Calcium in PDB 4zes: Blood Dendritic Cell Antigen 2 (Bdca-2) Complexed with Methyl- Mannoside

The structure of Blood Dendritic Cell Antigen 2 (Bdca-2) Complexed with Methyl- Mannoside, PDB code: 4zes was solved by S.A.F.Jegouzo, H.Feinberg, T.Dungarwalla, K.Drickamer, W.I.Weis, M.E.Taylor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.88 / 1.65
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	37.713, 69.576, 117.506, 90.00, 90.00, 90.00
R / Rfree (%)	17.3 / 21.4

The structure of Blood Dendritic Cell Antigen 2 (Bdca-2) Complexed with Methyl- Mannoside also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Calcium atom in the Blood Dendritic Cell Antigen 2 (Bdca-2) Complexed with Methyl- Mannoside (pdb code 4zes). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Blood Dendritic Cell Antigen 2 (Bdca-2) Complexed with Methyl- Mannoside, PDB code: 4zes:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Blood Dendritic Cell Antigen 2 (Bdca-2) Complexed with Methyl- Mannoside


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Blood Dendritic Cell Antigen 2 (Bdca-2) Complexed with Methyl- Mannoside within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:14.4 occ:1.00 OD1 A:ASP195 2.3 12.6 1.0 OD1 A:ASN174 2.4 14.2 1.0 OD1 A:ASN194 2.4 13.7 1.0 OE1 A:GLU178 2.5 15.9 1.0 O3 A:MMA301 2.5 16.4 0.5 O4 A:MMA301 2.5 16.3 0.5 O A:ASP195 2.5 15.3 1.0 O4 A:MMA301 2.6 15.3 0.5 O3 A:MMA301 2.6 15.3 0.5 OE1 A:GLU172 2.6 13.8 1.0 CG A:ASP195 3.3 13.7 1.0 C4 A:MMA301 3.4 17.2 0.5 C3 A:MMA301 3.4 17.8 0.5 C3 A:MMA301 3.4 17.3 0.5 C4 A:MMA301 3.4 17.8 0.5 CG A:ASN174 3.4 15.9 1.0 CD A:GLU178 3.4 14.0 1.0 CG A:ASN194 3.4 14.6 1.0 CD A:GLU172 3.5 15.6 1.0 C A:ASP195 3.6 13.8 1.0 N A:ASP195 3.7 11.5 1.0 OE2 A:GLU178 3.8 17.4 1.0 OE2 A:GLU172 3.8 16.6 1.0 ND2 A:ASN194 3.9 15.2 1.0 CA A:ASP195 4.0 12.1 1.0 OD2 A:ASP195 4.0 13.7 1.0 ND2 A:ASN174 4.0 19.8 1.0 N A:ASN174 4.1 15.8 1.0 CB A:ASP195 4.2 12.9 1.0 ND2 A:ASN175 4.3 19.2 1.0 CB A:ASN174 4.5 16.0 1.0 C A:ASN194 4.6 12.6 1.0 CG A:GLU178 4.7 14.5 1.0 CB A:ASN194 4.7 14.4 1.0 N A:ILE196 4.7 12.2 1.0 C2 A:MMA301 4.7 19.3 0.5 CA A:ASN174 4.7 16.6 1.0 C5 A:MMA301 4.8 19.5 0.5 CG A:GLU172 4.8 10.6 1.0 C5 A:MMA301 4.8 20.7 0.5 C2 A:MMA301 4.8 20.6 0.5 CB A:GLU178 4.8 13.4 1.0 N A:ASN175 4.8 16.3 1.0 CA A:ASN194 4.9 13.0 1.0 O2 A:MMA301 4.9 21.0 0.5

Calcium binding site 2 out of 2 in the Blood Dendritic Cell Antigen 2 (Bdca-2) Complexed with Methyl- Mannoside


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Blood Dendritic Cell Antigen 2 (Bdca-2) Complexed with Methyl- Mannoside within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca302 b:28.8 occ:1.00 OD1 B:ASP195 2.3 30.9 1.0 O3 B:MMA301 2.3 31.1 1.0 OD1 B:ASN174 2.4 34.0 1.0 OD1 B:ASN194 2.4 29.3 1.0 OE1 B:GLU178 2.4 28.2 1.0 O B:ASP195 2.5 29.9 1.0 O4 B:MMA301 2.5 32.4 1.0 OE1 B:GLU172 2.6 29.1 1.0 C3 B:MMA301 3.2 38.5 1.0 CG B:ASP195 3.3 33.7 1.0 CG B:ASN174 3.3 36.0 1.0 C4 B:MMA301 3.3 29.8 1.0 CD B:GLU178 3.4 27.6 1.0 CD B:GLU172 3.4 29.7 1.0 CG B:ASN194 3.4 28.1 1.0 C B:ASP195 3.5 26.7 1.0 OE2 B:GLU172 3.7 28.4 1.0 N B:ASP195 3.7 23.1 1.0 ND2 B:ASN174 3.7 35.9 1.0 OE2 B:GLU178 3.8 31.0 1.0 ND2 B:ASN194 3.9 28.1 1.0 OD2 B:ASP195 4.0 30.9 1.0 CA B:ASP195 4.0 26.1 1.0 N B:ASN174 4.2 30.4 1.0 CB B:ASP195 4.2 24.9 1.0 CB B:ASN174 4.5 27.6 1.0 O B:HOH491 4.5 43.2 1.0 C B:ASN194 4.6 26.0 1.0 C2 B:MMA301 4.6 34.6 1.0 CG B:GLU178 4.7 28.4 1.0 CG B:GLU172 4.7 28.2 1.0 N B:ILE196 4.7 25.2 1.0 CB B:ASN194 4.7 25.8 1.0 C5 B:MMA301 4.7 42.2 1.0 CB B:GLU178 4.8 27.8 1.0 CA B:ASN174 4.8 26.5 1.0 N B:ASN175 4.9 33.9 1.0 CA B:ASN194 4.9 27.8 1.0 O2 B:MMA301 4.9 39.2 1.0

S.A.F.Jegouzo, H.Feinberg, T.Dungarwalla, K.Drickamer, W.I.Weis, M.E.Taylor. A Novel Mechanism For Binding of Galactose-Terminated Glycansby the C-Type Carbohydrate-Recognition Domain in Blood Dendritic Cell Antigen 2. To Be Published.