Calcium in PDB 1dyk: Laminin Alpha 2 Chain LG4-5 Domain Pair

The structure of Laminin Alpha 2 Chain LG4-5 Domain Pair, PDB code: 1dyk was solved by D.Tisi, J.F.Talts, R.Timple, E.Hohenester, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.00
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	70.600, 111.500, 124.800, 90.00, 90.00, 90.00
R / Rfree (%)	23.3 / 26.1

The binding sites of Calcium atom in the Laminin Alpha 2 Chain LG4-5 Domain Pair (pdb code 1dyk). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Laminin Alpha 2 Chain LG4-5 Domain Pair, PDB code: 1dyk:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Laminin Alpha 2 Chain LG4-5 Domain Pair


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Laminin Alpha 2 Chain LG4-5 Domain Pair within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca4001 b:35.3 occ:1.00 O A:HOH2050 2.2 45.8 1.0 O A:ILE2874 2.3 33.0 1.0 OD2 A:ASP2808 2.5 31.7 1.0 OD2 A:ASP2876 2.5 31.5 1.0 O A:LEU2825 2.5 29.1 1.0 C A:ILE2874 3.4 32.1 1.0 CG A:ASP2808 3.5 30.4 1.0 C A:LEU2825 3.5 27.3 1.0 CG A:ASP2876 3.6 33.8 1.0 O A:HOH2012 3.8 28.1 1.0 OD1 A:ASP2808 3.8 31.6 1.0 N A:ASP2876 4.0 28.7 1.0 CA A:LEU2825 4.1 26.1 1.0 CB A:ILE2874 4.2 33.5 1.0 CA A:ILE2874 4.2 32.6 1.0 CB A:ASP2876 4.2 30.9 1.0 O A:HOH2090 4.2 53.7 1.0 N A:LEU2875 4.3 30.9 1.0 CA A:LEU2875 4.4 29.1 1.0 CB A:LEU2825 4.4 27.0 1.0 N A:ILE2874 4.4 32.9 1.0 N A:GLY2826 4.5 27.8 1.0 C A:LEU2875 4.6 28.7 1.0 OD1 A:ASP2876 4.6 39.0 1.0 CA A:ASP2876 4.7 27.9 1.0 CB A:ASP2808 4.8 28.0 1.0 CG2 A:ILE2874 4.8 30.7 1.0 CA A:GLY2826 4.8 28.1 1.0 CB A:ALA2872 4.9 32.6 1.0

Calcium binding site 2 out of 2 in the Laminin Alpha 2 Chain LG4-5 Domain Pair


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Laminin Alpha 2 Chain LG4-5 Domain Pair within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca4002 b:15.7 occ:1.00 O A:SER3053 2.2 16.7 1.0 O A:ASN2999 2.3 16.5 1.0 OD2 A:ASP2982 2.3 15.6 1.0 OD2 A:ASP3055 2.7 22.8 1.0 C A:ASN2999 3.3 16.2 1.0 C A:SER3053 3.4 16.5 1.0 CG A:ASP2982 3.4 19.1 1.0 OD1 A:ASP2982 3.8 16.6 1.0 CG A:ASP3055 3.9 23.5 1.0 O A:HOH2156 3.9 39.1 1.0 CA A:ASN2999 4.0 14.5 1.0 N A:ASP3055 4.1 19.8 1.0 CA A:SER3053 4.2 15.8 1.0 N A:GLY3000 4.2 16.0 1.0 N A:SER3053 4.3 15.8 1.0 O A:HOH2214 4.3 33.9 1.0 CB A:ASN2999 4.3 12.1 1.0 N A:ALA3054 4.4 15.8 1.0 CB A:SER3053 4.4 17.2 1.0 CB A:ASP3055 4.4 20.0 1.0 CA A:ALA3054 4.5 15.6 1.0 CA A:GLY3000 4.5 15.0 1.0 CB A:ASP2982 4.7 17.3 1.0 C A:ALA3054 4.8 17.4 1.0 OD1 A:ASP3055 4.9 31.0 1.0 CB A:SER3051 4.9 15.6 1.0 CA A:ASP3055 4.9 19.5 1.0

D.Tisi, J.F.Talts, R.Timpl, E.Hohenester. Structure of the C-Terminal Laminin G-Like Domain Pair of the Laminin Alpha 2 Chain Harbouring Binding Sites For Alpha-Dystroglycan and Heparin Embo J. V. 19 1432 2000.
ISSN: ISSN 0261-4189
PubMed: 10747011
DOI: 10.1093/EMBOJ/19.7.1432