Calcium in PDB 4g9a: Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain

The structure of Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain, PDB code: 4g9a was solved by D.Yuan, B.J.Sutton, B.Dhaliwal, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.84 / 2.00
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	54.243, 53.705, 56.641, 112.92, 88.53, 114.96
R / Rfree (%)	15.2 / 20.5

The binding sites of Calcium atom in the Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain (pdb code 4g9a). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain, PDB code: 4g9a:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain


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 CALCIUM2+-Bound Wild-Type CD23 Lectin Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:31.9 occ:1.00 O A:HOH414 2.4 23.4 1.0 OE2 A:GLU249 2.5 22.4 1.0 O A:HOH434 2.6 30.0 1.0 OD2 A:ASP270 2.6 35.0 1.0 OG1 A:THR251 2.6 38.5 1.0 OE1 A:GLU249 2.7 24.4 1.0 O C:HOH438 2.7 47.2 1.0 CD A:GLU249 3.0 22.1 1.0 CG A:ASP270 3.5 33.9 1.0 CB A:THR251 3.7 39.7 1.0 OD1 A:ASP270 3.8 35.7 1.0 N A:THR251 4.1 27.9 1.0 CD2 C:LEU228 4.2 33.9 1.0 O A:ASP270 4.2 17.3 1.0 O C:HOH423 4.3 25.4 1.0 CA A:THR251 4.5 31.5 1.0 CG A:GLU249 4.5 24.2 1.0 N A:ASP270 4.6 22.3 1.0 O C:HOH454 4.6 31.5 1.0 OE1 A:GLU257 4.7 27.6 1.0 CB A:ASP270 4.8 21.5 1.0 C A:ASP270 4.9 19.0 1.0 CG2 A:THR251 4.9 35.7 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain


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 CALCIUM2+-Bound Wild-Type CD23 Lectin Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca302 b:22.5 occ:1.00 O B:HOH409 2.4 21.3 1.0 OD1 B:ASP270 2.4 32.1 1.0 OG1 B:THR251 2.4 22.2 1.0 O B:HOH412 2.6 17.2 1.0 OE2 B:GLU249 2.6 21.1 1.0 O B:HOH407 2.6 19.2 1.0 OE1 B:GLU249 2.6 18.9 1.0 CD B:GLU249 3.0 16.5 1.0 CG B:ASP270 3.4 23.7 1.0 CB B:THR251 3.5 17.1 1.0 OD2 B:ASP270 3.7 25.6 1.0 N B:THR251 4.1 21.1 1.0 O B:ASP270 4.2 15.4 1.0 O B:HOH453 4.4 40.2 1.0 CA B:THR251 4.4 18.9 1.0 CG B:GLU249 4.5 8.1 1.0 O B:HOH486 4.5 19.8 1.0 N B:ASP270 4.5 13.4 1.0 CG2 B:THR251 4.6 16.8 1.0 CB B:ASP270 4.7 13.8 1.0 OE1 B:GLU257 4.8 24.5 1.0 C B:ASP270 4.8 20.0 1.0 O B:HOH417 4.9 24.2 1.0 CA B:ASP270 4.9 16.3 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca301 b:35.3 occ:1.00 OD1 C:ASP270 2.6 43.3 1.0 O C:HOH492 2.7 44.9 1.0 OE2 C:GLU249 2.7 34.0 1.0 OG1 C:THR251 2.7 39.0 1.0 OE1 C:GLU249 2.8 25.5 1.0 O C:HOH415 2.9 44.5 1.0 O C:HOH474 2.9 43.7 1.0 CD C:GLU249 3.1 28.3 1.0 OD2 C:ASP270 3.1 40.7 1.0 CG C:ASP270 3.2 35.5 1.0 CB C:THR251 3.8 32.0 1.0 N C:THR251 4.2 22.1 1.0 OE1 C:GLU257 4.4 46.5 1.0 O C:HOH468 4.4 43.2 1.0 OE2 C:GLU257 4.5 46.4 1.0 O C:ASP270 4.5 17.2 1.0 CA C:THR251 4.5 24.7 1.0 CG C:GLU249 4.6 19.2 1.0 CB C:ASP270 4.6 20.5 1.0 N C:ASP270 4.7 20.2 1.0 O C:HOH435 4.7 36.0 1.0 CD C:GLU257 4.8 45.0 1.0 O C:HOH483 4.9 33.3 1.0 CG2 C:THR251 5.0 27.4 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of CALCIUM2+-Bound Wild-Type CD23 Lectin Domain within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca302 b:53.6 occ:1.00 OD2 D:ASP270 2.7 39.2 1.0 OE2 D:GLU249 2.7 37.4 1.0 O D:HOH468 2.8 37.9 1.0 OE1 D:GLU249 2.8 33.6 1.0 CD D:GLU249 3.1 37.0 1.0 OE1 D:GLU257 3.7 50.6 1.0 CG D:ASP270 3.7 35.0 1.0 OD1 D:ASP270 4.0 40.5 1.0 O D:ASP270 4.5 16.4 1.0 CG D:GLU249 4.6 31.6 1.0 CD D:GLU257 4.7 48.1 1.0 N D:ASP270 4.9 16.5 1.0

D.Yuan, A.H.Keeble, R.G.Hibbert, S.Fabiane, H.J.Gould, J.M.Mcdonnell, A.J.Beavil, B.J.Sutton, B.Dhaliwal. CA2+-Dependent Structural Changes in the B-Cell Receptor CD23 Increase Its Affinity For Human Immunoglobulin E. J.Biol.Chem. V. 288 21667 2013.
ISSN: ISSN 0021-9258
PubMed: 23775083
DOI: 10.1074/JBC.M113.480657