Magnesium in PDB 1r8q: Full-Length ARF1-Gdp-Mg in Complex with Brefeldin A and A SEC7 Domain

The structure of Full-Length ARF1-Gdp-Mg in Complex with Brefeldin A and A SEC7 Domain, PDB code: 1r8q was solved by L.Renault, B.Guibert, J.Cherfils, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.88 / 1.86
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	69.081, 109.773, 118.326, 90.00, 90.00, 90.00
R / Rfree (%)	17.9 / 22

The structure of Full-Length ARF1-Gdp-Mg in Complex with Brefeldin A and A SEC7 Domain also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Full-Length ARF1-Gdp-Mg in Complex with Brefeldin A and A SEC7 Domain (pdb code 1r8q). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Full-Length ARF1-Gdp-Mg in Complex with Brefeldin A and A SEC7 Domain, PDB code: 1r8q:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Full-Length ARF1-Gdp-Mg in Complex with Brefeldin A and A SEC7 Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Full-Length ARF1-Gdp-Mg in Complex with Brefeldin A and A SEC7 Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:8.1 occ:1.00 O A:HOH504 1.8 32.2 1.0 O2B A:G3D401 1.8 24.9 1.0 O A:HOH410 1.8 27.9 1.0 O A:HOH450 1.9 31.4 1.0 OG1 A:THR31 2.0 20.4 1.0 O A:HOH510 2.0 34.6 1.0 CB A:THR31 3.1 18.6 1.0 PB A:G3D401 3.2 24.0 1.0 O3B A:G3D401 3.5 23.5 1.0 N A:THR31 3.8 15.4 1.0 OE1 A:GLU54 3.9 24.7 1.0 O2A A:G3D401 4.0 22.2 1.0 CA A:THR31 4.0 17.2 1.0 OE2 A:GLU54 4.0 28.5 1.0 CG2 A:THR31 4.1 23.5 1.0 O A:HOH511 4.1 55.0 1.0 O1B A:G3D401 4.3 26.4 1.0 O3A A:G3D401 4.3 22.5 1.0 O A:HOH462 4.3 39.2 1.0 O A:HOH508 4.4 53.6 1.0 CD A:GLU54 4.4 30.3 1.0 PA A:G3D401 4.6 24.8 1.0 O A:HOH459 4.6 43.5 1.0 O A:HOH432 4.8 35.6 1.0 O1A A:G3D401 4.9 25.3 1.0 CB A:LYS30 4.9 16.6 1.0 C A:LYS30 5.0 15.9 1.0 O A:HOH425 5.0 41.1 1.0

Magnesium binding site 2 out of 2 in the Full-Length ARF1-Gdp-Mg in Complex with Brefeldin A and A SEC7 Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Full-Length ARF1-Gdp-Mg in Complex with Brefeldin A and A SEC7 Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:6.4 occ:1.00 O B:HOH567 1.6 26.7 1.0 O B:HOH570 1.7 29.8 1.0 OG1 B:THR31 1.8 17.1 1.0 O B:HOH563 1.9 32.9 1.0 O2B B:G3D501 2.0 27.9 1.0 O B:HOH517 2.1 31.3 1.0 CB B:THR31 3.0 21.2 1.0 PB B:G3D501 3.3 26.2 1.0 O3B B:G3D501 3.4 23.9 1.0 N B:THR31 3.9 20.1 1.0 O2A B:G3D501 3.9 24.3 1.0 OE1 B:GLU54 4.0 26.5 1.0 CA B:THR31 4.0 21.0 1.0 CG2 B:THR31 4.1 25.6 1.0 OE2 B:GLU54 4.1 31.9 1.0 O B:HOH530 4.2 33.2 1.0 O3A B:G3D501 4.2 24.3 1.0 O B:HOH574 4.3 64.0 1.0 O1B B:G3D501 4.3 26.0 1.0 O B:HOH526 4.4 35.4 1.0 O B:HOH568 4.4 43.4 1.0 CD B:GLU54 4.5 29.7 1.0 PA B:G3D501 4.5 24.8 1.0 O B:HOH569 4.8 38.6 1.0 CE B:LYS30 4.9 25.0 1.0 O1A B:G3D501 4.9 25.1 1.0 O B:HOH521 4.9 33.5 1.0

L.Renault, B.Guibert, J.Cherfils. Structural Snapshots of the Mechanism and Inhibition of A Guanine Nucleotide Exchange Factor Nature V. 426 525 2003.
ISSN: ISSN 0028-0836
PubMed: 14654833
DOI: 10.1038/NATURE02197