Calcium in PDB 3ojy: Crystal Structure of Human Complement Component C8

The structure of Crystal Structure of Human Complement Component C8, PDB code: 3ojy was solved by L.L.Lovelace, C.L.Cooper, J.M.Sodetz, L.Lebioda, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.69 / 2.51
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	139.575, 139.575, 127.160, 90.00, 90.00, 120.00
R / Rfree (%)	24.9 / 33.7

The binding sites of Calcium atom in the Crystal Structure of Human Complement Component C8 (pdb code 3ojy). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Human Complement Component C8, PDB code: 3ojy:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Human Complement Component C8


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Human Complement Component C8 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca555 b:45.8 occ:1.00 OD1 A:ASN86 2.1 46.2 1.0 OD1 A:ASP96 2.2 56.9 1.0 OE2 A:GLU97 2.4 65.2 1.0 O A:ASP88 2.4 56.0 1.0 O A:LEU83 2.4 40.0 1.0 OD1 A:ASP90 2.4 47.1 1.0 CG A:ASN86 3.3 48.6 1.0 CD A:GLU97 3.3 66.2 1.0 CG A:ASP96 3.4 61.0 1.0 C A:LEU83 3.5 40.1 1.0 CG A:ASP90 3.5 52.6 1.0 C A:ASP88 3.5 56.0 1.0 CG A:GLU97 3.9 67.2 1.0 CB A:ASP90 3.9 55.5 1.0 N A:ASP90 4.0 56.5 1.0 ND2 A:ASN86 4.0 48.9 1.0 CA A:LEU83 4.1 38.9 1.0 N A:ASN86 4.1 49.8 1.0 CB A:LEU83 4.1 38.6 1.0 CA A:ASP88 4.1 56.2 1.0 N A:ASP88 4.1 55.6 1.0 CB A:ASP88 4.2 56.1 1.0 CB A:ASP96 4.2 63.0 1.0 OE1 A:GLU97 4.3 67.1 1.0 CB A:ASN86 4.4 49.6 1.0 OD2 A:ASP96 4.4 57.1 1.0 O A:ASP96 4.4 64.9 1.0 N A:CYS85 4.4 48.2 1.0 OD2 A:ASP90 4.5 51.2 1.0 N A:VAL84 4.6 42.0 1.0 N A:GLN89 4.6 56.6 1.0 CA A:ASP90 4.6 56.4 1.0 CA A:ASN86 4.7 50.3 1.0 C A:ASP96 4.7 64.7 1.0 C A:GLN89 4.8 57.0 1.0 CA A:GLN89 4.8 57.1 1.0 CA A:VAL84 4.9 44.1 1.0 C A:VAL84 4.9 45.9 1.0 N A:GLY87 5.0 52.0 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Human Complement Component C8


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Human Complement Component C8 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca538 b:38.6 occ:1.00 OE2 B:GLU98 1.9 36.2 1.0 OD1 B:ASP97 2.1 43.0 1.0 OD1 B:ASN87 2.1 34.9 1.0 O B:LEU84 2.3 43.5 1.0 OD2 B:ASP91 2.3 42.9 1.0 O B:ASP89 2.6 49.5 1.0 CG B:ASP97 3.1 45.0 1.0 CD B:GLU98 3.1 41.3 1.0 CG B:ASN87 3.2 37.8 1.0 C B:ASP89 3.5 48.9 1.0 CG B:ASP91 3.5 47.5 1.0 C B:LEU84 3.5 44.0 1.0 CB B:ASP97 3.7 45.0 1.0 CG B:GLU98 3.7 42.4 1.0 ND2 B:ASN87 3.8 34.1 1.0 N B:ASN87 3.9 41.5 1.0 N B:ASP89 3.9 46.9 1.0 CB B:ASP89 4.0 48.2 1.0 OD2 B:ASP97 4.0 41.4 1.0 CA B:ASP89 4.1 48.1 1.0 OE1 B:GLU98 4.1 41.6 1.0 N B:ASP91 4.1 49.2 1.0 CB B:ASP91 4.2 48.8 1.0 N B:CYS86 4.2 43.0 1.0 CB B:ASN87 4.3 39.6 1.0 CA B:LEU84 4.4 44.5 1.0 CA B:LEU85 4.5 43.4 1.0 N B:LEU85 4.5 43.9 1.0 CB B:LEU84 4.5 44.3 1.0 O B:ASP97 4.5 45.8 1.0 C B:LEU85 4.5 43.4 1.0 CA B:ASN87 4.5 40.6 1.0 N B:ASN90 4.5 49.4 1.0 C B:ASP97 4.5 45.2 1.0 OD1 B:ASP91 4.5 47.3 1.0 N B:GLY88 4.6 42.5 1.0 C B:ASN87 4.7 41.5 1.0 CA B:ASP97 4.7 45.6 1.0 CA B:ASN90 4.8 49.3 1.0 CA B:ASP91 4.8 49.2 1.0 C B:CYS86 4.9 42.7 1.0 CA B:CYS86 4.9 43.4 1.0 C B:ASN90 5.0 49.0 1.0

L.L.Lovelace, C.L.Cooper, J.M.Sodetz, L.Lebioda. Structure of Human C8 Protein Provides Mechanistic Insight Into Membrane Pore Formation By Complement. J.Biol.Chem. V. 286 17585 2011.
ISSN: ISSN 0021-9258
PubMed: 21454577
DOI: 10.1074/JBC.M111.219766