Magnesium in PDB 7tpd: Integrin ALAPHIIBBETA3 Complex with EF5154

The structure of Integrin ALAPHIIBBETA3 Complex with EF5154, PDB code: 7tpd was solved by J.Zhu, F.-Y.Lin, J.Zhu, T.A.Springer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.32 / 2.60
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	260.18, 144.34, 104.31, 90, 90, 90
R / Rfree (%)	16.5 / 19.4

The structure of Integrin ALAPHIIBBETA3 Complex with EF5154 also contains other interesting chemical elements:

Calcium

(Ca)

12 atoms

The binding sites of Magnesium atom in the Integrin ALAPHIIBBETA3 Complex with EF5154 (pdb code 7tpd). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Integrin ALAPHIIBBETA3 Complex with EF5154, PDB code: 7tpd:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Integrin ALAPHIIBBETA3 Complex with EF5154


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Integrin ALAPHIIBBETA3 Complex with EF5154 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2001 b:21.8 occ:1.00 O B:HOH2125 2.0 26.6 1.0 OE2 B:GLU220 2.1 28.0 1.0 O B:HOH2144 2.2 26.0 1.0 O26 B:IR72005 2.2 24.4 1.0 OG B:SER121 2.4 26.7 1.0 OG B:SER123 2.4 34.9 0.7 O23 B:IR72005 3.1 23.8 1.0 CB B:SER121 3.2 28.6 1.0 C25 B:IR72005 3.2 20.9 1.0 CD B:GLU220 3.3 27.0 1.0 C24 B:IR72005 3.6 19.9 1.0 CB B:SER123 3.8 36.0 0.3 CG B:GLU220 3.8 21.2 1.0 CB B:SER123 3.8 36.1 0.7 C20 B:IR72005 4.2 20.7 1.0 O27 B:IR72005 4.2 20.3 1.0 N B:SER123 4.3 35.9 1.0 OE1 B:GLU220 4.3 24.8 1.0 OD1 B:ASP251 4.4 26.1 1.0 OG B:SER123 4.4 36.1 0.3 OD2 B:ASP119 4.5 26.9 1.0 CA B:SER121 4.5 24.4 1.0 O B:ALA218 4.5 31.6 1.0 O B:HOH2283 4.6 42.0 1.0 OD1 B:ASP119 4.6 29.0 1.0 CB B:ALA252 4.6 21.1 1.0 C21 B:IR72005 4.6 19.0 1.0 C B:SER121 4.6 25.2 1.0 N B:TYR122 4.7 28.2 1.0 CA B:SER123 4.7 36.4 0.3 CA B:SER123 4.7 36.1 0.7 ND2 B:ASN215 4.9 21.1 1.0 CG B:ASP119 5.0 26.4 1.0

Magnesium binding site 2 out of 2 in the Integrin ALAPHIIBBETA3 Complex with EF5154


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Integrin ALAPHIIBBETA3 Complex with EF5154 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg2001 b:34.0 occ:1.00 O26 D:IR72005 2.0 34.8 1.0 O D:HOH2111 2.0 37.0 1.0 O D:HOH2133 2.1 24.6 1.0 OE2 D:GLU220 2.1 39.4 1.0 OG D:SER121 2.4 35.7 1.0 OG D:SER123 2.6 42.8 0.6 O D:HOH2104 2.6 63.3 1.0 C25 D:IR72005 3.0 29.5 1.0 O23 D:IR72005 3.1 31.7 1.0 CB D:SER121 3.2 33.9 1.0 CD D:GLU220 3.3 37.8 1.0 C24 D:IR72005 3.5 23.1 1.0 CG D:GLU220 3.9 33.2 1.0 CB D:SER123 4.0 45.4 0.6 CB D:SER123 4.0 44.3 0.4 O27 D:IR72005 4.0 28.9 1.0 O D:HOH2151 4.1 52.7 1.0 C20 D:IR72005 4.2 27.7 1.0 OE1 D:GLU220 4.3 38.7 1.0 OD2 D:ASP119 4.4 41.6 1.0 N D:SER123 4.4 44.0 1.0 OD1 D:ASP251 4.4 40.4 1.0 CA D:SER121 4.5 38.1 1.0 C21 D:IR72005 4.6 25.9 1.0 O D:ALA218 4.6 34.2 1.0 C D:SER121 4.6 39.3 1.0 OD1 D:ASP119 4.7 41.4 1.0 N D:TYR122 4.7 40.0 1.0 CB D:ALA252 4.7 38.4 1.0 ND2 D:ASN215 4.7 33.1 1.0 O D:HOH2230 4.8 43.7 1.0 CA D:SER123 4.9 43.9 0.6 CA D:SER123 4.9 43.0 0.4 CG D:ASP119 5.0 40.9 1.0

J.Zhu, F.-Y.Lin, J.Zhu, T.A.Springer. Integrin Alpha Iib Beta 3 Headpiece with Fab Complex with EF5154 To Be Published.