Calcium in PDB 3jcu: Cryo-Em Structure of Spinach Psii-Lhcii Supercomplex at 3.2 Angstrom Resolution

The structure of Cryo-Em Structure of Spinach Psii-Lhcii Supercomplex at 3.2 Angstrom Resolution also contains other interesting chemical elements:

Magnesium	(Mg)	206 atoms
Manganese	(Mn)	8 atoms
Iron	(Fe)	4 atoms
Chlorine	(Cl)	4 atoms

The binding sites of Calcium atom in the Cryo-Em Structure of Spinach Psii-Lhcii Supercomplex at 3.2 Angstrom Resolution (pdb code 3jcu). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Cryo-Em Structure of Spinach Psii-Lhcii Supercomplex at 3.2 Angstrom Resolution, PDB code: 3jcu:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Cryo-Em Structure of Spinach Psii-Lhcii Supercomplex at 3.2 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of Spinach Psii-Lhcii Supercomplex at 3.2 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:25.2 occ:1.00 CA1 A:OEX401 0.0 25.2 1.0 OD2 A:ASP170 2.4 0.6 1.0 O1 A:OEX401 2.5 21.8 1.0 O5 A:OEX401 2.5 23.5 1.0 O2 A:OEX401 2.5 25.9 1.0 O A:ALA344 2.6 0.4 1.0 OD1 A:ASP170 2.8 0.4 1.0 CG A:ASP170 2.9 0.2 1.0 MN2 A:OEX401 3.3 23.1 1.0 MN3 A:OEX401 3.4 23.4 1.0 MN1 A:OEX401 3.4 22.3 1.0 OE2 A:GLU189 3.5 0.6 1.0 C A:ALA344 3.6 0.4 1.0 MN4 A:OEX401 3.7 27.0 1.0 OXT A:ALA344 3.7 0.4 1.0 OE1 A:GLU189 3.7 0.8 1.0 OE1 A:GLU333 3.9 0.1 1.0 NH2 C:ARG357 3.9 0.8 1.0 O3 A:OEX401 3.9 23.1 1.0 NH1 C:ARG357 4.0 0.1 1.0 CD A:GLU189 4.1 0.8 1.0 O4 A:OEX401 4.1 28.5 1.0 OD1 A:ASP342 4.2 0.0 1.0 CZ C:ARG357 4.3 0.2 1.0 OE1 A:GLN165 4.3 97.5 1.0 CB A:ASP170 4.3 94.0 1.0 OE2 A:GLU333 4.4 0.3 1.0 OE2 C:GLU354 4.5 0.8 1.0 OD2 A:ASP342 4.5 0.6 1.0 CD A:GLU333 4.6 0.9 1.0 OE1 C:GLU354 4.8 0.9 1.0 CG A:ASP342 4.8 0.5 1.0 CD C:GLU354 4.9 0.3 1.0 CA A:ALA344 5.0 0.8 1.0

Calcium binding site 2 out of 2 in the Cryo-Em Structure of Spinach Psii-Lhcii Supercomplex at 3.2 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Structure of Spinach Psii-Lhcii Supercomplex at 3.2 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ a:Ca401 b:25.2 occ:1.00 CA1 a:OEX401 0.0 25.2 1.0 OD2 a:ASP170 2.4 0.6 1.0 O1 a:OEX401 2.5 21.8 1.0 O5 a:OEX401 2.5 23.5 1.0 O2 a:OEX401 2.5 25.9 1.0 O a:ALA344 2.6 0.4 1.0 OD1 a:ASP170 2.8 0.4 1.0 CG a:ASP170 2.9 0.2 1.0 MN2 a:OEX401 3.3 23.1 1.0 MN3 a:OEX401 3.4 23.4 1.0 MN1 a:OEX401 3.4 22.3 1.0 OE2 a:GLU189 3.5 0.6 1.0 C a:ALA344 3.6 0.4 1.0 MN4 a:OEX401 3.7 27.0 1.0 OE1 a:GLU189 3.7 0.8 1.0 OXT a:ALA344 3.7 0.4 1.0 OE1 a:GLU333 3.9 0.1 1.0 NH2 c:ARG357 3.9 0.8 1.0 O3 a:OEX401 3.9 23.1 1.0 NH1 c:ARG357 4.0 0.1 1.0 CD a:GLU189 4.1 0.8 1.0 O4 a:OEX401 4.1 28.5 1.0 OD1 a:ASP342 4.2 0.0 1.0 CZ c:ARG357 4.3 0.2 1.0 OE1 a:GLN165 4.3 97.5 1.0 CB a:ASP170 4.3 94.0 1.0 OE2 a:GLU333 4.4 0.3 1.0 OE2 c:GLU354 4.5 0.8 1.0 OD2 a:ASP342 4.5 0.6 1.0 CD a:GLU333 4.6 0.9 1.0 OE1 c:GLU354 4.8 0.9 1.0 CG a:ASP342 4.8 0.5 1.0 CD c:GLU354 4.9 0.3 1.0 CA a:ALA344 5.0 0.8 1.0

X.P.Wei, X.D.Su, P.Cao, X.Y.Liu, W.R.Chang, M.Li, X.Z.Zhang, Z.F.Liu. Structure of Spinach Photosystem II-Lhcii Supercomplex at 3.2 A Resolution Nature V. 534 69 2016.
ISSN: ISSN 0028-0836
DOI: 10.1038/NATURE18020