Magnesium in PDB 7y9i: Complex Structure of ATYCHF1 with Ppgpp

The structure of Complex Structure of ATYCHF1 with Ppgpp, PDB code: 7y9i was solved by X.Li, Z.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.01 / 2.07
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	72.46, 111.5, 52.33, 90, 90, 90
R / Rfree (%)	20.6 / 23.6

The binding sites of Magnesium atom in the Complex Structure of ATYCHF1 with Ppgpp (pdb code 7y9i). 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 Complex Structure of ATYCHF1 with Ppgpp, PDB code: 7y9i:

Magnesium binding site 1 out of 1 in the Complex Structure of ATYCHF1 with Ppgpp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Complex Structure of ATYCHF1 with Ppgpp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:48.7 occ:1.00 O A:HOH503 2.0 42.8 1.0 O A:HOH511 2.0 44.7 1.0 OG A:SER38 2.1 41.4 1.0 O3B A:G4P401 2.2 44.1 1.0 O A:HOH551 2.2 46.1 1.0 O A:HOH516 2.3 52.3 1.0 CB A:SER38 3.2 46.7 1.0 PB A:G4P401 3.4 44.8 1.0 O1B A:G4P401 3.6 44.0 1.0 O1A A:G4P401 3.8 49.3 1.0 N A:SER38 3.9 42.6 1.0 OD2 A:ASP94 4.1 50.6 1.0 CA A:SER38 4.1 45.7 1.0 OD1 A:ASP94 4.2 52.4 1.0 O3A A:G4P401 4.4 44.4 1.0 O2B A:G4P401 4.5 40.3 1.0 CG A:ASP94 4.5 51.5 1.0 O A:ALA96 4.6 70.8 1.0 PA A:G4P401 4.7 47.0 1.0 CB A:LYS37 4.7 41.5 1.0 CA A:ALA96 4.7 72.5 1.0 O A:ILE95 4.8 62.3 1.0 NZ A:LYS37 4.9 45.0 1.0 CE A:LYS37 4.9 44.7 1.0 C A:LYS37 4.9 44.0 1.0

M.Y.Cheung, X.Li, Y.S.Ku, Z.Chen, H.M.Lam. Co-Crystalization Reveals the Interaction Between ATYCHF1 and Ppgpp. Front Mol Biosci V. 9 61350 2022.
ISSN: ESSN 2296-889X
PubMed: 36533075
DOI: 10.3389/FMOLB.2022.1061350