Calcium in PDB 8vgp: Cryoem Structure of Angiopoietin-2 in Complex with Engineered Conformationally Rigid Fab 5A12.6DS

The binding sites of Calcium atom in the Cryoem Structure of Angiopoietin-2 in Complex with Engineered Conformationally Rigid Fab 5A12.6DS (pdb code 8vgp). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Cryoem Structure of Angiopoietin-2 in Complex with Engineered Conformationally Rigid Fab 5A12.6DS, PDB code: 8vgp:

Calcium binding site 1 out of 1 in the Cryoem Structure of Angiopoietin-2 in Complex with Engineered Conformationally Rigid Fab 5A12.6DS


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryoem Structure of Angiopoietin-2 in Complex with Engineered Conformationally Rigid Fab 5A12.6DS within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca601 b:43.3 occ:1.00 O A:CYS433 2.3 49.8 1.0 OD1 A:ASP431 2.3 44.3 1.0 O A:CYS435 2.5 45.4 1.0 OD1 A:ASP429 2.5 46.5 1.0 OD2 A:ASP429 3.0 49.2 1.0 CG A:ASP429 3.1 48.1 1.0 CG A:ASP431 3.3 41.4 1.0 O A:ASP431 3.5 46.5 1.0 C A:CYS433 3.5 43.5 1.0 OD2 A:ASP431 3.7 43.0 1.0 C A:CYS435 3.7 43.0 1.0 C A:ASP431 4.1 46.0 1.0 N A:CYS433 4.1 44.3 1.0 CA A:CYS433 4.2 40.1 1.0 C A:ILE434 4.3 44.2 1.0 CB A:CYS433 4.4 40.1 1.0 CB A:ASP431 4.5 36.5 1.0 N A:ASP431 4.5 39.8 1.0 N A:CYS435 4.5 39.5 1.0 N A:ILE434 4.5 36.7 1.0 CA A:ASP431 4.5 37.2 1.0 CA A:ILE434 4.6 43.1 1.0 N A:LYS436 4.6 42.6 1.0 CA A:LYS436 4.6 39.1 1.0 O A:ILE434 4.6 49.4 1.0 CB A:ASP429 4.6 44.7 1.0 CA A:CYS435 4.8 36.6 1.0 C A:LYS432 4.8 42.7 1.0 O A:ASP429 4.9 45.0 1.0 N A:LYS432 4.9 42.0 1.0

J.E.Kung, M.C.Johnson, C.C.Jao, C.P.Arthur, D.Tegunov, A.Rohou, J.Sudhamsu. Disulfi De Constrained Fabs Overcome Target Size Limitation For High-Resolution Single-Particle Cryo-Em. Biorxiv 2024.
ISSN: ISSN 2692-8205
PubMed: 38798381
DOI: 10.1101/2024.05.10.593593