Calcium in PDB 6pwt: Crystal Structure of the Cow C-Type Carbohydrate-Recognition Domain of CD23 in the Presence of GLCNAC2MAN3 Oligosaccharide

The structure of Crystal Structure of the Cow C-Type Carbohydrate-Recognition Domain of CD23 in the Presence of GLCNAC2MAN3 Oligosaccharide, PDB code: 6pwt was solved by W.I.Weis, H.Feinberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.64 / 2.70
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	33.167, 33.167, 207.814, 90.00, 90.00, 120.00
R / Rfree (%)	19.9 / 25.1

The binding sites of Calcium atom in the Crystal Structure of the Cow C-Type Carbohydrate-Recognition Domain of CD23 in the Presence of GLCNAC2MAN3 Oligosaccharide (pdb code 6pwt). 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 the Cow C-Type Carbohydrate-Recognition Domain of CD23 in the Presence of GLCNAC2MAN3 Oligosaccharide, PDB code: 6pwt:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of the Cow C-Type Carbohydrate-Recognition Domain of CD23 in the Presence of GLCNAC2MAN3 Oligosaccharide


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 the Cow C-Type Carbohydrate-Recognition Domain of CD23 in the Presence of GLCNAC2MAN3 Oligosaccharide within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:71.5 occ:1.00 OD1 A:ASN271 2.2 89.4 1.0 OD1 A:ASP272 2.3 60.7 1.0 O4 A:MAN304 2.4 84.1 0.5 OE1 A:GLU251 2.5 0.7 1.0 O A:ASP272 2.5 52.8 1.0 OD1 A:ASN253 2.6 75.5 1.0 OE1 A:GLU259 2.6 85.8 1.0 O3 A:MAN304 2.7 77.5 0.5 CG A:ASN271 3.1 81.0 1.0 CD A:GLU251 3.2 92.0 1.0 C4 A:MAN304 3.3 83.8 0.5 CG A:ASN253 3.4 83.2 1.0 CG A:ASP272 3.4 47.8 1.0 ND2 A:ASN271 3.4 64.7 1.0 C3 A:MAN304 3.5 75.2 0.5 OE2 A:GLU251 3.5 95.3 1.0 CD A:GLU259 3.6 83.3 1.0 C A:ASP272 3.6 46.6 1.0 ND2 A:ASN253 3.8 73.4 1.0 N A:ASP272 3.9 52.5 1.0 OE2 A:GLU259 4.0 92.2 1.0 OD2 A:ASP272 4.1 57.9 1.0 CA A:ASP272 4.1 46.0 1.0 CB A:ASP272 4.4 46.4 1.0 N A:ASN253 4.4 59.1 1.0 CG A:GLU251 4.4 76.9 1.0 CB A:ASN271 4.5 67.2 1.0 C A:ASN271 4.6 63.9 1.0 C5 A:MAN304 4.7 84.6 0.5 CB A:ASN253 4.7 66.2 1.0 N A:ALA273 4.7 45.8 1.0 CA A:ASN271 4.8 70.3 1.0 CG A:GLU259 4.8 62.3 1.0 CB A:ALA255 4.8 74.2 1.0 CB A:GLU259 4.8 58.9 1.0 C2 A:MAN304 4.8 70.5 0.5 N A:ASP254 4.9 62.1 1.0 N A:ALA255 4.9 58.2 1.0 O2 A:MAN304 5.0 74.3 0.5 CB A:GLU251 5.0 74.6 1.0 CA A:ASN253 5.0 60.8 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of the Cow C-Type Carbohydrate-Recognition Domain of CD23 in the Presence of GLCNAC2MAN3 Oligosaccharide


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 the Cow C-Type Carbohydrate-Recognition Domain of CD23 in the Presence of GLCNAC2MAN3 Oligosaccharide within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:48.6 occ:1.00 OD1 A:ASN260 2.3 62.9 1.0 O A:HOH401 2.4 40.8 1.0 OD2 A:ASP227 2.4 68.2 1.0 O A:GLU259 2.4 58.8 1.0 OD1 A:ASP254 2.4 70.6 1.0 OE1 A:GLU231 2.6 56.1 1.0 OE2 A:GLU231 2.6 72.9 1.0 OD1 A:ASP227 2.8 68.9 1.0 CG A:ASP227 2.9 61.4 1.0 CD A:GLU231 3.0 70.5 1.0 C A:GLU259 3.4 41.0 1.0 CG A:ASN260 3.4 59.1 1.0 CG A:ASP254 3.4 85.4 1.0 CA A:ASN260 3.5 47.7 1.0 N A:ASN260 3.9 44.3 1.0 CB A:ASN260 3.9 39.5 1.0 OD2 A:ASP254 4.1 89.8 1.0 CB A:ASP254 4.4 81.8 1.0 N A:GLU259 4.4 63.3 1.0 CB A:ASP227 4.4 59.5 1.0 CG A:GLU231 4.5 63.8 1.0 CA A:GLU259 4.5 60.1 1.0 ND2 A:ASN260 4.6 45.9 1.0 N A:GLY232 4.8 62.0 1.0 O A:ASP227 4.8 71.5 1.0 C A:ASN260 4.8 49.4 1.0 CZ A:PHE234 4.9 57.6 1.0 CA A:ASP254 4.9 76.3 1.0

S.A.F.Jegouzo, H.Feinberg, A.G.Morrison, A.Holder, A.May, Z.Huang, L.Jiang, Y.Lasanajak, D.F.Smith, D.Werling, K.Drickamer, W.I.Weis, M.E.Taylor. CD23 Is A Glycan-Binding Receptor in Some Mammalian Species. J.Biol.Chem. V. 294 14845 2019.
ISSN: ESSN 1083-351X
PubMed: 31488546
DOI: 10.1074/JBC.RA119.010572