Calcium in PDB 2j60: H-Ficolin Complexed to D-Fucose

The structure of H-Ficolin Complexed to D-Fucose, PDB code: 2j60 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)	15.00 / 1.80
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	62.000, 62.000, 346.800, 90.00, 90.00, 90.00
R / Rfree (%)	21.2 / 25.8

The binding sites of Calcium atom in the H-Ficolin Complexed to D-Fucose (pdb code 2j60). 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 Complexed to D-Fucose, PDB code: 2j60:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the H-Ficolin Complexed to D-Fucose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of H-Ficolin Complexed to D-Fucose within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1278 b:37.3 occ:1.00 O A:HOH2057 2.1 31.9 1.0 OD1 A:ASP216 2.4 33.9 1.0 O A:HOH2058 2.4 32.3 1.0 OD2 A:ASP214 2.5 34.4 1.0 O A:SER218 2.5 40.7 1.0 O A:SER220 2.5 42.7 1.0 OD1 A:ASP214 2.5 33.0 1.0 CG A:ASP214 2.8 35.0 1.0 CG A:ASP216 3.3 36.4 1.0 C A:SER218 3.5 40.9 1.0 C A:SER220 3.6 43.1 1.0 OD2 A:ASP216 3.6 36.0 1.0 N A:SER218 3.9 38.9 1.0 O A:ASP216 4.0 37.3 1.0 CA A:SER218 4.1 39.8 1.0 N A:SER220 4.3 43.7 1.0 CB A:ASP214 4.3 34.4 1.0 CB A:SER218 4.3 39.7 1.0 C A:ASP216 4.3 36.2 1.0 N A:ASP216 4.3 32.6 1.0 N A:ASN221 4.4 41.7 1.0 C A:ASN219 4.5 43.6 1.0 CA A:SER220 4.5 43.9 1.0 N A:ASN219 4.5 42.1 0.5 CB A:ASP216 4.5 34.1 1.0 CA A:ASN221 4.5 40.9 1.0 N A:ASN219 4.5 42.2 0.5 CA A:ASP216 4.6 34.7 1.0 CA A:ASN219 4.8 43.0 0.5 CA A:ASN219 4.8 43.1 0.5 N A:SER217 4.9 36.5 1.0 O A:ASN219 4.9 44.3 1.0 C A:SER217 4.9 38.5 1.0 C A:ASP214 4.9 33.8 1.0

Calcium binding site 2 out of 3 in the H-Ficolin Complexed to D-Fucose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of H-Ficolin Complexed to D-Fucose within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1278 b:23.4 occ:1.00 O B:HOH2060 2.1 22.9 1.0 OD1 B:ASP216 2.3 26.6 1.0 OD2 B:ASP214 2.3 23.4 1.0 O B:HOH2057 2.3 29.6 1.0 O B:SER220 2.4 24.0 1.0 O B:SER218 2.4 25.4 1.0 OD1 B:ASP214 2.5 22.9 1.0 CG B:ASP214 2.7 23.8 1.0 CG B:ASP216 3.3 25.3 1.0 C B:SER220 3.4 24.9 1.0 C B:SER218 3.5 26.4 1.0 OD2 B:ASP216 3.6 23.9 1.0 N B:SER218 4.0 25.6 1.0 C B:ASN219 4.1 27.0 1.0 N B:SER220 4.1 27.1 1.0 O B:ASP216 4.1 21.3 1.0 CA B:SER218 4.1 25.9 1.0 N B:ASN221 4.2 23.3 1.0 CB B:ASP214 4.3 24.1 1.0 CA B:ASN221 4.3 22.7 1.0 CA B:SER220 4.3 26.0 1.0 C B:ASP216 4.3 23.2 1.0 O B:HOH2056 4.3 33.9 1.0 O B:ASN219 4.3 27.7 1.0 CB B:SER218 4.4 26.7 1.0 N B:ASP216 4.4 23.6 1.0 N B:ASN219 4.4 26.5 1.0 CB B:ASP216 4.5 24.5 1.0 CA B:ASN219 4.6 27.2 1.0 CA B:ASP216 4.6 22.9 1.0 OG B:SER218 4.8 24.7 1.0 N B:SER217 4.9 24.2 1.0 C B:SER217 5.0 25.5 1.0

Calcium binding site 3 out of 3 in the H-Ficolin Complexed to D-Fucose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of H-Ficolin Complexed to D-Fucose within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1277 b:59.1 occ:1.00 O C:SER220 2.1 62.9 1.0 O C:HOH2033 2.2 27.6 1.0 OD1 C:ASP216 2.3 56.5 1.0 OD2 C:ASP214 2.5 54.3 1.0 OD1 C:ASP214 2.9 53.7 1.0 CG C:ASP214 3.0 54.4 1.0 CG C:ASP216 3.2 56.2 1.0 O C:SER218 3.2 63.4 1.0 OD2 C:ASP216 3.3 56.2 1.0 C C:SER220 3.3 63.5 1.0 C C:SER218 3.3 63.3 1.0 N C:ASN219 3.6 63.8 1.0 C C:ASN219 3.7 64.2 1.0 CA C:ASN219 3.8 64.3 1.0 CB C:SER218 3.9 62.5 1.0 OG C:SER218 4.0 62.9 1.0 N C:SER220 4.0 63.9 1.0 CA C:SER218 4.0 62.5 1.0 CA C:ASN221 4.1 63.0 1.0 O C:ASN219 4.1 64.1 1.0 N C:ASN221 4.1 63.4 1.0 N C:SER218 4.2 61.4 1.0 O C:ASP216 4.2 56.9 1.0 CA C:SER220 4.3 63.8 1.0 N C:CYS222 4.5 61.2 1.0 CB C:ASP214 4.5 54.0 1.0 CB C:ASP216 4.6 55.8 1.0 C C:ASP216 4.6 56.8 1.0 C C:ASN221 4.8 62.1 1.0 CA C:ASP216 5.0 56.1 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