Calcium in PDB 8wys: Local Map of Human CD5L Bound to Igm-Fc/J

The binding sites of Calcium atom in the Local Map of Human CD5L Bound to Igm-Fc/J (pdb code 8wys). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Local Map of Human CD5L Bound to Igm-Fc/J, PDB code: 8wys:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Local Map of Human CD5L Bound to Igm-Fc/J


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Local Map of Human CD5L Bound to Igm-Fc/J within 5.0Å range: probe atom residue distance (Å) B Occ M:Ca401 b:67.1 occ:1.00 OE2 M:GLU339 2.0 68.1 1.0 OD1 M:ASP270 2.3 68.5 1.0 OE1 M:GLU339 2.4 68.1 1.0 CD M:GLU339 2.5 68.1 1.0 O J:ASN106 2.8 68.4 1.0 OD1 M:ASP271 3.0 66.2 1.0 CG M:ASP270 3.3 68.5 1.0 C J:ASN106 3.6 68.4 1.0 O M:ASP270 3.6 68.5 1.0 C M:ASP270 3.6 68.5 1.0 N M:ASP271 3.7 66.2 1.0 CA M:ASP271 3.8 66.2 1.0 CG M:GLU339 4.0 68.1 1.0 CG M:ASP271 4.1 66.2 1.0 OD2 M:ASP270 4.1 68.5 1.0 CB J:ASN106 4.1 68.4 1.0 CB M:ASP270 4.2 68.5 1.0 CA J:ASN106 4.3 68.4 1.0 CA M:ASP270 4.3 68.5 1.0 N J:LYS107 4.4 67.4 1.0 N M:ASP270 4.5 68.5 1.0 CB M:ASP271 4.6 66.2 1.0 NZ J:LYS107 4.6 67.4 1.0 CA J:LYS107 4.6 67.4 1.0 CB M:GLU339 4.7 68.1 1.0 SG M:CYS269 4.8 64.0 1.0 C M:ASP271 4.9 66.2 1.0

Calcium binding site 2 out of 2 in the Local Map of Human CD5L Bound to Igm-Fc/J


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Local Map of Human CD5L Bound to Igm-Fc/J within 5.0Å range: probe atom residue distance (Å) B Occ M:Ca402 b:74.0 occ:1.00 OD2 M:ASP271 2.1 66.2 1.0 OD1 M:ASP311 2.2 56.9 1.0 OD1 M:ASP334 2.8 63.7 1.0 CG M:ASP311 3.1 56.9 1.0 CG M:ASP271 3.1 66.2 1.0 OD2 M:ASP311 3.2 56.9 1.0 CB M:ASP271 3.5 66.2 1.0 CG M:ASP334 3.6 63.7 1.0 OD2 M:ASP334 3.7 63.7 1.0 OD1 M:ASP271 4.2 66.2 1.0 CB M:ASN312 4.3 60.7 1.0 CG M:ASN312 4.4 60.7 1.0 CB M:ASP311 4.5 56.9 1.0 OD1 M:ASN312 4.5 60.7 1.0 CD M:ARG328 4.6 56.4 1.0 N M:ASN312 4.6 60.7 1.0 ND2 M:ASN312 4.8 60.7 1.0 NZ J:LYS107 4.8 67.4 1.0 NH1 M:ARG328 4.8 56.4 1.0 CA M:ASN312 4.9 60.7 1.0 CB M:ASP334 4.9 63.7 1.0 CA M:ASP271 5.0 66.2 1.0

Y.Wang, C.Su, C.Ji, J.Xiao. CD5L Associates with Igm Via the J Chain. Nat Commun V. 15 8397 2024.
ISSN: ESSN 2041-1723
PubMed: 39333069
DOI: 10.1038/S41467-024-52175-Y