Magnesium in PDB 5vf2: Scfv 2D10 Re-Refined As A Complex with Trehalose Replacing the Original Alpha-1,6-Mannobiose

The structure of Scfv 2D10 Re-Refined As A Complex with Trehalose Replacing the Original Alpha-1,6-Mannobiose, PDB code: 5vf2 was solved by P.J.Porebski, A.Wlodawer, Z.Dauter, W.Minor, R.Stanfield, M.Jaskolski, E.Pozharski, C.X.Weichenberger, B.Rupp, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.11 / 1.55
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	81.093, 81.093, 74.388, 90.00, 90.00, 120.00
R / Rfree (%)	15.3 / 18

The binding sites of Magnesium atom in the Scfv 2D10 Re-Refined As A Complex with Trehalose Replacing the Original Alpha-1,6-Mannobiose (pdb code 5vf2). 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 Scfv 2D10 Re-Refined As A Complex with Trehalose Replacing the Original Alpha-1,6-Mannobiose, PDB code: 5vf2:

Magnesium binding site 1 out of 1 in the Scfv 2D10 Re-Refined As A Complex with Trehalose Replacing the Original Alpha-1,6-Mannobiose


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Scfv 2D10 Re-Refined As A Complex with Trehalose Replacing the Original Alpha-1,6-Mannobiose within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg345 b:41.3 occ:1.00 O A:HOH448 2.1 30.0 1.0 O A:HOH673 2.2 43.2 1.0 O A:HOH442 2.4 38.4 1.0 OD2 A:ASP32 4.3 25.7 1.0 OD1 A:ASP32 4.3 25.3 1.0 CG A:ASP32 4.7 23.2 1.0

A.Wlodawer, Z.Dauter, P.J.Porebski, W.Minor, R.Stanfield, M.Jaskolski, E.Pozharski, C.X.Weichenberger, B.Rupp. Detect, Correct, Retract: How to Manage Incorrect Structural Models. Febs J. V. 285 444 2018.
ISSN: ISSN 1742-4658
PubMed: 29113027
DOI: 10.1111/FEBS.14320