Magnesium in PDB 6yhm: Crystal Structure of the C-Terminal Domain of Cnfy From Yersinia Pseudotuberculosis

The structure of Crystal Structure of the C-Terminal Domain of Cnfy From Yersinia Pseudotuberculosis, PDB code: 6yhm was solved by P.Lukat, E.M.Gazdag, T.V.Heidler, W.Blankenfeldt, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.97 / 1.13
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	41.981, 50.16, 69.728, 90, 98.72, 90
R / Rfree (%)	16.7 / 18.5

The binding sites of Magnesium atom in the Crystal Structure of the C-Terminal Domain of Cnfy From Yersinia Pseudotuberculosis (pdb code 6yhm). 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 C-Terminal Domain of Cnfy From Yersinia Pseudotuberculosis, PDB code: 6yhm:

Magnesium binding site 1 out of 1 in the Crystal Structure of the C-Terminal Domain of Cnfy From Yersinia Pseudotuberculosis


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 C-Terminal Domain of Cnfy From Yersinia Pseudotuberculosis within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1101 b:20.9 occ:1.00 H A:ASN884 2.5 13.7 1.0 SG A:CYS866 2.5 18.5 0.6 HB3 A:CYS866 2.7 18.6 0.4 O A:HOH1352 2.7 23.5 0.7 HA3 A:GLY883 2.8 13.1 1.0 HA A:CYS866 2.9 12.4 0.6 HA A:CYS866 2.9 12.4 0.4 OG1 A:THR892 3.2 14.6 1.0 N A:ASN884 3.3 11.4 1.0 HA2 A:GLY883 3.4 13.1 1.0 CA A:CYS866 3.4 10.4 0.4 CA A:CYS866 3.4 10.3 0.6 CA A:GLY883 3.5 10.9 1.0 CB A:CYS866 3.5 15.5 0.4 N A:CYS866 3.5 10.5 1.0 HG21 A:THR892 3.5 19.5 1.0 CB A:CYS866 3.5 15.5 0.6 HG1 A:THR892 3.6 17.5 1.0 O A:ASN884 3.6 13.4 1.0 C A:GLY865 3.7 11.1 1.0 HD22 A:ASN884 3.7 15.3 1.0 H A:CYS866 3.8 12.6 0.6 H A:CYS866 3.8 12.6 0.4 C A:GLY883 3.9 10.8 1.0 O A:GLY865 4.0 11.9 1.0 HB3 A:CYS866 4.0 18.6 0.6 HB2 A:CYS866 4.1 18.6 0.4 ND2 A:ASN884 4.1 12.8 1.0 HA3 A:GLY865 4.1 14.9 1.0 CB A:THR892 4.2 14.5 1.0 CG2 A:THR892 4.2 16.2 1.0 HB2 A:CYS866 4.2 18.6 0.6 HD21 A:ASN884 4.3 15.3 1.0 CA A:ASN884 4.4 12.1 1.0 HG23 A:THR892 4.4 19.5 1.0 HB A:THR892 4.4 17.4 1.0 C A:ASN884 4.4 12.6 1.0 CA A:GLY865 4.5 12.4 1.0 O A:HOH1330 4.6 13.8 0.8 SG A:CYS866 4.6 26.4 0.4 O A:THR882 4.7 10.2 1.0 HG A:CYS866 4.7 31.7 0.4 O A:HOH1369 4.8 20.1 1.0 N A:GLY883 4.8 9.9 1.0 O A:HOH1322 4.8 17.8 0.8 CG A:ASN884 4.8 12.6 1.0 C A:CYS866 4.9 9.5 1.0

P.Chaoprasid, P.Lukat, S.Muhlen, T.Heidler, E.M.Gazdag, S.Dong, W.Bi, C.Ruter, M.Kirchenwitz, A.Steffen, L.Jansch, T.E.B.Stradal, P.Dersch, W.Blankenfeldt. Crystal Structure of Bacterial Cytotoxic Necrotizing Factor Cnf Y Reveals Molecular Building Blocks For Intoxication. Embo J. 05202 2021.
ISSN: ESSN 1460-2075
PubMed: 33410511
DOI: 10.15252/EMBJ.2020105202