Calcium in PDB 5vc1: Crystal Structure of L-Selectin Lectin/Egf Domains

The structure of Crystal Structure of L-Selectin Lectin/Egf Domains, PDB code: 5vc1 was solved by S.Wedepohl, J.Dernedde, A.Vahedi-Faridi, R.Tauber, W.Saenger, H.Bulut, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.70 / 1.94
Space group	I 2 3
Cell size a, b, c (Å), α, β, γ (°)	118.598, 118.598, 118.598, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 23.1

The binding sites of Calcium atom in the Crystal Structure of L-Selectin Lectin/Egf Domains (pdb code 5vc1). 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 L-Selectin Lectin/Egf Domains, PDB code: 5vc1:

Calcium binding site 1 out of 1 in the Crystal Structure of L-Selectin Lectin/Egf Domains


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 L-Selectin Lectin/Egf Domains within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca209 b:18.1 occ:1.00 OE1 A:GLU88 2.4 22.5 1.0 OD1 A:ASP106 2.4 18.6 1.0 OD1 A:ASN105 2.4 18.5 1.0 OD1 A:ASN82 2.5 18.5 1.0 OE1 A:GLU80 2.5 19.6 1.0 O A:ASP106 2.5 16.4 1.0 CD A:GLU80 3.3 18.4 1.0 CD A:GLU88 3.4 21.0 1.0 CG A:ASP106 3.4 19.5 1.0 CG A:ASN105 3.4 20.6 1.0 CG A:ASN82 3.5 24.2 1.0 C A:ASP106 3.5 21.4 1.0 OE2 A:GLU80 3.7 19.2 1.0 OE2 A:GLU88 3.7 21.3 1.0 N A:ASP106 3.8 18.1 1.0 ND2 A:ASN105 3.8 19.1 1.0 CA A:ASP106 4.0 18.9 1.0 ND2 A:ASN82 4.0 18.7 1.0 OD2 A:ASP106 4.1 18.2 1.0 N A:ASN82 4.2 19.6 1.0 CB A:ASP106 4.3 20.4 1.0 C A:ASN105 4.5 16.9 1.0 CG A:GLU80 4.6 18.8 1.0 CB A:ASN82 4.6 14.9 1.0 N A:ASP107 4.6 19.2 1.0 CG A:GLU88 4.6 20.2 1.0 CB A:ASN105 4.7 18.9 1.0 N A:ASN83 4.7 19.9 1.0 CA A:ASN82 4.8 19.3 1.0 CA A:ASN105 4.8 16.2 1.0 CB A:GLU88 4.8 21.9 1.0 CB A:LYS84 4.9 25.0 1.0 N A:LYS84 4.9 21.0 1.0

S.Wedepohl, J.Dernedde, A.Vahedi-Faridi, R.Tauber, W.Saenger, H.Bulut. Reducing Macro- and Microheterogeneity of N-Glycans Enables the Crystal Structure of the Lectin and Egf-Like Domains of Human L-Selectin to Be Solved at 1.9 Angstrom Resolution. Chembiochem V. 18 1338 2017.
ISSN: ESSN 1439-7633
PubMed: 28489325
DOI: 10.1002/CBIC.201700220