Magnesium in PDB 1zc4: 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: 1zc4 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)	43.79 / 2.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	52.912, 113.389, 70.680, 90.00, 102.77, 90.00
R / Rfree (%)	20.8 / 24.8

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 1zc4). 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: 1zc4:
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:Mg200 b:35.1 occ:1.00 OG A:SER28 1.9 35.5 1.0 OG1 A:THR46 2.0 35.4 1.0 O A:HOH406 2.1 34.1 1.0 O2B A:GNP400 2.1 32.0 1.0 O A:HOH444 2.1 31.9 1.0 O2G A:GNP400 2.2 32.4 1.0 CB A:THR46 2.9 40.6 1.0 CB A:SER28 3.2 30.9 1.0 PG A:GNP400 3.4 35.4 1.0 PB A:GNP400 3.4 31.2 1.0 N3B A:GNP400 3.7 34.5 1.0 CG2 A:THR46 3.8 35.9 1.0 N A:SER28 3.8 27.6 1.0 OD2 A:ASP68 3.8 33.5 1.0 OD1 A:ASP68 4.0 38.0 1.0 CA A:SER28 4.0 30.2 1.0 O3G A:GNP400 4.1 36.1 1.0 N A:THR46 4.1 50.0 1.0 CA A:THR46 4.1 44.5 1.0 O2A A:GNP400 4.1 33.5 1.0 CG A:ASP68 4.3 32.6 1.0 O A:GLU44 4.3 69.5 1.0 O3A A:GNP400 4.4 36.6 1.0 O1B A:GNP400 4.5 32.0 1.0 O A:THR69 4.6 30.9 1.0 PA A:GNP400 4.6 33.4 1.0 O1A A:GNP400 4.6 37.6 1.0 O1G A:GNP400 4.6 39.3 1.0 CB A:LYS27 4.8 27.0 1.0 C A:LYS27 4.8 30.3 1.0 C A:PRO45 5.0 57.0 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:Mg300 b:27.2 occ:1.00 O C:HOH549 2.0 30.2 1.0 O2G C:GNP500 2.0 29.3 1.0 OG C:SER28 2.0 28.4 1.0 OG1 C:THR46 2.1 32.3 1.0 O C:HOH550 2.1 39.1 1.0 O2B C:GNP500 2.1 28.9 1.0 CB C:THR46 3.0 34.1 1.0 CB C:SER28 3.1 23.4 1.0 PG C:GNP500 3.2 31.5 1.0 PB C:GNP500 3.3 28.7 1.0 N3B C:GNP500 3.5 28.2 1.0 OD2 C:ASP68 3.7 37.2 1.0 N C:SER28 3.8 25.0 1.0 CG2 C:THR46 3.9 31.5 1.0 CA C:SER28 4.0 23.8 1.0 O3G C:GNP500 4.0 27.2 1.0 N C:THR46 4.1 41.9 1.0 OD1 C:ASP68 4.1 41.9 1.0 CA C:THR46 4.1 37.9 1.0 O2A C:GNP500 4.2 28.4 1.0 O C:HOH523 4.3 39.7 1.0 CG C:ASP68 4.3 37.6 1.0 O1B C:GNP500 4.3 30.1 1.0 O3A C:GNP500 4.4 30.1 1.0 O1G C:GNP500 4.4 31.3 1.0 O C:THR69 4.4 40.3 1.0 O C:GLU44 4.5 53.9 1.0 PA C:GNP500 4.6 27.7 1.0 O1A C:GNP500 4.7 32.2 1.0 CB C:LYS27 4.8 21.5 1.0 C C:LYS27 4.9 24.8 1.0 CE C:LYS27 4.9 25.4 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