Calcium in PDB 4y1s: Structural Basis For CA2+-Mediated Interaction of the Perforin C2 Domain with Lipid Membranes

The structure of Structural Basis For CA2+-Mediated Interaction of the Perforin C2 Domain with Lipid Membranes, PDB code: 4y1s was solved by P.J.Conroy, H.Yagi, J.C.Whisstock, R.S.Norton, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.48 / 1.61
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	37.700, 43.211, 68.077, 90.00, 90.00, 90.00
R / Rfree (%)	16.6 / 18.5

The binding sites of Calcium atom in the Structural Basis For CA2+-Mediated Interaction of the Perforin C2 Domain with Lipid Membranes (pdb code 4y1s). 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 Structural Basis For CA2+-Mediated Interaction of the Perforin C2 Domain with Lipid Membranes, PDB code: 4y1s:

Calcium binding site 1 out of 1 in the Structural Basis For CA2+-Mediated Interaction of the Perforin C2 Domain with Lipid Membranes


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structural Basis For CA2+-Mediated Interaction of the Perforin C2 Domain with Lipid Membranes within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca601 b:17.0 occ:0.52 O A:HOH774 2.3 25.6 1.0 O A:HOH811 2.3 36.8 1.0 O A:ALA488 2.4 17.7 1.0 OD1 A:ASP490 2.5 12.9 1.0 O A:ASP485 2.5 19.6 1.0 O A:HOH771 2.7 40.5 1.0 C A:ASP485 3.4 18.5 1.0 CG A:ASP490 3.5 12.7 1.0 C A:ALA488 3.6 19.5 1.0 N A:ASP485 3.9 14.4 1.0 O A:HOH808 3.9 31.6 1.0 O A:HOH754 4.0 19.2 1.0 N A:ASP490 4.0 12.7 1.0 OD2 A:ASP490 4.0 13.0 1.0 O A:HOH752 4.0 18.0 1.0 O A:HOH823 4.2 44.0 1.0 N A:ALA486 4.2 26.1 1.0 N A:ALA488 4.2 22.9 1.0 CA A:ASP485 4.2 16.2 1.0 C A:ASP489 4.2 13.9 1.0 CA A:ALA486 4.3 30.1 1.0 CA A:ASP489 4.4 15.2 1.0 N A:ASP489 4.5 16.8 1.0 N A:GLY487 4.5 27.9 1.0 CA A:ALA488 4.5 21.0 1.0 CA A:ASP490 4.6 11.3 1.0 CB A:ASP490 4.6 10.3 1.0 CB A:ASP485 4.7 21.2 1.0 C A:ALA486 4.7 28.8 1.0 O A:HOH757 4.8 39.1 1.0 O A:ASP489 4.9 14.5 1.0 C A:ALA484 5.0 13.7 1.0

H.Yagi, P.J.Conroy, E.W.Leung, R.H.Law, J.A.Trapani, I.Voskoboinik, J.C.Whisstock, R.S.Norton. Structural Basis For CA2+-Mediated Interaction of the Perforin C2 Domain with Lipid Membranes. J.Biol.Chem. V. 290 25213 2015.
ISSN: ESSN 1083-351X
PubMed: 26306037
DOI: 10.1074/JBC.M115.668384