:GLU143 5.0 0.0 1.0

Magnesium binding site 7 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryo-Em Structure of the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg401 b:0.0 occ:1.00 O3B G:ADP402 2.6 0.0 1.0 OE1 G:GLU143 3.3 0.0 1.0 PB G:ADP402 3.7 0.0 1.0 CD G:GLU143 3.9 0.0 1.0 O2B G:ADP402 4.0 0.0 1.0 OD1 G:ASP17 4.1 0.0 1.0 O3A G:ADP402 4.1 0.0 1.0 OE2 G:GLU143 4.2 0.0 1.0 O2A G:ADP402 4.3 0.0 1.0 OG1 G:THR166 4.5 0.0 1.0 OD2 G:ASP17 4.7 0.0 1.0 PA G:ADP402 4.7 0.0 1.0 OD2 G:ASP161 4.8 0.0 1.0 CG G:ASP17 4.8 0.0 1.0 CG G:GLU143 5.0 0.0 1.0

Magnesium binding site 8 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryo-Em Structure of the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg401 b:0.0 occ:1.00 O3B H:ADP402 2.6 0.0 1.0 OE1 H:GLU143 3.3 0.0 1.0 PB H:ADP402 3.7 0.0 1.0 CD H:GLU143 3.9 0.0 1.0 O2B H:ADP402 4.0 0.0 1.0 OD1 H:ASP17 4.1 0.0 1.0 O3A H:ADP402 4.1 0.0 1.0 OE2 H:GLU143 4.2 0.0 1.0 O2A H:ADP402 4.3 0.0 1.0 OG1 H:THR166 4.5 0.0 1.0 OD2 H:ASP17 4.7 0.0 1.0 PA H:ADP402 4.7 0.0 1.0 OD2 H:ASP161 4.8 0.0 1.0 CG H:ASP17 4.8 0.0 1.0 CG H:GLU143 5.0 0.0 1.0

Magnesium binding site 9 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryo-Em Structure of the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg401 b:0.0 occ:1.00 O3B I:ADP402 2.5 0.0 1.0 OE1 I:GLU143 3.2 0.0 1.0 OE2 I:GLU143 3.3 0.0 1.0 O2A I:ADP402 3.4 0.0 1.0 CD I:GLU143 3.4 0.0 1.0 OD2 I:ASP161 3.5 0.0 1.0 O I:LEU18 3.7 0.0 1.0 PB I:ADP402 4.0 0.0 1.0 OD1 I:ASP76 4.2 0.0 1.0 OD1 I:ASP17 4.3 0.0 1.0 CG I:ASP161 4.4 0.0 1.0 PA I:ADP402 4.4 0.0 1.0 OD1 I:ASP161 4.5 0.0 1.0 CG I:GLU143 4.5 0.0 1.0 O3A I:ADP402 4.6 0.0 1.0 O2B I:ADP402 4.8 0.0 1.0 O1A I:ADP402 4.8 0.0 1.0 C I:LEU18 4.9 0.0 1.0 CA I:GLY19 5.0 0.0 1.0 O1B I:ADP402 5.0 0.0 1.0

Magnesium binding site 10 out of 14 in the Cryo-Em Structure of the Mamk Filament at 6.5 A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryo-Em Structure of the Mamk Filament at 6.5 A within 5.0Å range: probe atom residue distance (Å) B Occ J:Mg401 b:0.0 occ:1.00 O3B J:ADP402 2.5 0.0 1.0 O2A J:ADP402 3.4 0.0 1.0 OD2 J:ASP161 3.6 0.0 1.0 PB J:ADP402 3.7 0.0 1.0 OE1 J:GLU143 3.7 0.0 1.0 O1B J:ADP402 3.8 0.0 1.0 CD J:GLU143 4.1 0.0 1.0 OE2 J:GLU143 4.1 0.0 1.0 OD1 J:ASP17 4.2 0.0 1.0 CG J:ASP161 4.4 0.0 1.0 PA J:ADP402 4.4 0.0 1.0 OD1 J:ASP161 4.4 0.0 1.0 O3A J:ADP402 4.5 0.0 1.0 O J:LEU18 4.9 0.0 1.0 O2B J:ADP402 5.0 0.0 1.0

J.R.Bergeron, R.Hutto, E.Ozyamak, N.Hom, J.Hansen, O.Draper, M.E.Byrne, S.Keyhani, A.Komeili, J.M.Kollman. Structure of the Magnetosome-Associated Actin-Like Mamk Filament at Subnanometer Resolution. Protein Sci. V. 26 93 2017.
ISSN: ESSN 1469-896X
PubMed: 27391173
DOI: 10.1002/PRO.2979