Magnesium in PDB 9bmf: State-1(Phi Motor) of Full-Length Human Dynein-1 in 5MM Atpvi

The structure of State-1(Phi Motor) of Full-Length Human Dynein-1 in 5MM Atpvi also contains other interesting chemical elements:

Vanadium

(V)

1 atom

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

Magnesium binding site 1 out of 2 in the State-1(Phi Motor) of Full-Length Human Dynein-1 in 5MM Atpvi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of State-1(Phi Motor) of Full-Length Human Dynein-1 in 5MM Atpvi within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4705 b:27.0 occ:1.00 OG A:SER2231 2.0 39.9 1.0 O2G A:ATP4702 2.0 59.9 1.0 OE2 A:GLU2344 2.1 45.5 1.0 O2B A:ATP4702 2.9 55.9 1.0 OE2 A:GLU2688 3.2 49.1 1.0 CD A:GLU2344 3.2 40.4 1.0 CB A:SER2231 3.3 33.8 1.0 PG A:ATP4702 3.4 59.6 1.0 OD2 A:ASP2304 3.4 50.1 1.0 OE1 A:GLU2344 3.6 49.8 1.0 O3B A:ATP4702 3.7 53.3 1.0 NH2 A:ARG2684 3.7 37.4 1.0 PB A:ATP4702 3.9 34.7 1.0 O1A A:ATP4702 4.0 58.8 1.0 CD A:GLU2688 4.1 52.5 1.0 O3G A:ATP4702 4.1 58.9 1.0 CG A:ASP2304 4.3 50.6 1.0 OE1 A:GLU2688 4.3 52.6 1.0 OD1 A:ASP2304 4.4 49.6 1.0 CA A:SER2231 4.4 30.1 1.0 N A:SER2231 4.4 45.8 1.0 O1G A:ATP4702 4.5 56.3 1.0 CG A:GLU2344 4.5 26.4 1.0 NH2 A:ARG2726 4.5 41.7 1.0 NH1 A:ARG2729 4.5 40.5 1.0 O3A A:ATP4702 4.7 53.2 1.0 CZ A:ARG2684 4.9 38.8 1.0 PA A:ATP4702 5.0 45.1 1.0

Magnesium binding site 2 out of 2 in the State-1(Phi Motor) of Full-Length Human Dynein-1 in 5MM Atpvi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of State-1(Phi Motor) of Full-Length Human Dynein-1 in 5MM Atpvi within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4706 b:18.7 occ:1.00 CG2 A:THR1913 2.6 34.6 1.0 O3B A:AOV4701 2.6 45.1 1.0 O3G A:AOV4701 2.9 51.3 1.0 CB A:THR1913 3.2 28.1 1.0 VG A:AOV4701 3.4 51.3 1.0 O2B A:AOV4701 3.4 38.5 1.0 PB A:AOV4701 3.7 42.4 1.0 O4G A:AOV4701 3.8 49.5 1.0 NH2 A:ARG2358 3.8 39.7 1.0 CG A:ASP1958 3.9 51.2 1.0 O2A A:AOV4701 4.0 50.1 1.0 CG2 A:THR2017 4.0 43.8 1.0 OG1 A:THR1913 4.1 37.0 1.0 OD1 A:ASP1958 4.1 48.3 1.0 CB A:ASP1958 4.1 39.2 1.0 OD2 A:ASP1958 4.2 48.7 1.0 OD2 A:ASP2320 4.2 56.5 1.0 N A:THR1913 4.3 28.6 1.0 CA A:THR1913 4.4 28.5 1.0 O1A A:AOV4701 4.5 27.8 1.0 PA A:AOV4701 4.6 48.5 1.0 O3A A:AOV4701 4.7 49.2 1.0 CB A:THR2017 4.7 47.1 1.0 O1B A:AOV4701 4.7 40.7 1.0 NH2 A:ARG2091 4.9 37.0 1.0 CZ A:ARG2358 4.9 44.0 1.0

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