Magnesium in PDB 6rza: Cryo-Em Structure of the Human Inner Arm Dynein DNAH7 Microtubule Binding Domain Bound to Microtubules

The binding sites of Magnesium atom in the Cryo-Em Structure of the Human Inner Arm Dynein DNAH7 Microtubule Binding Domain Bound to Microtubules (pdb code 6rza). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em Structure of the Human Inner Arm Dynein DNAH7 Microtubule Binding Domain Bound to Microtubules, PDB code: 6rza:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of the Human Inner Arm Dynein DNAH7 Microtubule Binding Domain Bound to Microtubules


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of the Human Inner Arm Dynein DNAH7 Microtubule Binding Domain Bound to Microtubules within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:42.5 occ:1.00 OE1 A:GLU71 2.1 0.7 1.0 O3G A:GTP501 2.2 91.5 1.0 O1B A:GTP501 2.3 95.0 1.0 O2G A:GTP501 2.5 0.0 1.0 PG A:GTP501 2.8 85.9 1.0 CD A:GLU71 3.1 0.6 1.0 PB A:GTP501 3.4 96.7 1.0 O3B A:GTP501 3.4 88.8 1.0 CB A:GLN11 3.5 59.9 1.0 CB A:GLU71 3.6 0.0 1.0 NE2 A:GLN11 3.6 53.1 1.0 OD2 A:ASP69 3.8 0.1 1.0 CG A:GLU71 3.9 0.9 1.0 OE2 A:GLU71 3.9 0.9 1.0 O3A A:GTP501 3.9 0.8 1.0 O1G A:GTP501 4.2 73.5 1.0 OD1 A:ASP69 4.2 0.6 1.0 N A:GLN11 4.2 0.4 1.0 CD A:GLN11 4.4 54.6 1.0 O1A A:GTP501 4.4 0.1 1.0 CA A:GLN11 4.4 85.5 1.0 NZ B:LYS252 4.4 46.5 1.0 CG A:ASP69 4.4 0.5 1.0 CG A:GLN11 4.5 52.0 1.0 CG2 A:VAL74 4.5 0.2 1.0 O2B A:GTP501 4.7 86.5 1.0 OD2 A:ASP98 4.8 0.9 1.0 OG1 A:THR145 4.8 73.9 1.0 PA A:GTP501 4.8 0.7 1.0 CB A:ASP98 4.9 0.1 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of the Human Inner Arm Dynein DNAH7 Microtubule Binding Domain Bound to Microtubules


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of the Human Inner Arm Dynein DNAH7 Microtubule Binding Domain Bound to Microtubules within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:47.0 occ:1.00 OE1 C:GLU71 2.1 0.7 1.0 O3G C:GTP501 2.2 92.1 1.0 O1B C:GTP501 2.3 0.2 1.0 O2G C:GTP501 2.5 0.7 1.0 PG C:GTP501 2.8 88.2 1.0 CD C:GLU71 3.1 0.8 1.0 PB C:GTP501 3.4 0.5 1.0 O3B C:GTP501 3.4 0.4 1.0 CB C:GLN11 3.5 55.5 1.0 CB C:GLU71 3.6 0.7 1.0 NE2 C:GLN11 3.6 36.6 1.0 OD2 C:ASP69 3.8 0.3 1.0 CG C:GLU71 3.9 0.3 1.0 OE2 C:GLU71 3.9 0.8 1.0 O3A C:GTP501 3.9 0.2 1.0 O1G C:GTP501 4.2 77.1 1.0 N C:GLN11 4.2 0.8 1.0 OD1 C:ASP69 4.2 0.5 1.0 CD C:GLN11 4.4 40.1 1.0 CA C:GLN11 4.4 84.4 1.0 O1A C:GTP501 4.4 0.4 1.0 CG C:ASP69 4.4 0.1 1.0 NZ D:LYS252 4.4 42.2 1.0 CG C:GLN11 4.5 43.2 1.0 CG2 C:VAL74 4.5 96.9 1.0 O2B C:GTP501 4.7 0.8 1.0 OD2 C:ASP98 4.8 0.9 1.0 OG1 C:THR145 4.8 80.0 1.0 PA C:GTP501 4.9 0.2 1.0 CB C:ASP98 4.9 0.9 1.0

S.E.Lacey, S.He, S.H.Scheres, A.P.Carter. Cryo-Em of Dynein Microtubule-Binding Domains Shows How An Axonemal Dynein Distorts the Microtubule. Elife V. 8 2019.
ISSN: ESSN 2050-084X
PubMed: 31264960
DOI: 10.7554/ELIFE.47145