Calcium in PDB 2vuz: Crystal Structure of Codakine in Complex with Biantennary Nonasaccharide at 1.7A Resolution

The structure of Crystal Structure of Codakine in Complex with Biantennary Nonasaccharide at 1.7A Resolution, PDB code: 2vuz was solved by J.P.Gourdine, G.C.Cioci, L.Miguet, C.Unverzagt, A.Varrot, C.Gauthier, E.J.Smith-Ravin, A.Imberty, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.13 / 1.70
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	32.163, 100.197, 95.738, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 25.8

The binding sites of Calcium atom in the Crystal Structure of Codakine in Complex with Biantennary Nonasaccharide at 1.7A Resolution (pdb code 2vuz). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Crystal Structure of Codakine in Complex with Biantennary Nonasaccharide at 1.7A Resolution, PDB code: 2vuz:

Calcium binding site 1 out of 1 in the Crystal Structure of Codakine in Complex with Biantennary Nonasaccharide at 1.7A Resolution


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 Codakine in Complex with Biantennary Nonasaccharide at 1.7A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca201 b:20.7 occ:1.00 OD1 A:ASP113 2.3 17.4 1.0 OD1 A:ASN95 2.3 22.6 1.0 OD1 A:ASN112 2.4 16.9 1.0 O3 A:MAN205 2.5 23.9 1.0 OE1 A:GLU101 2.6 24.4 1.0 O A:ASP113 2.6 17.9 1.0 O4 A:MAN205 2.6 25.7 1.0 OE1 A:GLU93 2.7 20.2 1.0 C3 A:MAN205 3.3 24.4 1.0 CG A:ASN95 3.3 26.8 1.0 CG A:ASP113 3.3 21.1 1.0 CG A:ASN112 3.4 19.8 1.0 C4 A:MAN205 3.4 27.0 1.0 CD A:GLU101 3.4 16.6 1.0 CD A:GLU93 3.6 22.7 1.0 OE2 A:GLU101 3.6 21.3 1.0 C A:ASP113 3.7 17.8 1.0 ND2 A:ASN112 3.7 16.9 1.0 OE2 A:GLU93 3.8 28.9 1.0 N A:ASP113 3.8 17.9 1.0 ND2 A:ASN95 3.9 27.6 1.0 OD2 A:ASP113 4.0 21.2 1.0 CA A:ASP113 4.1 18.1 1.0 N A:ASN95 4.2 25.3 1.0 CB A:ASP113 4.3 17.8 1.0 CB A:ASN95 4.5 25.5 1.0 N A:ASN96 4.6 28.9 1.0 CB A:ASN112 4.7 17.1 1.0 C2 A:MAN205 4.7 25.7 1.0 N A:SER97 4.7 31.2 1.0 CG A:GLU101 4.7 22.2 1.0 CA A:ASN95 4.8 26.8 1.0 C A:ASN112 4.8 17.3 1.0 CG A:GLU93 4.8 21.2 1.0 C5 A:MAN205 4.9 26.4 1.0 N A:LEU114 4.9 17.8 1.0 C A:ASN95 5.0 27.1 1.0 CB A:SER97 5.0 32.7 1.0 CA A:ASN112 5.0 18.1 1.0 O2 A:MAN205 5.0 29.6 1.0 CB A:GLU101 5.0 21.1 1.0

J.P.Gourdine, G.C.Cioci, L.Miguet, C.Unverzagt, D.V.Silva, A.Varrot, C.Gautier, E.J.Smith-Ravin, A.Imberty. High Affinity Interaction Between A Bivalve C-Type Lectin and A Biantennary Complex-Type N-Glycan Revealed By Crystallography and Microcalorimetry. J.Biol.Chem. V. 283 30112 2008.
ISSN: ISSN 0021-9258
PubMed: 18687680
DOI: 10.1074/JBC.M804353200