Calcium in PDB 8zjf: Cryo-Em Structure of Human Integrin Alpha-E Beta-7

The structure of Cryo-Em Structure of Human Integrin Alpha-E Beta-7 also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Calcium atom in the Cryo-Em Structure of Human Integrin Alpha-E Beta-7 (pdb code 8zjf). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Cryo-Em Structure of Human Integrin Alpha-E Beta-7, PDB code: 8zjf:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Cryo-Em Structure of Human Integrin Alpha-E Beta-7


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of Human Integrin Alpha-E Beta-7 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca902 b:22.2 occ:1.00 OD2 B:ASP198 2.1 20.6 1.0 OD1 B:ASP256 2.2 30.0 1.0 O B:PRO258 2.2 24.9 1.0 ND2 B:ASN254 2.2 25.7 1.0 O B:ASP256 2.5 18.0 1.0 CG B:ASP256 3.2 24.5 1.0 CG B:ASP198 3.3 27.0 1.0 C B:ASP256 3.3 27.1 1.0 C B:PRO258 3.4 28.5 1.0 CG B:ASN254 3.5 16.3 1.0 OE2 B:GLU259 3.6 15.4 1.0 O B:PHE204 3.7 22.4 1.0 NE2 B:HIS293 3.9 25.6 1.0 N B:ASP256 3.9 24.0 1.0 OD2 B:ASP256 3.9 26.8 1.0 CA B:ASP256 4.0 23.0 1.0 CB B:ASP198 4.0 24.7 1.0 CB B:ASN254 4.1 22.8 1.0 N B:PRO258 4.2 23.9 1.0 CB B:ASP256 4.2 22.9 1.0 C B:SER257 4.2 24.4 1.0 CA B:GLU259 4.2 20.0 1.0 N B:GLU259 4.3 22.2 1.0 OD1 B:ASP198 4.3 23.9 1.0 N B:SER257 4.3 20.5 1.0 CD B:GLU259 4.4 23.5 1.0 O B:SER257 4.4 25.9 1.0 CA B:PRO258 4.4 21.6 1.0 OD1 B:ASN254 4.4 17.9 1.0 CD2 B:HIS293 4.4 23.5 1.0 C B:PHE204 4.5 24.9 1.0 CA B:PHE204 4.6 21.1 1.0 CA B:SER257 4.7 21.9 1.0 CD B:PRO258 4.7 26.4 1.0 CB B:PHE204 4.7 29.9 1.0 N B:LEU255 4.8 19.8 1.0 C B:LEU255 5.0 20.1 1.0

Calcium binding site 2 out of 2 in the Cryo-Em Structure of Human Integrin Alpha-E Beta-7


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Structure of Human Integrin Alpha-E Beta-7 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca903 b:21.4 occ:1.00 O B:SER163 2.3 18.1 1.0 O B:GLU373 2.5 23.1 1.0 OD1 B:ASP167 2.5 21.9 1.0 OD2 B:ASP166 3.2 22.8 1.0 OD1 B:ASP166 3.5 21.9 1.0 C B:SER163 3.5 20.7 1.0 CG B:ASP167 3.6 23.2 1.0 CG B:ASP166 3.7 22.3 1.0 C B:GLU373 3.7 23.5 1.0 OD2 B:ASP167 3.9 21.6 1.0 CA B:MET164 4.1 19.4 1.0 N B:MET164 4.2 18.7 1.0 CA B:GLU373 4.5 23.4 1.0 CA B:SER163 4.6 16.8 1.0 N B:ASP374 4.6 23.5 1.0 OE1 B:GLU373 4.7 26.8 1.0 CA B:ASP374 4.7 24.1 1.0 N B:ASP167 4.7 23.8 1.0 CB B:GLU373 4.8 24.4 1.0 C B:MET164 4.8 20.0 1.0 OD2 B:ASP289 4.8 17.0 1.0 SD B:MET164 4.8 20.1 1.0 CB B:ASP167 4.9 23.0 1.0 N B:LYS165 5.0 20.5 1.0 CB B:SER163 5.0 17.2 1.0

H.Akasaka, D.Sato, W.Shihoya, O.Nureki, Y.Kise. Cryo-Em Structure of I Domain-Containing Integrin Alpha E Beta 7. Biochem.Biophys.Res.Commun. V. 721 50121 2024.
ISSN: ESSN 1090-2104
PubMed: 38781659
DOI: 10.1016/J.BBRC.2024.150121