Magnesium in PDB 2cjw: Crystal Structure of the Small Gtpase Gem (Gemdndcam) in Complex to Mg.Gdp

The structure of Crystal Structure of the Small Gtpase Gem (Gemdndcam) in Complex to Mg.Gdp, PDB code: 2cjw was solved by A.Splingard, J.Menetrey, M.Perderiset, J.Cicolari, F.Hamoudi, L.Cabanie, A.El Marjou, A.Wells, A.Houdusse, J.De Gunzburg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	60.00 / 2.10
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	116.617, 116.617, 81.409, 90.00, 90.00, 120.00
R / Rfree (%)	20.9 / 24.1

The structure of Crystal Structure of the Small Gtpase Gem (Gemdndcam) in Complex to Mg.Gdp also contains other interesting chemical elements:

Arsenic

(As)

7 atoms

The binding sites of Magnesium atom in the Crystal Structure of the Small Gtpase Gem (Gemdndcam) in Complex to Mg.Gdp (pdb code 2cjw). 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 the Small Gtpase Gem (Gemdndcam) in Complex to Mg.Gdp, PDB code: 2cjw:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of the Small Gtpase Gem (Gemdndcam) in Complex to Mg.Gdp


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 the Small Gtpase Gem (Gemdndcam) in Complex to Mg.Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1000 b:26.1 occ:1.00 O2B A:GDP999 2.0 20.3 1.0 O A:HOH2024 2.0 19.7 1.0 O A:HOH2081 2.1 22.3 1.0 O A:HOH2028 2.1 23.6 1.0 OG A:SER89 2.2 20.7 1.0 O A:HOH2008 2.3 24.7 1.0 CB A:SER89 3.1 19.2 1.0 PB A:GDP999 3.2 21.2 1.0 O1B A:GDP999 3.4 22.2 1.0 N A:SER89 3.9 18.2 1.0 CA A:SER89 4.0 19.4 1.0 O2A A:GDP999 4.1 20.3 1.0 OD2 A:ASP131 4.2 27.3 1.0 O A:HOH2027 4.2 46.6 1.0 OE1 A:GLU134 4.2 43.4 0.5 O3B A:GDP999 4.2 18.4 1.0 O3A A:GDP999 4.3 21.5 1.0 OD1 A:ASP131 4.3 26.0 1.0 PA A:GDP999 4.5 22.6 1.0 O1A A:GDP999 4.5 21.2 1.0 O A:HOH2007 4.6 23.4 1.0 CG A:ASP131 4.7 29.6 1.0 O A:HOH2079 4.8 31.0 1.0 CB A:LYS88 4.9 18.6 1.0 C A:LYS88 4.9 18.6 1.0 NZ A:LYS88 5.0 16.9 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of the Small Gtpase Gem (Gemdndcam) in Complex to Mg.Gdp


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 the Small Gtpase Gem (Gemdndcam) in Complex to Mg.Gdp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1000 b:44.9 occ:1.00 O B:HOH2007 1.9 39.1 1.0 O B:HOH2045 2.1 35.3 1.0 O B:HOH2024 2.2 34.9 1.0 O B:HOH2046 2.2 41.1 1.0 O2B B:GDP999 2.2 40.3 1.0 OG B:SER89 2.3 35.0 1.0 CB B:SER89 3.3 35.3 1.0 PB B:GDP999 3.3 41.0 1.0 O1B B:GDP999 3.3 39.6 1.0 O2A B:GDP999 4.0 41.5 1.0 N B:SER89 4.1 35.5 1.0 O B:HOH2025 4.2 59.9 1.0 CA B:SER89 4.3 35.5 1.0 O3B B:GDP999 4.3 39.7 1.0 OD2 B:ASP131 4.4 35.0 1.0 O3A B:GDP999 4.4 40.7 1.0 OD1 B:ASP131 4.4 34.6 1.0 O B:HOH2006 4.4 49.0 1.0 PA B:GDP999 4.5 42.9 1.0 O1A B:GDP999 4.6 42.8 1.0 CG B:ASP131 4.8 35.6 1.0 NZ B:LYS88 4.9 35.5 1.0

A.Splingard, J.Menetrey, M.Perderiset, J.Cicolari, K.Regazzoni, F.Hamoudi, L.Cabanie, A.El Marjou, A.Wells, A.Houdusse, J.De Gunzburg. Biochemical and Structural Characterization of the Gem Gtpase. J.Biol.Chem. V. 282 1905 2007.
ISSN: ISSN 0021-9258
PubMed: 17107948
DOI: 10.1074/JBC.M604363200