Magnesium in PDB 9bmg: State-2 of Full-Length Human Dynein-1 in 5MM Atpvi

The structure of State-2 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-2 of Full-Length Human Dynein-1 in 5MM Atpvi (pdb code 9bmg). 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 Full-Length Human Dynein-1 in 5MM Atpvi, PDB code: 9bmg:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the State-2 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-2 of Full-Length Human Dynein-1 in 5MM Atpvi within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4705 b:29.2 occ:1.00 O2G A:ATP4702 2.0 61.2 1.0 OG A:SER2231 2.0 41.2 1.0 OE2 A:GLU2344 2.0 53.4 1.0 O2B A:ATP4702 2.7 52.3 1.0 CD A:GLU2344 3.2 54.8 1.0 OE2 A:GLU2688 3.3 47.3 1.0 CB A:SER2231 3.4 35.8 1.0 PG A:ATP4702 3.4 64.7 1.0 OD2 A:ASP2304 3.5 60.9 1.0 NH2 A:ARG2684 3.6 45.7 1.0 OE1 A:GLU2344 3.7 54.1 1.0 O3B A:ATP4702 3.7 46.7 1.0 PB A:ATP4702 3.8 47.6 1.0 NH2 A:ARG2726 3.9 49.6 1.0 OD1 A:ASP2304 4.2 65.9 1.0 O1A A:ATP4702 4.2 58.6 1.0 CD A:GLU2688 4.3 56.3 1.0 CG A:ASP2304 4.3 60.1 1.0 O1G A:ATP4702 4.3 48.4 1.0 O3G A:ATP4702 4.4 57.9 1.0 CA A:SER2231 4.4 32.5 1.0 OE1 A:GLU2688 4.4 55.6 1.0 N A:SER2231 4.4 40.1 1.0 CG A:GLU2344 4.4 41.0 1.0 O3A A:ATP4702 4.7 43.2 1.0 NH1 A:ARG2729 4.8 53.5 1.0 CZ A:ARG2684 4.9 50.0 1.0 O1B A:ATP4702 4.9 59.5 1.0

Magnesium binding site 2 out of 2 in the State-2 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-2 of Full-Length Human Dynein-1 in 5MM Atpvi within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4706 b:46.3 occ:1.00 O3B A:AOV4701 2.1 53.4 1.0 OG1 A:THR1913 2.1 47.1 1.0 O3G A:AOV4701 2.3 60.3 1.0 VG A:AOV4701 2.6 77.0 1.0 O4G A:AOV4701 3.1 51.4 1.0 CB A:THR1913 3.2 43.9 1.0 PB A:AOV4701 3.4 58.2 1.0 O2B A:AOV4701 3.5 47.4 1.0 OD1 A:ASP1958 3.7 60.3 1.0 NH2 A:ARG2358 3.9 50.5 1.0 O2A A:AOV4701 4.0 48.4 1.0 CG A:ASP1958 4.0 61.7 1.0 OG1 A:THR2017 4.1 51.3 1.0 N A:THR1913 4.1 50.6 1.0 O2G A:AOV4701 4.2 51.2 1.0 CG2 A:THR1913 4.2 52.0 1.0 OE2 A:GLU1959 4.2 65.2 1.0 CA A:THR1913 4.3 33.4 1.0 O1B A:AOV4701 4.3 57.5 1.0 CB A:ASP1958 4.4 50.2 1.0 O1A A:AOV4701 4.4 51.0 1.0 O3A A:AOV4701 4.4 59.1 1.0 O1G A:AOV4701 4.4 46.7 1.0 OD2 A:ASP2320 4.5 71.0 1.0 PA A:AOV4701 4.5 59.5 1.0 OD2 A:ASP1958 4.6 62.0 1.0 NH2 A:ARG2091 4.7 44.4 1.0 CZ A:ARG2358 5.0 49.5 1.0 CB A:THR2017 5.0 39.2 1.0

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