Calcium in PDB 5ik5: Laminin A2LG45 C-Form, G6/7 Bound.

The structure of Laminin A2LG45 C-Form, G6/7 Bound., PDB code: 5ik5 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)	61.95 / 1.39
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	70.390, 110.740, 123.900, 90.00, 90.00, 90.00
R / Rfree (%)	14.9 / 17.7

The binding sites of Calcium atom in the Laminin A2LG45 C-Form, G6/7 Bound. (pdb code 5ik5). 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, G6/7 Bound., PDB code: 5ik5:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Laminin A2LG45 C-Form, G6/7 Bound.


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, G6/7 Bound. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca4001 b:35.5 occ:1.00 O A:LEU2825 2.2 30.3 1.0 OD2 A:ASP2876 2.2 35.1 1.0 O A:ILE2874 2.2 33.3 1.0 OD2 A:ASP2808 2.3 30.1 1.0 O4 A:XYS4015 2.4 19.4 0.5 O A:HOH4149 2.4 67.5 0.5 O A:HOH4445 2.4 97.0 0.5 O6A A:BDP4016 2.5 23.1 0.5 O5 A:BDP4016 3.0 31.4 0.5 C A:LEU2825 3.2 27.4 1.0 CG A:ASP2808 3.2 28.8 1.0 C A:ILE2874 3.4 33.0 1.0 CG A:ASP2876 3.4 35.9 1.0 HB A:ILE2874 3.5 43.4 1.0 OD1 A:ASP2808 3.5 30.1 1.0 H A:ASP2876 3.5 40.0 1.0 C4 A:XYS4015 3.6 35.2 0.5 C6 A:BDP4016 3.6 57.9 0.5 HA3 A:GLY2826 3.7 34.3 1.0 H A:ILE2874 3.7 41.9 1.0 HB2 A:ASP2876 3.7 40.4 1.0 HB3 A:LEU2825 3.8 32.1 1.0 H4 A:XYS4015 3.8 42.3 0.5 HA A:LEU2825 3.8 31.0 1.0 O3 A:XYS4015 3.9 26.7 0.5 C5 A:BDP4016 3.9 28.2 0.5 C1 A:BDP4016 3.9 28.4 0.5 CA A:LEU2825 4.0 25.8 1.0 N A:ASP2876 4.1 33.3 1.0 HA A:LEU2875 4.1 37.3 1.0 CB A:ASP2876 4.1 33.7 1.0 HB1 A:ALA2872 4.1 38.9 1.0 C3 A:XYS4015 4.1 31.2 0.5 H3 A:XYS4015 4.2 37.4 0.5 CA A:ILE2874 4.2 33.5 1.0 N A:GLY2826 4.2 28.1 1.0 CB A:ILE2874 4.2 36.1 1.0 H2 A:BDP4016 4.3 38.8 0.5 N A:ILE2874 4.3 34.9 1.0 H4 A:BDP4016 4.3 41.4 0.5 CA A:GLY2826 4.4 28.6 1.0 CB A:LEU2825 4.4 26.8 1.0 N A:LEU2875 4.4 30.9 1.0 OD1 A:ASP2876 4.4 38.9 1.0 HG22 A:ILE2874 4.5 39.7 1.0 CA A:LEU2875 4.6 31.1 1.0 CB A:ASP2808 4.6 26.4 1.0 HA2 A:GLY2826 4.7 34.3 1.0 C2 A:BDP4016 4.7 32.3 0.5 HB3 A:ASP2808 4.7 31.6 1.0 O6B A:BDP4016 4.7 26.4 0.5 C A:LEU2875 4.7 32.8 1.0 C4 A:BDP4016 4.7 34.5 0.5 H5 A:BDP4016 4.7 33.9 0.5 C5 A:XYS4015 4.7 36.1 0.5 CA A:ASP2876 4.8 32.8 1.0 HB2 A:LEU2825 4.8 32.1 1.0 H1 A:BDP4016 4.8 34.0 0.5 H52 A:XYS4015 4.9 43.3 0.5 H51 A:XYS4015 4.9 43.3 0.5 HB3 A:ASP2876 4.9 40.4 1.0 CG2 A:ILE2874 4.9 33.1 1.0 H A:GLY2826 5.0 33.7 1.0

Calcium binding site 2 out of 2 in the Laminin A2LG45 C-Form, G6/7 Bound.


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, G6/7 Bound. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca4002 b:15.0 occ:1.00 O A:SER3053 2.2 16.8 1.0 O A:HOH4441 2.2 22.0 1.0 O A:ASN2999 2.2 17.0 1.0 OD2 A:ASP3055 2.2 19.5 1.0 OD2 A:ASP2982 2.3 17.9 1.0 C A:ASN2999 3.2 15.3 1.0 CG A:ASP2982 3.3 18.1 1.0 H A:ASP3055 3.3 22.6 1.0 C A:SER3053 3.3 17.1 1.0 CG A:ASP3055 3.4 20.1 1.0 H A:SER3053 3.5 20.6 1.0 HB3 A:SER3053 3.5 22.2 1.0 HA A:ASN2999 3.6 18.6 1.0 HB3 A:ASN2999 3.6 20.1 1.0 HB2 A:ASP3055 3.7 23.4 1.0 OD1 A:ASP2982 3.7 19.8 1.0 HA A:ALA3054 3.8 21.5 1.0 HA3 A:GLY3000 3.9 19.1 1.0 CA A:ASN2999 3.9 15.5 1.0 N A:ASP3055 4.0 18.9 1.0 CB A:ASP3055 4.0 19.5 1.0 CA A:SER3053 4.1 16.8 1.0 N A:SER3053 4.1 17.1 1.0 HB3 A:SER3051 4.1 23.9 1.0 O A:HOH4146 4.2 27.4 1.0 O A:HOH4476 4.2 28.0 1.0 CB A:SER3053 4.2 18.5 1.0 O A:HOH4186 4.2 23.9 1.0 N A:GLY3000 4.3 16.9 1.0 CB A:ASN2999 4.3 16.8 1.0 N A:ALA3054 4.3 18.0 1.0 OD1 A:ASP3055 4.4 24.8 1.0 CA A:ALA3054 4.4 17.9 1.0 HB3 A:ASP2982 4.5 19.6 1.0 CB A:ASP2982 4.6 16.4 1.0 CA A:GLY3000 4.6 15.9 1.0 CA A:ASP3055 4.7 17.9 1.0 C A:ALA3054 4.7 18.4 1.0 HA A:SER3051 4.7 23.0 1.0 OG A:SER3053 4.8 24.3 1.0 O A:HOH4269 4.8 20.6 1.0 H A:THR3052 4.9 21.7 1.0 HB2 A:ASP2982 4.9 19.6 1.0 HB3 A:ASP3055 4.9 23.4 1.0 HG A:SER3051 4.9 26.3 1.0 HA2 A:GLY3000 4.9 19.1 1.0 CB A:SER3051 5.0 19.9 1.0 HB2 A:ASN2999 5.0 20.1 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