Magnesium in PDB 9bmz: State-2 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition

The binding sites of Magnesium atom in the State-2 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition (pdb code 9bmz). 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-2 of Motor Domain From Full-Length Human Dynein-1 in Apo Condition, PDB code: 9bmz:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the State-2 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-2 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:30.0 occ:1.00 OG1 A:THR1913 1.4 11.7 1.0 O3B A:ADP4701 1.8 0.4 1.0 CB A:THR1913 2.5 8.3 1.0 PB A:ADP4701 3.3 0.0 1.0 CG2 A:THR1913 3.5 13.6 1.0 CA A:THR1913 3.6 5.8 1.0 N A:THR1913 3.6 7.1 1.0 OD1 A:ASP1958 3.9 19.4 1.0 O2B A:ADP4701 4.0 1.2 1.0 CG A:ASP1958 4.1 16.1 1.0 O3A A:ADP4701 4.1 0.7 1.0 O1B A:ADP4701 4.1 0.7 1.0 OG1 A:THR2017 4.1 14.9 1.0 NH2 A:ARG2358 4.2 9.8 1.0 O2A A:ADP4701 4.3 11.4 1.0 O1A A:ADP4701 4.4 0.1 1.0 CB A:ASP1958 4.4 7.8 1.0 PA A:ADP4701 4.4 0.1 1.0 OD2 A:ASP1958 4.5 16.0 1.0 C A:LYS1912 4.7 9.7 1.0 CE A:LYS1912 4.8 5.5 1.0 C A:THR1913 4.9 12.6 1.0 CB A:THR2017 4.9 7.3 1.0 CB A:LYS1912 4.9 4.2 1.0 OD2 A:ASP2320 5.0 6.4 1.0

Magnesium binding site 2 out of 2 in the State-2 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-2 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:10.7 occ:1.00 OG A:SER2231 1.3 19.4 1.0 OE2 A:GLU2344 1.9 7.5 1.0 O2B A:ATP4702 2.1 29.0 1.0 O2G A:ATP4702 2.6 31.3 1.0 CB A:SER2231 2.6 14.9 1.0 CD A:GLU2344 3.0 11.1 1.0 OE1 A:GLU2344 3.4 17.5 1.0 PB A:ATP4702 3.5 8.8 1.0 CA A:SER2231 3.7 8.4 1.0 O1A A:ATP4702 3.7 32.1 1.0 N A:SER2231 3.8 16.3 1.0 OD2 A:ASP2304 3.8 14.8 1.0 PG A:ATP4702 3.9 18.9 1.0 OE2 A:GLU2688 4.0 14.0 1.0 O3B A:ATP4702 4.1 25.4 1.0 CG A:GLU2344 4.3 11.8 1.0 NH2 A:ARG2726 4.4 3.0 1.0 O3A A:ATP4702 4.4 20.6 1.0 NH2 A:ARG2684 4.5 13.5 1.0 O1B A:ATP4702 4.6 30.9 1.0 PA A:ATP4702 4.6 16.6 1.0 CG A:ASP2304 4.7 16.6 1.0 O1G A:ATP4702 4.7 25.0 1.0 OD1 A:ASP2304 4.8 19.4 1.0 C A:LYS2230 4.9 10.2 1.0 CD A:GLU2688 5.0 16.7 1.0 C A:SER2231 5.0 11.0 1.0

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