Magnesium in PDB 1byu: Canine Gdp-Ran

The structure of Canine Gdp-Ran, PDB code: 1byu was solved by M.Stewart, H.M.Kent, A.J.Mccoy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	6.00 / 2.15
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	60.790, 60.433, 61.200, 90.00, 101.67, 90.00
R / Rfree (%)	17.6 / 24.3

The binding sites of Magnesium atom in the Canine Gdp-Ran (pdb code 1byu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Canine Gdp-Ran, PDB code: 1byu:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Canine Gdp-Ran


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Canine Gdp-Ran within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg221 b:16.7 occ:1.00 O A:HOH247 2.0 14.1 1.0 O A:HOH249 2.1 13.0 1.0 O1B A:GDP220 2.1 13.4 1.0 O A:HOH248 2.1 13.3 1.0 O A:HOH246 2.2 14.3 1.0 OG1 A:THR24 2.3 15.0 1.0 PB A:GDP220 3.4 12.8 1.0 CB A:THR24 3.4 14.5 1.0 O2B A:GDP220 3.5 13.5 1.0 N A:THR24 4.1 11.9 1.0 OG1 A:THR66 4.2 15.8 1.0 O3B A:GDP220 4.2 13.7 1.0 CA A:THR24 4.3 13.5 1.0 O A:THR66 4.3 17.8 1.0 OD2 A:ASP65 4.3 12.3 1.0 O3A A:GDP220 4.4 13.6 1.0 O2A A:GDP220 4.4 10.7 1.0 OD1 A:ASP65 4.4 14.8 1.0 CG2 A:THR24 4.4 14.3 1.0 OE2 A:GLU70 4.5 16.6 1.0 CG A:ASP65 4.8 14.2 1.0 O A:HOH338 4.9 40.1 1.0 CB A:LYS23 4.9 11.2 1.0 PA A:GDP220 4.9 13.2 1.0

Magnesium binding site 2 out of 2 in the Canine Gdp-Ran


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Canine Gdp-Ran within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg221 b:16.5 occ:1.00 O B:HOH247 2.0 13.8 1.0 O1B B:GDP220 2.1 15.4 1.0 O B:HOH249 2.1 10.6 1.0 O B:HOH248 2.2 6.3 1.0 OG1 B:THR24 2.2 11.9 1.0 O B:HOH246 2.3 10.2 1.0 CB B:THR24 3.2 14.6 1.0 PB B:GDP220 3.3 11.7 1.0 O2B B:GDP220 3.5 9.8 1.0 N B:THR24 4.0 13.1 1.0 CA B:THR24 4.2 9.7 1.0 CG2 B:THR24 4.2 11.9 1.0 O3B B:GDP220 4.3 12.8 1.0 O B:THR66 4.3 9.7 1.0 O3A B:GDP220 4.3 12.4 1.0 OD1 B:ASP65 4.3 13.2 1.0 O2A B:GDP220 4.3 10.5 1.0 OD2 B:ASP65 4.5 14.2 1.0 OE2 B:GLU70 4.5 11.4 1.0 OG1 B:THR66 4.6 12.5 1.0 PA B:GDP220 4.8 12.7 1.0 CG B:ASP65 4.8 16.1 1.0 O1A B:GDP220 4.9 12.7 1.0 N B:GLY68 4.9 13.2 1.0 CB B:LYS23 4.9 5.2 1.0 O B:HOH283 5.0 18.6 1.0

M.Stewart, H.M.Kent, A.J.Mccoy. The Structure of the Q69L Mutant of Gdp-Ran Shows A Major Conformational Change in the Switch II Loop That Accounts For Its Failure to Bind Nuclear Transport Factor 2 (NTF2). J.Mol.Biol. V. 284 1517 1998.
ISSN: ISSN 0022-2836
PubMed: 9878368
DOI: 10.1006/JMBI.1998.2204