Calcium in PDB 5ik4: Laminin A2LG45 C-Form, Apo.

The structure of Laminin A2LG45 C-Form, Apo., PDB code: 5ik4 was solved by D.C.Briggs, E.Hohenester, K.P.Campbell, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	55.68 / 1.27
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	70.690, 111.360, 124.540, 90.00, 90.00, 90.00
R / Rfree (%)	15.9 / 18.2

The binding sites of Calcium atom in the Laminin A2LG45 C-Form, Apo. (pdb code 5ik4). 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 A2LG45 C-Form, Apo., PDB code: 5ik4:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Laminin A2LG45 C-Form, Apo.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Laminin A2LG45 C-Form, Apo. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca4001 b:37.0 occ:1.00 OD2 A:ASP2808 1.9 36.7 1.0 O A:LEU2825 2.1 36.0 1.0 OD2 A:ASP2876 2.2 38.9 1.0 O A:ILE2874 2.3 36.5 1.0 O A:HOH4108 2.3 41.4 1.0 O A:HOH4423 2.5 42.3 1.0 CG A:ASP2808 2.6 35.6 1.0 OD1 A:ASP2808 2.9 37.8 1.0 C A:LEU2825 3.1 33.5 1.0 CG A:ASP2876 3.3 39.0 1.0 H A:ASP2876 3.4 41.6 1.0 HB A:ILE2874 3.4 48.9 1.0 C A:ILE2874 3.4 36.8 1.0 HB2 A:ASP2876 3.4 44.7 1.0 HA3 A:GLY2826 3.5 42.0 1.0 HA A:LEU2825 3.7 36.5 1.0 HB3 A:LEU2825 3.8 36.8 1.0 H A:ILE2874 3.9 47.3 1.0 CB A:ASP2876 3.9 37.2 1.0 CA A:LEU2825 3.9 30.4 1.0 N A:ASP2876 3.9 34.7 1.0 HA A:LEU2875 3.9 40.5 1.0 N A:GLY2826 4.0 34.1 1.0 HB1 A:ALA2872 4.1 47.5 1.0 CA A:GLY2826 4.2 35.0 1.0 CB A:ILE2874 4.2 40.8 1.0 CB A:ASP2808 4.2 32.6 1.0 CA A:ILE2874 4.3 38.5 1.0 N A:LEU2875 4.4 35.3 1.0 CB A:LEU2825 4.4 30.7 1.0 OD1 A:ASP2876 4.4 42.4 1.0 HG22 A:ILE2874 4.4 48.3 1.0 N A:ILE2874 4.4 39.4 1.0 HB3 A:ASP2808 4.4 39.1 1.0 CA A:LEU2875 4.5 33.8 1.0 HA2 A:GLY2826 4.5 42.0 1.0 C A:LEU2875 4.6 35.3 1.0 HB2 A:ASP2808 4.6 39.1 1.0 CA A:ASP2876 4.6 35.5 1.0 O A:HOH4543 4.6 56.0 1.0 HB3 A:ASP2876 4.7 44.7 1.0 H A:GLY2826 4.8 41.0 1.0 HB2 A:LEU2825 4.8 36.8 1.0 CG2 A:ILE2874 4.9 40.2 1.0 O A:HOH4388 4.9 48.8 1.0

Calcium binding site 2 out of 2 in the Laminin A2LG45 C-Form, Apo.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Laminin A2LG45 C-Form, Apo. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca4002 b:16.8 occ:1.00 O A:SER3053 2.1 19.0 1.0 O A:HOH4447 2.2 22.9 1.0 OD2 A:ASP3055 2.2 21.6 1.0 O A:ASN2999 2.2 18.8 1.0 OD2 A:ASP2982 2.3 19.6 1.0 C A:ASN2999 3.3 18.2 1.0 H A:ASP3055 3.3 25.0 1.0 C A:SER3053 3.3 18.9 1.0 CG A:ASP2982 3.3 20.0 1.0 CG A:ASP3055 3.4 22.8 1.0 HB3 A:SER3053 3.5 26.1 1.0 H A:SER3053 3.5 23.1 1.0 HB2 A:ASP3055 3.7 25.5 1.0 HA A:ASN2999 3.7 19.9 1.0 HB3 A:ASN2999 3.7 22.6 1.0 OD1 A:ASP2982 3.7 21.7 1.0 HA A:ALA3054 3.8 23.6 1.0 HA3 A:GLY3000 3.9 23.0 1.0 CA A:ASN2999 4.0 16.6 1.0 N A:ASP3055 4.0 20.8 1.0 CB A:ASP3055 4.0 21.2 1.0 CA A:SER3053 4.1 19.7 1.0 N A:SER3053 4.1 19.3 1.0 O A:HOH4136 4.1 27.5 1.0 HB3 A:SER3051 4.1 25.6 1.0 O A:HOH4468 4.2 27.9 1.0 CB A:SER3053 4.2 21.8 1.0 O A:HOH4188 4.2 25.2 1.0 N A:GLY3000 4.3 19.3 1.0 N A:ALA3054 4.3 19.3 1.0 CB A:ASN2999 4.3 18.9 1.0 OD1 A:ASP3055 4.3 28.6 1.0 CA A:ALA3054 4.4 19.7 1.0 HB3 A:ASP2982 4.5 23.0 1.0 CB A:ASP2982 4.6 19.1 1.0 CA A:GLY3000 4.6 19.2 1.0 CA A:ASP3055 4.7 21.3 1.0 C A:ALA3054 4.7 20.2 1.0 HA A:SER3051 4.7 24.4 1.0 OG A:SER3053 4.8 26.5 1.0 H A:THR3052 4.8 23.4 1.0 HB3 A:ASP3055 4.9 25.5 1.0 O A:HOH4302 4.9 23.8 1.0 HB2 A:ASP2982 4.9 23.0 1.0 HG A:SER3051 4.9 28.2 1.0 HA2 A:GLY3000 4.9 23.0 1.0 HB2 A:SER3053 5.0 26.1 1.0 CB A:SER3051 5.0 21.3 1.0 HA A:SER3053 5.0 23.6 1.0

D.C.Briggs, T.Yoshida-Moriguchi, T.Zheng, D.Venzke, M.E.Anderson, A.Strazzulli, M.Moracci, L.Yu, E.Hohenester, K.P.Campbell. Structural Basis of Laminin Binding to the Large Glycans on Dystroglycan. Nat.Chem.Biol. V. 12 810 2016.
ISSN: ESSN 1552-4469
PubMed: 27526028
DOI: 10.1038/NCHEMBIO.2146