Magnesium in PDB 7a5e: Osm-3 Kinesin Motor Domain Complexed with Mg.Amppnp

The structure of Osm-3 Kinesin Motor Domain Complexed with Mg.Amppnp, PDB code: 7a5e was solved by F.P.Varela, J.Menetrey, B.Gigant, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.04 / 1.90
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	100.03, 102.2, 140.95, 90, 90, 90
R / Rfree (%)	20.7 / 23.1

The binding sites of Magnesium atom in the Osm-3 Kinesin Motor Domain Complexed with Mg.Amppnp (pdb code 7a5e). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Osm-3 Kinesin Motor Domain Complexed with Mg.Amppnp, PDB code: 7a5e:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Osm-3 Kinesin Motor Domain Complexed with Mg.Amppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Osm-3 Kinesin Motor Domain Complexed with Mg.Amppnp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:55.5 occ:1.00 O2B A:ANP401 1.9 51.3 1.0 OG1 A:THR94 2.1 54.2 1.0 O A:HOH511 2.1 54.5 1.0 O3G A:ANP401 2.2 55.1 1.0 OG A:SER204 2.2 55.1 1.0 O A:HOH505 2.3 56.2 1.0 CB A:THR94 3.0 54.2 1.0 PB A:ANP401 3.2 53.4 1.0 PG A:ANP401 3.4 55.9 1.0 CB A:SER204 3.4 55.1 1.0 N3B A:ANP401 3.5 54.5 1.0 N A:THR94 3.8 51.0 1.0 N A:SER204 3.9 56.8 1.0 O1A A:ANP401 3.9 54.6 1.0 CA A:THR94 4.0 52.7 1.0 O3A A:ANP401 4.1 54.6 1.0 CG2 A:THR94 4.1 55.1 1.0 O1G A:ANP401 4.2 56.2 1.0 OD1 A:ASP232 4.2 49.7 1.0 OD2 A:ASP232 4.2 52.1 1.0 O A:HOH542 4.2 48.6 1.0 CA A:SER204 4.3 55.4 1.0 O1B A:ANP401 4.3 53.0 1.0 PA A:ANP401 4.4 55.3 1.0 O2G A:ANP401 4.5 55.4 1.0 O2A A:ANP401 4.5 54.3 1.0 CG A:ASP232 4.6 50.1 1.0 O A:ASP202 4.7 67.0 1.0 ND2 A:ASN200 4.7 72.0 1.0 CB A:LYS93 4.8 50.1 1.0 O A:LEU233 4.8 47.4 1.0 C A:LYS93 4.9 50.2 1.0 C A:SER203 4.9 58.9 1.0 CE A:LYS93 5.0 56.7 1.0

Magnesium binding site 2 out of 2 in the Osm-3 Kinesin Motor Domain Complexed with Mg.Amppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Osm-3 Kinesin Motor Domain Complexed with Mg.Amppnp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:59.6 occ:1.00 O2B B:ANP401 2.1 53.0 1.0 O3G B:ANP401 2.1 55.3 1.0 OG B:SER204 2.1 59.7 1.0 OG1 B:THR94 2.1 52.8 1.0 O B:HOH511 2.2 47.8 1.0 O B:HOH523 2.3 52.2 1.0 CB B:THR94 3.1 51.2 1.0 CB B:SER204 3.2 59.2 1.0 PG B:ANP401 3.3 55.3 1.0 PB B:ANP401 3.4 53.7 1.0 N3B B:ANP401 3.6 54.6 1.0 N B:SER204 3.8 59.5 1.0 N B:THR94 3.9 48.8 1.0 CA B:THR94 4.1 49.3 1.0 O1G B:ANP401 4.1 55.1 1.0 O1A B:ANP401 4.1 54.3 1.0 CA B:SER204 4.1 59.2 1.0 OD1 B:ASP232 4.1 51.5 1.0 OD2 B:ASP232 4.1 51.4 1.0 O B:HOH524 4.2 52.2 1.0 CG2 B:THR94 4.2 52.0 1.0 O3A B:ANP401 4.3 54.2 1.0 O1B B:ANP401 4.4 53.5 1.0 O2G B:ANP401 4.5 56.3 1.0 CG B:ASP232 4.6 50.1 1.0 PA B:ANP401 4.6 54.9 1.0 O2A B:ANP401 4.7 55.1 1.0 O B:LEU233 4.7 50.6 1.0 O B:ASP202 4.7 63.7 1.0 CB B:LYS93 4.8 46.8 1.0 ND2 B:ASN200 4.8 63.4 1.0 CE B:LYS93 4.9 50.3 1.0 C B:SER203 4.9 60.5 1.0 C B:LYS93 4.9 48.6 1.0

F.P.Varela, J.Menetrey, B.Gigant. Structural Snapshots of the Kinesin-2 Osm-3 Along Its Nucleotide Cycle: Implications For the Atp Hydrolysis Mechanism Febs Open Bio 2021.
ISSN: ESSN 2211-5463