Calcium in PDB 2j64: H-Ficolin

The structure of H-Ficolin, PDB code: 2j64 was solved by V.Garlatti, C.Gaboriaud, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 2.20
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	62.122, 62.122, 346.284, 90.00, 90.00, 90.00
R / Rfree (%)	20.1 / 26.5

The binding sites of Calcium atom in the H-Ficolin (pdb code 2j64). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the H-Ficolin, PDB code: 2j64:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the H-Ficolin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of H-Ficolin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1222 b:30.2 occ:1.00 O A:HOH2082 2.1 23.6 1.0 OD1 A:ASP161 2.2 25.9 1.0 O A:SER165 2.4 36.4 1.0 O A:SER163 2.4 33.1 1.0 O A:HOH2079 2.5 30.3 1.0 OD1 A:ASP159 2.6 29.3 1.0 OD2 A:ASP159 2.7 30.8 1.0 CG A:ASP159 3.0 30.4 1.0 CG A:ASP161 3.2 26.0 1.0 C A:SER163 3.4 33.4 1.0 C A:SER165 3.4 36.6 1.0 OD2 A:ASP161 3.5 26.1 1.0 N A:SER163 3.9 30.8 1.0 N A:SER165 4.1 37.6 1.0 CA A:SER163 4.1 31.9 1.0 O A:ASP161 4.2 26.3 1.0 CB A:SER163 4.2 31.3 1.0 N A:ASN166 4.2 35.1 1.0 C A:ASP161 4.3 25.9 1.0 CA A:SER165 4.3 37.3 1.0 N A:ASP161 4.3 23.6 1.0 N A:ASN164 4.3 36.2 1.0 CA A:ASN166 4.4 33.6 1.0 C A:ASN164 4.4 38.4 1.0 CB A:ASP161 4.4 24.6 1.0 CB A:ASP159 4.5 27.7 1.0 CA A:ASN164 4.5 38.4 1.0 CA A:ASP161 4.6 24.4 1.0 N A:SER162 4.7 26.5 1.0 O A:HOH2080 4.8 34.5 1.0 OG A:SER163 4.8 30.9 1.0 C A:SER162 4.9 29.5 1.0

Calcium binding site 2 out of 3 in the H-Ficolin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of H-Ficolin within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1222 b:18.1 occ:1.00 OD1 B:ASP161 2.2 13.3 1.0 O B:HOH2091 2.3 16.6 1.0 O B:SER163 2.4 19.3 1.0 O B:SER165 2.4 17.7 1.0 OD2 B:ASP159 2.5 15.5 1.0 O B:HOH2087 2.5 15.2 1.0 OD1 B:ASP159 2.5 18.6 1.0 CG B:ASP159 2.8 18.1 1.0 CG B:ASP161 3.2 16.4 1.0 C B:SER163 3.4 20.0 1.0 C B:SER165 3.5 18.4 1.0 OD2 B:ASP161 3.7 17.6 1.0 N B:SER163 4.0 19.1 1.0 CA B:SER163 4.1 19.6 1.0 O B:ASP161 4.1 17.9 1.0 C B:ASN164 4.1 20.6 1.0 N B:SER165 4.2 20.2 1.0 O B:HOH2086 4.2 26.0 1.0 CB B:SER163 4.2 20.2 1.0 N B:ASN166 4.3 16.6 1.0 CB B:ASP159 4.3 17.5 1.0 O B:ASN164 4.3 21.0 1.0 N B:ASP161 4.3 16.6 1.0 C B:ASP161 4.3 17.5 1.0 CA B:SER165 4.3 20.0 1.0 CA B:ASN166 4.4 15.6 1.0 N B:ASN164 4.4 20.5 1.0 CB B:ASP161 4.5 16.6 1.0 CA B:ASP161 4.6 16.3 1.0 CA B:ASN164 4.6 21.1 1.0 O B:HOH2088 4.7 28.4 1.0 OG B:SER163 4.8 19.8 1.0

Calcium binding site 3 out of 3 in the H-Ficolin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of H-Ficolin within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1222 b:53.8 occ:1.00 O C:SER165 2.2 47.5 1.0 OD1 C:ASP161 2.4 47.2 1.0 O C:SER163 2.5 51.4 1.0 OD1 C:ASP159 2.6 45.4 1.0 OD2 C:ASP159 2.7 45.9 1.0 CG C:ASP159 3.0 45.7 1.0 CG C:ASP161 3.3 46.7 1.0 C C:SER165 3.4 48.5 1.0 C C:SER163 3.5 51.2 1.0 OD2 C:ASP161 3.7 46.6 1.0 N C:SER165 3.9 50.0 1.0 O C:ASP161 3.9 47.3 1.0 N C:SER163 4.2 50.6 1.0 C C:ASN164 4.2 50.8 1.0 CA C:SER165 4.2 49.2 1.0 CA C:SER163 4.3 50.8 1.0 N C:ASN166 4.3 48.2 1.0 OG C:SER163 4.3 50.1 1.0 CA C:ASN166 4.4 48.3 1.0 CB C:ASP159 4.4 45.3 1.0 C C:ASP161 4.4 47.4 1.0 CB C:SER163 4.4 50.5 1.0 N C:ASN164 4.4 51.3 1.0 N C:ASP161 4.5 45.5 1.0 CA C:ASN164 4.6 51.1 1.0 CB C:ASP161 4.6 46.6 1.0 CA C:ASP161 4.7 46.7 1.0 O C:ASN164 4.8 51.6 1.0

V.Garlatti, N.Belloy, L.Martin, M.Lacroix, M.Matsushita, Y.Endo, T.Fujita, J.C.Fontecilla-Camps, G.J.Arlaud, N.M.Thielens, C.Gaboriaud. Structural Insights Into the Innate Immune Recognition Specificities of L- and H-Ficolins. Embo J. V. 26 623 2007.
ISSN: ISSN 0261-4189
PubMed: 17215869
DOI: 10.1038/SJ.EMBOJ.7601500