Magnesium in PDB 9b3d: MDIA1 in the Middle of F-Actin

The binding sites of Magnesium atom in the MDIA1 in the Middle of F-Actin (pdb code 9b3d). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the MDIA1 in the Middle of F-Actin, PDB code: 9b3d:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the MDIA1 in the Middle of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of MDIA1 in the Middle of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:95.8 occ:1.00 O2A A:ADP401 2.1 106.7 1.0 O2B A:ADP401 2.2 106.7 1.0 O3A A:ADP401 2.4 106.7 1.0 PB A:ADP401 2.5 106.7 1.0 O3B A:ADP401 2.5 106.7 1.0 PA A:ADP401 2.7 106.7 1.0 CA A:GLY156 3.3 94.5 1.0 N A:ASP157 3.7 101.7 1.0 O1A A:ADP401 3.8 106.7 1.0 O5' A:ADP401 3.9 106.7 1.0 C A:GLY156 4.0 94.5 1.0 O1B A:ADP401 4.0 106.7 1.0 CA A:GLY13 4.3 112.2 1.0 N A:GLY156 4.4 94.5 1.0 NZ A:LYS18 4.6 116.1 1.0 N A:SER14 4.6 104.6 1.0 CA A:ASP157 4.9 101.7 1.0 CB A:ASP157 4.9 101.7 1.0 C A:GLY13 5.0 112.2 1.0

Magnesium binding site 2 out of 6 in the MDIA1 in the Middle of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of MDIA1 in the Middle of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:64.2 occ:1.00 O2B B:ADP401 3.5 74.7 1.0 O2A B:ADP401 3.8 74.7 1.0 OD2 B:ASP11 3.8 78.6 1.0 O3B B:ADP401 4.0 74.7 1.0 CA B:GLY156 4.0 61.3 1.0 OE1 B:GLN137 4.0 80.4 1.0 NE2 B:GLN137 4.3 80.4 1.0 PB B:ADP401 4.3 74.7 1.0 CA B:GLY13 4.3 78.8 1.0 OD1 B:ASP154 4.3 62.4 1.0 CD B:GLN137 4.4 80.4 1.0 OD1 B:ASP11 4.5 78.6 1.0 CG B:ASP11 4.5 78.6 1.0 N B:GLY156 4.7 61.3 1.0 NZ B:LYS18 4.7 80.0 1.0 O3A B:ADP401 4.8 74.7 1.0 PA B:ADP401 4.8 74.7 1.0 CE B:LYS18 4.9 80.0 1.0

Magnesium binding site 3 out of 6 in the MDIA1 in the Middle of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of MDIA1 in the Middle of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:61.9 occ:1.00 O3B C:ADP401 2.1 50.3 1.0 O2B C:ADP401 2.4 50.3 1.0 PB C:ADP401 2.7 50.3 1.0 OD2 C:ASP11 3.1 60.6 1.0 OE1 C:GLN137 3.2 69.0 1.0 OD1 C:ASP11 3.4 60.6 1.0 NE2 C:GLN137 3.4 69.0 1.0 CD C:GLN137 3.5 69.0 1.0 CG C:ASP11 3.6 60.6 1.0 O3A C:ADP401 3.8 50.3 1.0 O1B C:ADP401 3.8 50.3 1.0 CA C:GLY13 4.3 65.4 1.0 OD2 C:ASP154 4.4 61.4 1.0 CG C:GLN137 4.7 69.0 1.0 CE C:LYS18 4.8 54.1 1.0 CG1 C:VAL339 4.9 60.6 1.0 N C:GLY13 4.9 65.4 1.0 CG2 C:VAL339 5.0 60.6 1.0

Magnesium binding site 4 out of 6 in the MDIA1 in the Middle of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of MDIA1 in the Middle of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:58.0 occ:1.00 OD2 D:ASP11 3.1 71.5 1.0 O2B D:ADP401 3.4 90.8 1.0 O2A D:ADP401 3.5 90.8 1.0 CG D:ASP11 3.9 71.5 1.0 OD1 D:ASP11 3.9 71.5 1.0 OE1 D:GLN137 4.0 67.7 1.0 CA D:GLY13 4.4 73.0 1.0 NE2 D:GLN137 4.4 67.7 1.0 O3B D:ADP401 4.5 90.8 1.0 PB D:ADP401 4.5 90.8 1.0 CD D:GLN137 4.5 67.7 1.0 CA D:GLY156 4.6 65.2 1.0 PA D:ADP401 4.6 90.8 1.0 CE D:LYS18 4.6 64.1 1.0 OD2 D:ASP154 4.7 66.8 1.0 O3A D:ADP401 4.8 90.8 1.0 NZ D:LYS18 4.8 64.1 1.0 OD1 D:ASP154 5.0 66.8 1.0

Magnesium binding site 5 out of 6 in the MDIA1 in the Middle of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of MDIA1 in the Middle of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg402 b:57.4 occ:1.00 O2A E:ADP401 2.1 73.1 1.0 O3A E:ADP401 2.2 73.1 1.0 O2B E:ADP401 2.3 73.1 1.0 PB E:ADP401 2.4 73.1 1.0 O3B E:ADP401 2.5 73.1 1.0 PA E:ADP401 2.6 73.1 1.0 CA E:GLY156 3.3 68.9 1.0 O1A E:ADP401 3.7 73.1 1.0 O5' E:ADP401 3.8 73.1 1.0 N E:ASP157 3.8 70.1 1.0 C E:GLY156 3.9 68.9 1.0 O1B E:ADP401 4.0 73.1 1.0 CA E:GLY13 4.3 69.5 1.0 N E:GLY156 4.6 68.9 1.0 N E:SER14 4.6 73.8 1.0 NZ E:LYS18 4.6 74.4 1.0 C5' E:ADP401 4.9 73.1 1.0 CB E:ASP157 4.9 70.1 1.0 C E:GLY13 4.9 69.5 1.0 CA E:ASP157 5.0 70.1 1.0 O E:GLY156 5.0 68.9 1.0

Magnesium binding site 6 out of 6 in the MDIA1 in the Middle of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of MDIA1 in the Middle of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg402 b:109.5 occ:1.00 O3A F:ADP401 2.1 112.0 1.0 O2B F:ADP401 2.2 112.0 1.0 O2A F:ADP401 2.3 112.0 1.0 PB F:ADP401 2.5 112.0 1.0 PA F:ADP401 2.6 112.0 1.0 O3B F:ADP401 2.7 112.0 1.0 O1A F:ADP401 3.6 112.0 1.0 CA F:GLY156 3.6 113.6 1.0 O5' F:ADP401 3.9 112.0 1.0 O1B F:ADP401 3.9 112.0 1.0 C F:GLY156 4.5 113.6 1.0 OD2 F:ASP11 4.6 132.3 1.0 N F:ASP157 4.7 111.5 1.0 N F:GLY156 4.7 113.6 1.0 NZ F:LYS18 4.7 125.4 1.0 CA F:GLY301 4.8 122.0 1.0 CE F:LYS18 4.8 125.4 1.0 CA F:GLY13 5.0 117.4 1.0 N F:GLY302 5.0 118.1 1.0

N.J.Palmer, K.R.Barrie, R.Dominguez. Mechanisms of Actin Filament Severing and Elongation By Formins To Be Published.