Magnesium in PDB 8t2u: Cryo-Em Structures of Full-Length Integrin ALPHAIIBBETA3 in Native Lipids Complexed with Eptifibatide

The structure of Cryo-Em Structures of Full-Length Integrin ALPHAIIBBETA3 in Native Lipids Complexed with Eptifibatide also contains other interesting chemical elements:

Calcium

(Ca)

6 atoms

The binding sites of Magnesium atom in the Cryo-Em Structures of Full-Length Integrin ALPHAIIBBETA3 in Native Lipids Complexed with Eptifibatide (pdb code 8t2u). 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 Cryo-Em Structures of Full-Length Integrin ALPHAIIBBETA3 in Native Lipids Complexed with Eptifibatide, PDB code: 8t2u:

Magnesium binding site 1 out of 1 in the Cryo-Em Structures of Full-Length Integrin ALPHAIIBBETA3 in Native Lipids Complexed with Eptifibatide


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structures of Full-Length Integrin ALPHAIIBBETA3 in Native Lipids Complexed with Eptifibatide within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2001 b:79.3 occ:1.00 OG B:SER121 1.9 90.3 1.0 OG B:SER123 2.1 54.7 1.0 O B:HOH3101 2.2 64.5 1.0 CB B:SER123 2.2 53.6 1.0 O B:HOH3100 2.3 114.0 1.0 OE2 B:GLU220 2.3 95.1 1.0 OD1 C:ASP4 2.4 42.6 1.0 CB B:SER121 2.9 101.1 1.0 CD B:GLU220 3.2 80.8 1.0 CA B:SER123 3.3 72.1 1.0 CG C:ASP4 3.5 47.4 1.0 CG B:GLU220 3.5 71.5 1.0 N B:SER123 3.5 69.2 1.0 N B:MET124 3.7 77.0 1.0 C B:SER123 4.0 76.7 1.0 O B:ALA218 4.1 65.3 1.0 OD2 C:ASP4 4.1 47.8 1.0 CA B:SER121 4.2 100.9 1.0 C B:SER121 4.3 105.9 1.0 OE1 B:GLU220 4.3 104.7 1.0 ND2 B:ASN215 4.4 75.0 1.0 CB C:ASP4 4.5 48.0 1.0 O B:SER121 4.6 115.0 1.0 OD2 B:ASP119 4.6 125.4 1.0 N B:TYR122 4.8 121.5 1.0 CA C:ASP4 4.8 49.7 1.0 C B:TYR122 4.8 96.0 1.0 CA B:MET124 4.9 87.1 1.0 N B:SER121 4.9 111.1 1.0 CB B:GLU220 5.0 68.6 1.0

B.D.Adair, J.P.Xiong, M.Yeager, M.A.Arnaout. Cryo-Em Structures of Full-Length Integrin Alpha Iib Beta 3 in Native Lipids. Nat Commun V. 14 4168 2023.
ISSN: ESSN 2041-1723
PubMed: 37443315
DOI: 10.1038/S41467-023-39763-0