Magnesium in PDB 5kty: Hmiro Ef Hand and Cgtpase Domains, Gdp and CA2+ Bound State

The structure of Hmiro Ef Hand and Cgtpase Domains, Gdp and CA2+ Bound State, PDB code: 5kty was solved by J.L.Klosowiak, P.J.Focia, S.E.Rice, D.M.Freymann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.17 / 2.52
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	74.073, 74.073, 222.175, 90.00, 90.00, 90.00
R / Rfree (%)	21 / 24.9

The structure of Hmiro Ef Hand and Cgtpase Domains, Gdp and CA2+ Bound State also contains other interesting chemical elements:

Calcium

(Ca)

2 atoms

The binding sites of Magnesium atom in the Hmiro Ef Hand and Cgtpase Domains, Gdp and CA2+ Bound State (pdb code 5kty). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Hmiro Ef Hand and Cgtpase Domains, Gdp and CA2+ Bound State, PDB code: 5kty:

Magnesium binding site 1 out of 1 in the Hmiro Ef Hand and Cgtpase Domains, Gdp and CA2+ Bound State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Hmiro Ef Hand and Cgtpase Domains, Gdp and CA2+ Bound State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg702 b:43.6 occ:1.00 O1A A:GDP703 2.1 48.8 1.0 O3B A:GDP703 2.2 59.0 1.0 O A:HOH802 2.2 47.8 1.0 O3B A:GDP701 2.3 54.4 1.0 OD1 A:ASN428 2.6 62.0 1.0 PA A:GDP703 3.2 55.3 1.0 PB A:GDP703 3.5 60.5 1.0 O3A A:GDP703 3.6 53.9 1.0 O5' A:GDP703 3.7 62.1 1.0 CG A:ASN428 3.7 70.8 1.0 PB A:GDP701 3.8 47.2 1.0 N A:ASN428 3.9 52.5 1.0 CA A:ASN428 4.3 52.1 1.0 CG A:LYS427 4.4 60.7 1.0 O1B A:GDP703 4.4 58.9 1.0 NZ A:LYS454 4.4 61.9 1.0 O2B A:GDP701 4.5 45.0 1.0 O2B A:GDP703 4.5 59.2 1.0 C5' A:GDP703 4.5 65.7 1.0 O1B A:GDP701 4.5 51.0 1.0 O2A A:GDP703 4.6 49.4 1.0 CB A:ASN428 4.6 54.5 1.0 ND2 A:ASN428 4.6 77.3 1.0 O2A A:GDP701 4.6 44.8 1.0 O3A A:GDP701 4.8 47.9 1.0 C A:LYS427 4.9 53.3 1.0

J.L.Klosowiak, S.Park, K.P.Smith, M.E.French, P.J.Focia, D.M.Freymann, S.E.Rice. Structural Insights Into Parkin Substrate Lysine Targeting From Minimal Miro Substrates. Sci Rep V. 6 33019 2016.
ISSN: ESSN 2045-2322
PubMed: 27605430
DOI: 10.1038/SREP33019