Calcium in PDB 5vtd: Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star

All present enzymatic activity of Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star:
1.16.3.1;

The structure of Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star, PDB code: 5vtd was solved by J.B.Bailey, L.Zhang, J.A.Chiong, F.A.Tezcan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	63.72 / 1.95
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	180.244, 180.244, 180.244, 90.00, 90.00, 90.00
R / Rfree (%)	17.4 / 21.7

The structure of Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star also contains other interesting chemical elements:

Cobalt	(Co)	5 atoms
Chlorine	(Cl)	1 atom

The binding sites of Calcium atom in the Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star (pdb code 5vtd). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star, PDB code: 5vtd:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star


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 Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca207 b:27.0 occ:0.33 OD1 A:ASP131 2.4 24.4 1.0 OE2 A:GLU134 2.5 19.9 1.0 O A:HOH365 3.1 28.9 0.3 CG A:ASP131 3.6 26.5 1.0 O A:HOH335 3.6 33.0 1.0 CD A:GLU134 3.7 19.9 1.0 CB A:ASP131 4.3 16.6 1.0 OE1 A:GLU134 4.4 25.3 1.0 OD2 A:ASP131 4.4 24.4 1.0 CB A:GLU134 4.6 14.1 1.0 CG A:GLU134 4.8 17.6 1.0 CA A:ASP131 4.8 15.1 1.0

Calcium binding site 2 out of 3 in the Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca208 b:24.6 occ:0.50 O A:HOH472 2.5 21.0 1.0 O A:HOH456 2.5 21.9 1.0 O A:HOH316 2.5 22.8 1.0 O A:HOH327 2.6 15.6 1.0 O A:HOH525 3.7 18.0 0.5 O A:ASP89 4.2 17.4 1.0 O A:HOH459 4.3 21.4 1.0 O A:HOH523 4.6 22.3 1.0 OD1 A:ASP89 4.6 21.2 1.0 CA A:ASP89 4.6 17.8 1.0 C A:ASP89 4.7 16.4 1.0 O A:HOH383 4.8 19.3 1.0 O A:HOH360 4.8 17.7 1.0 O A:PRO88 5.0 11.2 1.0 CE A:LYS87 5.0 22.0 1.0

Calcium binding site 3 out of 3 in the Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of the Co-Bound Human Heavy-Chain Ferritin Variant 122H-Delta C-Star within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca209 b:23.3 occ:0.50 OD2 A:ASP84 2.3 18.5 1.0 O A:HOH439 2.5 28.3 1.0 OD1 A:ASP84 2.7 13.2 1.0 CG A:ASP84 2.8 17.1 1.0 O A:HOH309 4.1 23.4 0.5 CB A:ASP84 4.3 11.0 1.0 O A:HOH399 4.3 15.1 1.0

J.B.Bailey, L.Zhang, J.A.Chiong, S.Ahn, F.A.Tezcan. Synthetic Modularity of Protein-Metal-Organic Frameworks. J. Am. Chem. Soc. V. 139 8160 2017.
ISSN: ESSN 1520-5126
PubMed: 28590729
DOI: 10.1021/JACS.7B01202