Cobalt in PDB 4zrp: Tc:CD320

The structure of Tc:CD320, PDB code: 4zrp was solved by A.Alam, K.P.Locher, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.94 / 2.10
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	98.099, 98.099, 355.979, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 20.8

The structure of Tc:CD320 also contains other interesting chemical elements:

Calcium

(Ca)

6 atoms

The binding sites of Cobalt atom in the Tc:CD320 (pdb code 4zrp). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 2 binding sites of Cobalt where determined in the Tc:CD320, PDB code: 4zrp:
Jump to Cobalt binding site number: 1; 2;

Cobalt binding site 1 out of 2 in the Tc:CD320


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Tc:CD320 within 5.0Å range: probe atom residue distance (Å) B Occ A:Co501 b:34.8 occ:1.00 CO A:CNC501 0.0 34.8 1.0 N24 A:CNC501 1.7 39.6 0.6 N21 A:CNC501 1.8 57.8 1.0 N23 A:CNC501 1.9 57.1 1.0 N22 A:CNC501 1.9 29.7 0.5 C1A A:CNC501 2.1 69.6 1.0 N3B A:CNC501 2.5 27.8 1.0 C19 A:CNC501 2.6 36.4 1.0 C1 A:CNC501 2.8 45.0 1.0 C9 A:CNC501 2.9 33.9 1.0 C11 A:CNC501 2.9 59.5 1.0 C16 A:CNC501 2.9 36.9 1.0 C14 A:CNC501 3.0 61.8 1.0 C6 A:CNC501 3.0 24.2 1.0 C4 A:CNC501 3.0 74.6 0.4 N1A A:CNC501 3.3 73.7 1.0 C10 A:CNC501 3.4 28.7 0.9 C2B A:CNC501 3.4 25.9 1.0 C5 A:CNC501 3.4 29.8 1.0 C15 A:CNC501 3.5 36.9 1.0 C9B A:CNC501 3.6 29.1 0.8 C20 A:CNC501 3.7 21.3 0.7 C18 A:CNC501 3.9 41.0 1.0 C26 A:CNC501 3.9 41.1 1.0 C2 A:CNC501 4.0 39.9 0.4 C4B A:CNC501 4.0 25.4 1.0 C12 A:CNC501 4.1 38.1 1.0 C17 A:CNC501 4.1 38.8 1.0 C8 A:CNC501 4.1 33.4 1.0 C13 A:CNC501 4.2 47.9 1.0 C3 A:CNC501 4.2 74.2 1.0 C7 A:CNC501 4.3 30.2 0.6 C30 A:CNC501 4.3 74.2 1.0 C47 A:CNC501 4.6 33.3 1.0 N1B A:CNC501 4.6 29.1 0.9 C41 A:CNC501 4.7 32.1 1.0 C8B A:CNC501 4.7 26.1 1.0 C35 A:CNC501 4.9 30.4 1.0 C53 A:CNC501 4.9 30.1 1.0

Cobalt binding site 2 out of 2 in the Tc:CD320


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Tc:CD320 within 5.0Å range: probe atom residue distance (Å) B Occ B:Co501 b:34.3 occ:1.00 CO B:CNC501 0.0 34.3 1.0 N24 B:CNC501 1.7 31.2 0.5 N22 B:CNC501 1.8 38.9 0.7 N21 B:CNC501 1.8 43.6 1.0 N23 B:CNC501 1.8 41.2 1.0 C1A B:CNC501 2.1 61.6 1.0 N3B B:CNC501 2.5 28.6 1.0 C19 B:CNC501 2.7 32.0 1.0 C9 B:CNC501 2.7 40.1 1.0 C11 B:CNC501 2.8 43.8 1.0 C1 B:CNC501 2.8 36.8 1.0 C16 B:CNC501 2.9 29.1 1.0 C4 B:CNC501 2.9 53.3 0.4 C6 B:CNC501 3.0 36.8 1.0 C14 B:CNC501 3.0 46.5 0.5 N1A B:CNC501 3.3 64.6 1.0 C10 B:CNC501 3.4 26.9 1.0 C15 B:CNC501 3.4 35.2 1.0 C5 B:CNC501 3.5 32.6 1.0 C2B B:CNC501 3.5 25.1 1.0 C9B B:CNC501 3.6 34.2 1.0 C20 B:CNC501 3.7 25.5 0.9 C18 B:CNC501 3.9 34.7 1.0 C4B B:CNC501 4.0 31.4 1.0 C26 B:CNC501 4.0 31.7 1.0 C2 B:CNC501 4.1 35.0 0.3 C17 B:CNC501 4.1 38.2 1.0 C8 B:CNC501 4.1 37.5 1.0 C12 B:CNC501 4.1 39.3 1.0 C13 B:CNC501 4.2 39.0 1.0 C7 B:CNC501 4.2 32.1 0.6 C30 B:CNC501 4.2 51.6 1.0 C3 B:CNC501 4.2 51.4 1.0 N1B B:CNC501 4.7 26.5 0.7 C8B B:CNC501 4.7 25.9 1.0 C41 B:CNC501 4.9 36.6 1.0 C53 B:CNC501 4.9 31.6 1.0 C47 B:CNC501 4.9 35.7 1.0 C35 B:CNC501 5.0 30.2 0.7

A.Alam, J.S.Woo, J.Schmitz, B.Prinz, K.Root, F.Chen, J.S.Bloch, R.Zenobi, K.P.Locher. Structural Basis of Transcobalamin Recognition By Human CD320 Receptor. Nat Commun V. 7 12100 2016.
ISSN: ESSN 2041-1723
PubMed: 27411955
DOI: 10.1038/NCOMMS12100