Magnesium in PDB 8ywq: Crystal Structure of the Fab Fragment of the Anti-Il-6 Antibody I9H in Complex with A Domain-Swapped Il-6 Dimer

The structure of Crystal Structure of the Fab Fragment of the Anti-Il-6 Antibody I9H in Complex with A Domain-Swapped Il-6 Dimer, PDB code: 8ywq was solved by S.Bukhdruker, A.Yudenko, E.Marin, A.Remeeva, S.Rodin, A.Burtseva, A.Petrov, A.Ischenko, V.Borshchevskiy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.97 / 2.51
Space group	C 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	126.621, 151.875, 76.053, 90, 90, 90
R / Rfree (%)	23.9 / 27.7

The binding sites of Magnesium atom in the Crystal Structure of the Fab Fragment of the Anti-Il-6 Antibody I9H in Complex with A Domain-Swapped Il-6 Dimer (pdb code 8ywq). 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 Fab Fragment of the Anti-Il-6 Antibody I9H in Complex with A Domain-Swapped Il-6 Dimer, PDB code: 8ywq:

Magnesium binding site 1 out of 1 in the Crystal Structure of the Fab Fragment of the Anti-Il-6 Antibody I9H in Complex with A Domain-Swapped Il-6 Dimer


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 Fab Fragment of the Anti-Il-6 Antibody I9H in Complex with A Domain-Swapped Il-6 Dimer within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:91.4 occ:0.50 O A:HOH602 2.1 98.3 0.5 O A:HOH601 2.1 94.3 1.0 O A:HOH603 2.1 87.0 0.5 OE2 A:GLU106 2.1 99.2 1.0 CD A:GLU106 3.3 89.2 1.0 OE2 A:GLU110 3.9 105.8 1.0 CG A:GLU106 4.0 86.8 1.0 OE1 A:GLU109 4.1 97.7 1.0 OE1 A:GLU106 4.3 79.3 1.0 CG A:GLU110 4.7 73.1 1.0 CD A:GLU110 4.8 87.2 1.0

A.Yudenko, S.Bukhdruker, P.Shishkin, S.Rodin, A.Burtseva, A.Petrov, N.Pigareva, A.Sokolov, E.Zinovev, I.Eliseev, A.Remeeva, E.Marin, A.Mishin, V.Godeliy, I.Gushchin, A.Ischenko, V.Borshchevskiy. Structural Basis of Signaling Complex Inhibition By Il-6 Domain-Swapped Dimers Structure 2025.
ISSN: ISSN 0969-2126