Magnesium in PDB 9bm1: State-3 of Motor Domain From Full-Length Human Dynein-1 in 5MM Atp

The binding sites of Magnesium atom in the State-3 of Motor Domain From Full-Length Human Dynein-1 in 5MM Atp (pdb code 9bm1). 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-3 of Motor Domain From Full-Length Human Dynein-1 in 5MM Atp, PDB code: 9bm1:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the State-3 of Motor Domain From Full-Length Human Dynein-1 in 5MM Atp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of State-3 of Motor Domain From Full-Length Human Dynein-1 in 5MM Atp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4705 b:14.8 occ:1.00 OG1 A:THR1913 2.3 24.9 1.0 CB A:THR1913 3.1 14.0 1.0 O3B A:ADP4701 3.3 22.4 1.0 O2B A:ADP4701 3.3 21.3 1.0 PB A:ADP4701 3.8 17.9 1.0 CG A:ASP1958 3.9 30.3 1.0 OD1 A:ASP1958 3.9 29.4 1.0 CG2 A:THR1913 4.0 18.6 1.0 OD2 A:ASP1958 4.0 33.7 1.0 NH2 A:ARG2358 4.0 29.1 1.0 N A:THR1913 4.2 12.0 1.0 OG1 A:THR2017 4.3 29.6 1.0 CA A:THR1913 4.3 9.8 1.0 O2A A:ADP4701 4.3 21.1 1.0 OD2 A:ASP2320 4.4 38.3 1.0 CB A:ASP1958 4.5 20.1 1.0 O1A A:ADP4701 4.7 15.3 1.0 O3A A:ADP4701 4.7 20.9 1.0 PA A:ADP4701 4.8 19.7 1.0 NH2 A:ARG2091 5.0 21.9 1.0

Magnesium binding site 2 out of 2 in the State-3 of Motor Domain From Full-Length Human Dynein-1 in 5MM Atp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of State-3 of Motor Domain From Full-Length Human Dynein-1 in 5MM Atp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4706 b:13.8 occ:1.00 OE2 A:GLU2344 1.7 16.0 1.0 O2G A:ATP4702 2.6 21.8 1.0 CB A:SER2231 2.7 16.4 1.0 CD A:GLU2344 2.8 17.4 1.0 O2B A:ATP4702 2.8 18.3 1.0 OE1 A:GLU2344 3.3 21.7 1.0 O1A A:ATP4702 3.4 22.0 1.0 OD2 A:ASP2304 3.5 29.9 1.0 OG A:SER2231 3.6 28.4 1.0 OE2 A:GLU2688 3.6 35.3 1.0 O3B A:ATP4702 3.7 17.6 1.0 CA A:SER2231 3.7 11.8 1.0 PG A:ATP4702 3.7 20.8 1.0 N A:SER2231 3.8 11.4 1.0 PB A:ATP4702 3.8 17.3 1.0 CG A:GLU2344 4.1 12.3 1.0 NH2 A:ARG2726 4.2 16.1 1.0 CG A:ASP2304 4.4 23.6 1.0 PA A:ATP4702 4.5 22.0 1.0 OD1 A:ASP2304 4.5 22.3 1.0 NH2 A:ARG2684 4.5 22.7 1.0 O3A A:ATP4702 4.6 17.3 1.0 CD A:GLU2688 4.6 35.5 1.0 O3G A:ATP4702 4.7 23.5 1.0 O1G A:ATP4702 4.8 21.8 1.0 O2A A:ATP4702 5.0 15.2 1.0 OE1 A:GLU2688 5.0 32.4 1.0 C A:LYS2230 5.0 11.5 1.0

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