Magnesium in PDB 6amb: Crystal Structure of the Afadin RA1 Domain in Complex with Hras

The structure of Crystal Structure of the Afadin RA1 Domain in Complex with Hras, PDB code: 6amb was solved by M.J.Smith, N.Ishiyama, M.Ikura, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.30 / 2.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	48.239, 57.152, 73.329, 90.00, 90.00, 90.00
R / Rfree (%)	21.8 / 26.6

The binding sites of Magnesium atom in the Crystal Structure of the Afadin RA1 Domain in Complex with Hras (pdb code 6amb). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of the Afadin RA1 Domain in Complex with Hras, PDB code: 6amb:

Magnesium binding site 1 out of 1 in the Crystal Structure of the Afadin RA1 Domain in Complex with Hras


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 Afadin RA1 Domain in Complex with Hras within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:37.2 occ:1.00 O3G A:GNP201 2.1 38.2 1.0 O2B A:GNP201 2.1 33.1 1.0 OG1 A:THR35 2.2 41.9 1.0 OG A:SER17 2.3 30.2 1.0 O A:HOH302 2.4 32.9 1.0 O1A A:GNP201 3.0 36.2 1.0 N3B A:GNP201 3.1 39.9 1.0 PG A:GNP201 3.1 39.6 1.0 O A:ASP33 3.1 59.7 1.0 PB A:GNP201 3.1 28.2 1.0 CB A:SER17 3.2 29.5 1.0 CB A:THR35 3.4 40.7 1.0 N A:THR35 3.5 46.5 1.0 O1G A:GNP201 3.8 46.8 1.0 PA A:GNP201 3.8 37.0 1.0 O3A A:GNP201 3.9 36.2 1.0 CA A:THR35 4.1 42.4 1.0 O2A A:GNP201 4.2 35.5 1.0 N A:SER17 4.2 33.4 1.0 C A:ASP33 4.2 48.8 1.0 C A:PRO34 4.3 45.9 1.0 CA A:SER17 4.3 33.6 1.0 OD2 A:ASP57 4.4 44.3 1.0 O2G A:GNP201 4.4 37.8 1.0 CA A:PRO34 4.4 49.6 1.0 O1B A:GNP201 4.4 29.3 1.0 O A:HOH306 4.5 43.6 1.0 CG2 A:THR35 4.6 43.7 1.0 N A:PRO34 4.8 48.4 1.0

M.J.Smith, E.Ottoni, N.Ishiyama, M.Goudreault, A.Haman, C.Meyer, M.Tucholska, G.Gasmi-Seabrook, S.Menezes, R.C.Laister, M.D.Minden, R.Marschalek, A.C.Gingras, T.Hoang, M.Ikura. Evolution of AF6-Ras Association and Its Implications in Mixed-Lineage Leukemia. Nat Commun V. 8 1099 2017.
ISSN: ESSN 2041-1723
PubMed: 29062045
DOI: 10.1038/S41467-017-01326-5