Magnesium in PDB 7xrd: Cryo-Em Structure of ARF6 Helical Polymer Assembled on Lipid Membrane

The binding sites of Magnesium atom in the Cryo-Em Structure of ARF6 Helical Polymer Assembled on Lipid Membrane (pdb code 7xrd). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Cryo-Em Structure of ARF6 Helical Polymer Assembled on Lipid Membrane, PDB code: 7xrd:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Cryo-Em Structure of ARF6 Helical Polymer Assembled on Lipid Membrane


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 ARF6 Helical Polymer Assembled on Lipid Membrane within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg201 b:46.0 occ:1.00 OG1 A:THR27 2.0 49.0 1.0 OD2 A:ASP63 2.0 40.5 1.0 OD1 A:ASP63 2.1 40.5 1.0 CG A:ASP63 2.3 40.5 1.0 CB A:THR27 3.2 49.0 1.0 O2B A:GTP202 3.3 0.0 1.0 CA A:THR27 3.6 35.8 1.0 N A:THR27 3.6 35.8 1.0 CB A:ASP63 3.8 40.5 1.0 CG2 A:THR27 3.9 49.0 1.0 OG1 A:THR44 4.1 49.8 1.0 O1G A:GTP202 4.3 0.0 1.0 O A:ASP63 4.4 31.8 1.0 C A:LYS26 4.4 33.9 1.0 C A:ASP63 4.5 31.8 1.0 CB A:LYS26 4.5 48.5 1.0 CA A:ASP63 4.6 31.8 1.0 ND2 A:ASN48 4.6 44.9 1.0 CG2 A:THR44 4.7 49.8 1.0 PB A:GTP202 4.8 0.0 1.0 O A:VAL64 4.8 32.0 1.0 CB A:THR44 5.0 49.8 1.0

Magnesium binding site 2 out of 4 in the Cryo-Em Structure of ARF6 Helical Polymer Assembled on Lipid Membrane


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 ARF6 Helical Polymer Assembled on Lipid Membrane within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg201 b:42.4 occ:1.00 OD1 B:ASP22 2.1 55.4 1.0 OD2 B:ASP22 2.5 55.4 1.0 CG B:ASP22 2.6 55.4 1.0 O3B B:GTP202 3.3 0.0 1.0 O3G B:GTP202 3.7 0.0 1.0 CG B:PRO43 3.7 82.1 1.0 PG B:GTP202 3.9 0.0 1.0 CB B:PRO43 3.9 82.1 1.0 O2G B:GTP202 3.9 0.0 1.0 CB B:ASP22 4.1 55.4 1.0 N B:ALA23 4.1 39.9 1.0 O1B B:GTP202 4.4 0.0 1.0 PB B:GTP202 4.4 0.0 1.0 O5' B:GTP202 4.5 0.0 1.0 CA B:ASP22 4.7 43.5 1.0 CA B:ALA23 4.8 39.9 1.0 CA B:PRO43 4.8 48.1 1.0 O3A B:GTP202 4.8 0.0 1.0 C B:ASP22 4.9 43.5 1.0 O1A B:GTP202 4.9 0.0 1.0

Magnesium binding site 3 out of 4 in the Cryo-Em Structure of ARF6 Helical Polymer Assembled on Lipid Membrane


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 ARF6 Helical Polymer Assembled on Lipid Membrane within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg201 b:45.5 occ:1.00 OD1 C:ASP22 2.1 60.9 1.0 OD2 C:ASP22 2.3 60.9 1.0 CG C:ASP22 2.5 60.9 1.0 O2G C:GTP202 3.2 0.0 1.0 O3B C:GTP202 3.5 0.0 1.0 PG C:GTP202 3.9 0.0 1.0 CB C:ASP22 4.0 60.9 1.0 CG C:PRO43 4.1 88.2 1.0 CB C:PRO43 4.2 88.2 1.0 N C:ALA23 4.4 42.8 1.0 O1A C:GTP202 4.4 0.0 1.0 O3G C:GTP202 4.4 0.0 1.0 CA C:ASP22 4.7 47.8 1.0 PB C:GTP202 4.8 0.0 1.0 CA C:PRO43 4.8 51.6 1.0 O5' C:GTP202 4.9 0.0 1.0 CG C:GLN67 5.0 74.3 1.0

Magnesium binding site 4 out of 4 in the Cryo-Em Structure of ARF6 Helical Polymer Assembled on Lipid Membrane


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 ARF6 Helical Polymer Assembled on Lipid Membrane within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg201 b:44.4 occ:1.00 OD2 D:ASP63 2.0 43.1 1.0 OG1 D:THR27 2.0 46.5 1.0 OD1 D:ASP63 2.1 43.1 1.0 CG D:ASP63 2.3 43.1 1.0 O1G D:GTP202 2.7 0.0 1.0 CB D:THR27 3.2 46.5 1.0 CA D:THR27 3.4 34.0 1.0 N D:THR27 3.5 34.0 1.0 O2B D:GTP202 3.8 0.0 1.0 CB D:ASP63 3.9 43.1 1.0 CG2 D:THR27 3.9 46.5 1.0 PG D:GTP202 4.2 0.0 1.0 OG1 D:THR44 4.3 52.0 1.0 C D:LYS26 4.3 33.6 1.0 CG2 D:THR44 4.4 52.0 1.0 O D:ASP63 4.4 33.8 1.0 CB D:LYS26 4.5 48.1 1.0 C D:ASP63 4.6 33.8 1.0 ND2 D:ASN48 4.6 49.8 1.0 CA D:ASP63 4.7 33.8 1.0 O3G D:GTP202 4.9 0.0 1.0 O D:LYS26 4.9 33.6 1.0 O3B D:GTP202 4.9 0.0 1.0 C D:THR27 4.9 34.0 1.0 CA D:LYS26 5.0 33.6 1.0 CB D:THR44 5.0 52.0 1.0

X.Y.Pang, Y.Zhang, F.Sun, E.Egelman. Cryo-Em Structure of ARF6 Helical Polymer Assembled on Lipid Membrane To Be Published.