Magnesium in PDB 3ran: Canine Gdp-Ran Q69L Mutant

The structure of Canine Gdp-Ran Q69L Mutant, PDB code: 3ran 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 (°)	63.090, 59.170, 116.370, 90.00, 100.68, 90.00
R / Rfree (%)	17.6 / 24.3

The binding sites of Magnesium atom in the Canine Gdp-Ran Q69L Mutant (pdb code 3ran). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Canine Gdp-Ran Q69L Mutant, PDB code: 3ran:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Canine Gdp-Ran Q69L Mutant


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 Q69L Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg700 b:36.3 occ:1.00 O A:HOH705 1.9 37.5 1.0 O1B A:GDP704 2.0 25.5 1.0 O A:HOH708 2.1 26.1 1.0 OG1 A:THR24 2.3 29.2 1.0 O A:HOH707 2.3 38.6 1.0 O A:HOH706 2.4 29.6 1.0 PB A:GDP704 3.4 28.8 1.0 CB A:THR24 3.4 35.3 1.0 O2B A:GDP704 3.6 30.7 1.0 O A:THR66 3.9 50.0 1.0 N A:THR24 4.1 27.8 1.0 OD2 A:ASP65 4.1 33.0 1.0 O3B A:GDP704 4.2 26.7 1.0 CA A:THR24 4.3 30.0 1.0 O3A A:GDP704 4.4 30.4 1.0 CG2 A:THR24 4.4 30.6 1.0 OD1 A:ASP65 4.4 38.0 1.0 O A:GLY68 4.5 52.1 1.0 O2A A:GDP704 4.5 34.2 1.0 O A:HOH735 4.7 36.4 1.0 CG A:ASP65 4.7 39.8 1.0 PA A:GDP704 4.8 30.5 1.0 O A:HOH743 4.9 40.5 1.0 O1A A:GDP704 5.0 33.4 1.0 CB A:LYS23 5.0 22.3 1.0

Magnesium binding site 2 out of 4 in the Canine Gdp-Ran Q69L Mutant


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 Q69L Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg701 b:41.8 occ:1.00 O B:HOH708 2.0 49.9 1.0 O1B B:GDP705 2.0 34.9 1.0 OG1 B:THR24 2.1 34.9 1.0 O B:HOH709 2.1 23.8 1.0 O B:HOH707 2.3 30.4 1.0 O B:HOH706 2.4 44.9 1.0 CB B:THR24 3.2 36.6 1.0 PB B:GDP705 3.3 36.4 1.0 O2B B:GDP705 3.5 29.7 1.0 N B:THR24 3.8 34.9 1.0 CA B:THR24 4.0 32.5 1.0 O B:THR66 4.1 56.3 1.0 OD2 B:ASP65 4.2 32.4 1.0 O3B B:GDP705 4.2 32.1 1.0 CG2 B:THR24 4.3 36.2 1.0 O3A B:GDP705 4.3 31.7 1.0 OD1 B:ASP65 4.3 39.7 1.0 O2A B:GDP705 4.4 40.7 1.0 O B:GLY68 4.6 64.2 1.0 CG B:ASP65 4.7 39.5 1.0 PA B:GDP705 4.7 35.4 1.0 CB B:LYS23 4.8 31.8 1.0 C B:LYS23 4.8 34.2 1.0 O1A B:GDP705 4.9 38.3 1.0

Magnesium binding site 3 out of 4 in the Canine Gdp-Ran Q69L Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Canine Gdp-Ran Q69L Mutant within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg702 b:31.8 occ:1.00 O C:HOH710 2.0 28.0 1.0 O C:HOH708 2.1 23.9 1.0 OG1 C:THR24 2.1 25.4 1.0 O C:HOH709 2.1 30.3 1.0 O1B C:GDP706 2.1 18.9 1.0 O C:HOH707 2.5 24.6 1.0 CB C:THR24 3.2 27.6 1.0 PB C:GDP706 3.4 24.4 1.0 O2B C:GDP706 3.7 25.3 1.0 O C:THR66 4.0 28.7 1.0 N C:THR24 4.1 21.9 1.0 CG2 C:THR24 4.2 26.5 1.0 CA C:THR24 4.2 22.4 1.0 O2A C:GDP706 4.2 26.1 1.0 O3B C:GDP706 4.3 17.9 1.0 O C:HOH741 4.3 34.8 1.0 O3A C:GDP706 4.3 24.9 1.0 OD2 C:ASP65 4.3 24.3 1.0 OD1 C:ASP65 4.5 32.4 1.0 O C:HOH733 4.6 27.8 1.0 PA C:GDP706 4.8 25.6 1.0 CG C:ASP65 4.9 30.0 1.0 O C:GLY68 4.9 30.1 1.0 O1A C:GDP706 4.9 27.2 1.0

Magnesium binding site 4 out of 4 in the Canine Gdp-Ran Q69L Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Canine Gdp-Ran Q69L Mutant within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg703 b:31.2 occ:1.00 O1B D:GDP707 2.0 29.2 1.0 O D:HOH710 2.1 31.6 1.0 O D:HOH709 2.2 30.2 1.0 OG1 D:THR24 2.2 25.0 1.0 O D:HOH711 2.3 20.9 1.0 O D:HOH708 2.4 25.7 1.0 PB D:GDP707 3.3 27.8 1.0 CB D:THR24 3.3 31.0 1.0 O2B D:GDP707 3.4 31.8 1.0 O D:THR66 4.0 37.7 1.0 N D:THR24 4.0 28.4 1.0 O2A D:GDP707 4.2 27.6 1.0 O3A D:GDP707 4.3 28.1 1.0 CA D:THR24 4.3 27.3 1.0 CG2 D:THR24 4.3 24.4 1.0 O3B D:GDP707 4.3 24.6 1.0 OD2 D:ASP65 4.5 29.9 1.0 O1A D:GDP707 4.6 28.2 1.0 O D:HOH766 4.6 39.4 1.0 PA D:GDP707 4.6 27.8 1.0 OD1 D:ASP65 4.7 30.4 1.0 O D:GLY68 4.7 45.6 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