Magnesium in PDB 4c0l: Crystal Structure of Drosophila Miro Ef Hand and Cgtpase Domains Bound to One Magnesium Ion and Mg:Gdp (Mggdp-Miros)

The structure of Crystal Structure of Drosophila Miro Ef Hand and Cgtpase Domains Bound to One Magnesium Ion and Mg:Gdp (Mggdp-Miros), PDB code: 4c0l was solved by J.L.Klosowiak, P.J.Focia, Z.Wawrzak, S.Chakravarthy, E.C.Landahl, D.M.Freymann, S.E.Rice, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.825 / 3.00
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	81.510, 81.510, 154.950, 90.00, 90.00, 120.00
R / Rfree (%)	21.45 / 25.85

The structure of Crystal Structure of Drosophila Miro Ef Hand and Cgtpase Domains Bound to One Magnesium Ion and Mg:Gdp (Mggdp-Miros) also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Magnesium atom in the Crystal Structure of Drosophila Miro Ef Hand and Cgtpase Domains Bound to One Magnesium Ion and Mg:Gdp (Mggdp-Miros) (pdb code 4c0l). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Drosophila Miro Ef Hand and Cgtpase Domains Bound to One Magnesium Ion and Mg:Gdp (Mggdp-Miros), PDB code: 4c0l:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Drosophila Miro Ef Hand and Cgtpase Domains Bound to One Magnesium Ion and Mg:Gdp (Mggdp-Miros)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Drosophila Miro Ef Hand and Cgtpase Domains Bound to One Magnesium Ion and Mg:Gdp (Mggdp-Miros) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1615 b:57.8 occ:1.00 O3B A:GDP1614 2.1 70.5 1.0 O A:HOH2008 2.1 49.3 1.0 OG1 A:THR460 2.1 60.3 1.0 OD2 A:ASP505 2.1 66.3 1.0 CG A:ASP505 2.8 65.5 1.0 OD1 A:ASP505 2.8 64.6 1.0 CB A:THR460 3.4 61.8 1.0 PB A:GDP1614 3.4 64.2 1.0 O2B A:GDP1614 3.8 64.6 1.0 OD2 A:ASP503 3.9 61.0 1.0 CG2 A:THR460 4.1 52.5 1.0 O1B A:GDP1614 4.3 57.8 1.0 CB A:ASP505 4.3 60.3 1.0 CA A:THR460 4.5 61.3 1.0 O3A A:GDP1614 4.5 65.0 1.0 NZ A:LYS459 4.5 59.1 1.0 O1A A:GDP1614 4.8 69.8 1.0 N A:THR460 4.8 62.3 1.0 CG A:ASP503 4.9 56.9 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Drosophila Miro Ef Hand and Cgtpase Domains Bound to One Magnesium Ion and Mg:Gdp (Mggdp-Miros)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Drosophila Miro Ef Hand and Cgtpase Domains Bound to One Magnesium Ion and Mg:Gdp (Mggdp-Miros) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1616 b:63.9 occ:1.00 O A:ALA349 2.1 57.7 1.0 OD1 A:ASP345 2.1 72.7 1.0 OD1 A:ASP343 2.1 64.7 1.0 OD1 A:ASP347 2.1 70.4 1.0 OE1 A:GLU354 2.1 75.9 1.0 CG A:ASP345 2.8 72.2 1.0 OD2 A:ASP345 2.9 70.9 1.0 CD A:GLU354 3.0 67.9 1.0 CG A:ASP347 3.1 66.1 1.0 C A:ALA349 3.2 58.1 1.0 OE2 A:GLU354 3.3 64.2 1.0 CG A:ASP343 3.3 63.9 1.0 OD2 A:ASP347 3.4 65.6 1.0 N A:ALA349 4.0 57.7 1.0 CA A:ALA349 4.1 58.2 1.0 OD2 A:ASP343 4.1 64.4 1.0 N A:LEU350 4.2 54.1 1.0 CA A:ASP343 4.2 63.4 1.0 N A:SER351 4.2 61.2 1.0 CB A:ASP343 4.3 61.9 1.0 CB A:ASP345 4.3 71.2 1.0 CA A:LEU350 4.3 55.4 1.0 N A:ASP347 4.3 67.9 1.0 CB A:ASP347 4.4 67.5 1.0 CG A:GLU354 4.4 64.6 1.0 N A:ASP345 4.5 69.0 1.0 N A:GLY346 4.6 70.0 1.0 C A:ASP343 4.6 68.2 1.0 CB A:ALA349 4.6 55.1 1.0 C A:LEU350 4.8 60.2 1.0 N A:ARG344 4.8 70.5 1.0 CA A:ASP347 4.8 67.9 1.0 CA A:ASP345 4.8 71.9 1.0 N A:GLY348 4.9 65.7 1.0 CB A:GLU354 5.0 64.4 1.0 OG A:SER351 5.0 71.2 1.0

J.L.Klosowiak, P.J.Focia, S.Chakravarthy, E.C.Landahl, D.M.Freymann, S.E.Rice. Structural Coupling of the Ef Hand and C-Terminal Gtpase Domains in the Mitochondrial Protein Miro. Embo Rep. V. 14 968 2013.
ISSN: ISSN 1469-221X
PubMed: 24071720
DOI: 10.1038/EMBOR.2013.151