Calcium in PDB 4r12: Crystal Structure of the Gamma-Secretase Component Nicastrin

The structure of Crystal Structure of the Gamma-Secretase Component Nicastrin, PDB code: 4r12 was solved by T.Xie, C.Yan, R.Zhou, Y.Zhao, L.Sun, G.Yang, P.Lu, D.Ma, Y.Shi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.08 / 1.95
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	65.584, 65.584, 344.475, 90.00, 90.00, 90.00
R / Rfree (%)	17.9 / 20.5

The binding sites of Calcium atom in the Crystal Structure of the Gamma-Secretase Component Nicastrin (pdb code 4r12). 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 the Gamma-Secretase Component Nicastrin, PDB code: 4r12:

Calcium binding site 1 out of 1 in the Crystal Structure of the Gamma-Secretase Component Nicastrin


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 the Gamma-Secretase Component Nicastrin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca809 b:47.0 occ:1.00 O A:HOH1213 2.3 39.8 1.0 O A:CYS546 2.4 36.2 1.0 O A:ASP543 2.4 37.5 1.0 O A:HOH1177 2.5 38.8 1.0 O A:SER549 2.5 29.3 1.0 O A:HOH1225 2.5 41.3 1.0 C A:ASP543 3.3 37.6 1.0 C A:CYS546 3.5 37.9 1.0 C A:SER549 3.7 30.5 1.0 N A:SER549 4.0 35.2 1.0 CB A:CYS546 4.0 34.1 1.0 CA A:CYS546 4.0 36.0 1.0 N A:CYS546 4.1 34.8 1.0 N A:ASN544 4.2 36.4 1.0 CA A:ASP543 4.2 35.4 1.0 CA A:ASN544 4.2 39.8 1.0 O A:HOH1124 4.3 40.5 1.0 CB A:ASP543 4.3 33.8 1.0 N A:SER548 4.5 37.4 1.0 CA A:SER549 4.5 31.8 1.0 O A:HOH1183 4.6 51.4 1.0 N A:PRO547 4.6 38.0 1.0 C A:ASN544 4.6 40.0 1.0 CD2 A:LEU550 4.7 28.3 1.0 N A:LEU550 4.7 29.5 1.0 CA A:LEU550 4.8 27.6 1.0 C A:PRO547 4.8 40.0 1.0 CA A:PRO547 4.9 40.5 1.0 O A:ASN544 5.0 42.2 1.0

T.Xie, C.Yan, R.Zhou, Y.Zhao, L.Sun, G.Yang, P.Lu, D.Ma, Y.Shi. Crystal Structure of the Gamma-Secretase Component Nicastrin Proc.Natl.Acad.Sci.Usa 2014.
ISSN: ESSN 1091-6490
PubMed: 25197054
DOI: 10.1073/PNAS.1414837111