Magnesium in PDB 9bmy: State-1 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition

The binding sites of Magnesium atom in the State-1 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition (pdb code 9bmy). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the State-1 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition, PDB code: 9bmy:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the State-1 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of State-1 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4705 b:0.6 occ:1.00 OG1 A:THR1913 2.1 0.5 1.0 O3B A:ADP4701 2.1 0.4 1.0 CB A:THR1913 3.1 0.2 1.0 PB A:ADP4701 3.2 0.0 1.0 O1B A:ADP4701 3.3 0.7 1.0 N A:THR1913 3.8 0.1 1.0 NH2 A:ARG2358 3.8 1.3 1.0 O2A A:ADP4701 4.1 11.4 1.0 CA A:THR1913 4.1 0.1 1.0 CG2 A:THR1913 4.1 0.4 1.0 OD1 A:ASP1958 4.1 5.3 1.0 O3A A:ADP4701 4.2 0.7 1.0 O2B A:ADP4701 4.3 1.2 1.0 CG A:ASP1958 4.4 4.1 1.0 PA A:ADP4701 4.4 0.1 1.0 OG1 A:THR2017 4.4 3.6 1.0 O1A A:ADP4701 4.5 0.1 1.0 NH2 A:ARG2091 4.7 0.8 1.0 CB A:ASP1958 4.7 1.4 1.0 OE2 A:GLU1959 4.7 17.1 1.0 CB A:LYS1912 4.8 0.2 1.0 OD2 A:ASP1958 4.9 8.5 1.0 C A:LYS1912 4.9 0.1 1.0

Magnesium binding site 2 out of 2 in the State-1 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of State-1 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4706 b:0.0 occ:1.00 OE2 A:GLU2344 1.7 0.0 1.0 OG A:SER2231 2.0 0.1 1.0 O2G A:ATP4702 2.1 0.1 1.0 O2B A:ATP4702 2.1 0.0 1.0 CD A:GLU2344 2.8 0.0 1.0 O3B A:ATP4702 3.0 0.1 1.0 PG A:ATP4702 3.1 0.0 1.0 PB A:ATP4702 3.1 0.0 1.0 CB A:SER2231 3.1 0.0 1.0 OE1 A:GLU2344 3.3 0.1 1.0 O1A A:ATP4702 3.7 3.2 1.0 N A:SER2231 3.8 0.0 1.0 CA A:SER2231 3.9 0.0 1.0 CG A:GLU2344 4.0 0.0 1.0 O3G A:ATP4702 4.0 0.3 1.0 O3A A:ATP4702 4.1 0.0 1.0 OD2 A:ASP2304 4.1 0.3 1.0 O1G A:ATP4702 4.2 0.1 1.0 NH2 A:ARG2726 4.2 0.1 1.0 NH2 A:ARG2684 4.2 0.1 1.0 O1B A:ATP4702 4.2 0.1 1.0 PA A:ATP4702 4.5 0.0 1.0 OD1 A:ASP2304 4.6 0.2 1.0 NZ A:LYS2230 4.6 0.0 1.0 CG A:ASP2304 4.7 0.1 1.0 C A:LYS2230 4.9 0.0 1.0 NE A:ARG2726 4.9 0.1 1.0 CZ A:ARG2726 4.9 0.1 1.0 CE A:LYS2230 4.9 0.0 1.0 CB A:LYS2230 4.9 0.0 1.0

P.Chai, K.Zhang. Cryo-Em Reveals the Mechanochemical Cycle of Reactive Full-Length Human Dynein-1. To Be Published.