Magnesium in PDB 1zc3: Crystal Structure of the Ral-Binding Domain of EXO84 in Complex with the Active Rala

The structure of Crystal Structure of the Ral-Binding Domain of EXO84 in Complex with the Active Rala, PDB code: 1zc3 was solved by R.Jin, J.R.Junutula, H.T.Matern, K.E.Ervin, R.H.Scheller, A.T.Brunger, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.00 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	52.469, 113.795, 71.012, 90.00, 102.86, 90.00
R / Rfree (%)	20.6 / 23

The binding sites of Magnesium atom in the Crystal Structure of the Ral-Binding Domain of EXO84 in Complex with the Active Rala (pdb code 1zc3). 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 Ral-Binding Domain of EXO84 in Complex with the Active Rala, PDB code: 1zc3:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of the Ral-Binding Domain of EXO84 in Complex with the Active Rala


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 Ral-Binding Domain of EXO84 in Complex with the Active Rala within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg500 b:29.8 occ:1.00 OG1 A:THR46 2.0 28.6 1.0 O2G A:GNP700 2.0 28.4 1.0 OG A:SER28 2.0 26.5 1.0 O2B A:GNP700 2.1 28.6 1.0 O A:HOH819 2.1 24.9 1.0 O A:HOH816 2.2 28.9 1.0 CB A:THR46 3.0 30.4 1.0 CB A:SER28 3.1 26.9 1.0 PG A:GNP700 3.2 29.5 1.0 PB A:GNP700 3.3 24.4 1.0 N3B A:GNP700 3.5 25.9 1.0 N A:SER28 3.9 24.7 1.0 N A:THR46 4.0 40.7 1.0 CG2 A:THR46 4.0 28.1 1.0 OD2 A:ASP68 4.0 25.9 1.0 O3G A:GNP700 4.0 25.1 1.0 CA A:SER28 4.0 26.7 1.0 CA A:THR46 4.1 35.7 1.0 O A:HOH742 4.1 35.6 1.0 O2A A:GNP700 4.1 27.9 1.0 OD1 A:ASP68 4.2 28.2 1.0 O A:GLU44 4.3 48.5 1.0 O1B A:GNP700 4.4 26.2 1.0 O3A A:GNP700 4.4 27.2 1.0 O1G A:GNP700 4.4 31.7 1.0 CG A:ASP68 4.5 25.0 1.0 PA A:GNP700 4.6 29.1 1.0 O A:THR69 4.6 28.1 1.0 O1A A:GNP700 4.8 27.4 1.0 CB A:LYS27 4.9 22.9 1.0 C A:LYS27 4.9 26.2 1.0 C A:PRO45 5.0 45.7 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of the Ral-Binding Domain of EXO84 in Complex with the Active Rala


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 Ral-Binding Domain of EXO84 in Complex with the Active Rala within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg600 b:23.6 occ:1.00 O2G C:GNP800 2.0 26.2 1.0 OG1 C:THR46 2.0 22.0 1.0 O C:HOH927 2.1 24.3 1.0 O2B C:GNP800 2.1 24.3 1.0 O C:HOH921 2.1 25.0 1.0 OG C:SER28 2.2 21.2 1.0 CB C:THR46 3.1 27.3 1.0 PG C:GNP800 3.1 26.5 1.0 CB C:SER28 3.2 21.1 1.0 PB C:GNP800 3.2 23.5 1.0 N3B C:GNP800 3.3 24.9 1.0 N C:SER28 3.9 22.9 1.0 OD2 C:ASP68 3.9 24.4 1.0 N C:THR46 4.0 36.8 1.0 O3G C:GNP800 4.0 22.2 1.0 O C:HOH819 4.1 32.1 1.0 O2A C:GNP800 4.1 22.1 1.0 CG2 C:THR46 4.1 23.8 1.0 CA C:SER28 4.1 23.1 1.0 CA C:THR46 4.1 29.7 1.0 OD1 C:ASP68 4.2 24.0 1.0 O1G C:GNP800 4.3 29.6 1.0 O C:GLU44 4.3 44.3 1.0 O3A C:GNP800 4.3 21.1 1.0 O1B C:GNP800 4.3 19.1 1.0 CG C:ASP68 4.5 24.3 1.0 O C:THR69 4.6 27.9 1.0 PA C:GNP800 4.6 23.4 1.0 O1A C:GNP800 4.7 28.2 1.0 CB C:LYS27 4.9 19.2 1.0 C C:PRO45 4.9 38.5 1.0 CE C:LYS27 5.0 23.3 1.0

R.Jin, J.R.Junutula, H.T.Matern, K.E.Ervin, R.H.Scheller, A.T.Brunger. EXO84 and SEC5 Are Competitive Regulatory SEC6/8 Effectors to the Rala Gtpase. Embo J. V. 24 2064 2005.
ISSN: ISSN 0261-4189
PubMed: 15920473
DOI: 10.1038/SJ.EMBOJ.7600699