Cobalt in PDB 2bb6: Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form

The structure of Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form, PDB code: 2bb6 was solved by J.Wuerges, G.Garau, S.Geremia, S.N.Fedosov, T.E.Petersen, L.Randaccio, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	18.00 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	95.826, 100.664, 99.143, 90.00, 97.16, 90.00
R / Rfree (%)	24.1 / 28

The structure of Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Cobalt atom in the Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form (pdb code 2bb6). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 4 binding sites of Cobalt where determined in the Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form, PDB code: 2bb6:
Jump to Cobalt binding site number: 1; 2; 3; 4;

Cobalt binding site 1 out of 4 in the Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Co0 b:11.7 occ:1.00 CO A:B120 0.0 11.7 1.0 N21 A:B120 1.9 10.6 1.0 N24 A:B120 1.9 12.1 1.0 N23 A:B120 1.9 13.0 1.0 N22 A:B120 1.9 11.8 1.0 N3B A:B120 2.1 9.7 1.0 NE2 A:HIS175 2.1 26.1 1.0 C19 A:B120 2.8 11.5 1.0 C11 A:B120 2.9 13.9 1.0 C9 A:B120 2.9 12.1 1.0 C1 A:B120 2.9 10.5 1.0 C4 A:B120 2.9 10.6 1.0 CE1 A:HIS175 2.9 29.9 1.0 C16 A:B120 3.0 11.3 1.0 C14 A:B120 3.0 12.9 1.0 C6 A:B120 3.0 10.1 1.0 C2B A:B120 3.0 12.0 1.0 C10 A:B120 3.2 12.3 1.0 C9B A:B120 3.2 9.7 1.0 CD2 A:HIS175 3.2 30.6 1.0 C5 A:B120 3.3 10.2 1.0 C15 A:B120 3.4 12.9 1.0 C20 A:B120 3.6 7.7 1.0 C4B A:B120 3.8 7.3 1.0 C2 A:B120 4.1 11.4 1.0 C18 A:B120 4.1 12.1 1.0 ND1 A:HIS175 4.1 33.0 1.0 C3 A:B120 4.1 10.7 1.0 C8 A:B120 4.2 15.3 1.0 C12 A:B120 4.2 16.7 1.0 N1B A:B120 4.2 11.3 1.0 C17 A:B120 4.2 12.5 1.0 C13 A:B120 4.2 15.7 1.0 CG A:HIS175 4.3 34.2 1.0 C7 A:B120 4.3 14.4 1.0 C8B A:B120 4.3 9.8 1.0 C26 A:B120 4.5 14.1 1.0 C46 A:B120 4.8 19.5 1.0 C35 A:B120 4.8 11.3 1.0 C41 A:B120 4.8 15.0 1.0 C53 A:B120 4.9 14.7 1.0

Cobalt binding site 2 out of 4 in the Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Co0 b:12.0 occ:1.00 CO B:B120 0.0 12.0 1.0 N21 B:B120 1.9 9.6 1.0 N24 B:B120 1.9 13.5 1.0 N22 B:B120 1.9 12.8 1.0 N23 B:B120 1.9 14.1 1.0 N3B B:B120 2.1 11.2 1.0 NE2 B:HIS175 2.1 27.9 1.0 C9 B:B120 2.9 12.1 1.0 C11 B:B120 2.9 14.8 1.0 C19 B:B120 2.9 12.0 1.0 C1 B:B120 2.9 10.0 1.0 C4 B:B120 2.9 10.6 1.0 CE1 B:HIS175 2.9 31.7 1.0 C16 B:B120 3.0 11.6 1.0 C14 B:B120 3.0 14.4 1.0 C2B B:B120 3.0 12.7 1.0 C6 B:B120 3.0 10.6 1.0 C10 B:B120 3.2 13.8 1.0 C9B B:B120 3.2 11.4 1.0 CD2 B:HIS175 3.3 32.2 1.0 C5 B:B120 3.4 10.8 1.0 C15 B:B120 3.4 14.9 1.0 C20 B:B120 3.5 7.3 1.0 C4B B:B120 3.8 10.6 1.0 C2 B:B120 4.1 11.3 1.0 C18 B:B120 4.1 13.5 1.0 ND1 B:HIS175 4.1 35.1 1.0 C8 B:B120 4.2 13.4 1.0 C3 B:B120 4.2 11.2 1.0 C12 B:B120 4.2 19.4 1.0 N1B B:B120 4.2 11.7 1.0 C17 B:B120 4.2 13.5 1.0 C13 B:B120 4.2 18.6 1.0 C7 B:B120 4.3 13.7 1.0 CG B:HIS175 4.3 36.1 1.0 C8B B:B120 4.3 12.2 1.0 C26 B:B120 4.5 13.6 1.0 C46 B:B120 4.8 21.9 1.0 C35 B:B120 4.9 11.8 1.0 C41 B:B120 4.9 14.4 1.0 C53 B:B120 4.9 15.8 1.0

Cobalt binding site 3 out of 4 in the Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ C:Co0 b:12.6 occ:1.00 CO C:B120 0.0 12.6 1.0 N21 C:B120 1.9 9.1 1.0 N24 C:B120 1.9 11.6 1.0 N22 C:B120 1.9 12.3 1.0 N23 C:B120 1.9 16.5 1.0 N3B C:B120 2.1 12.2 1.0 NE2 C:HIS175 2.1 30.2 1.0 C9 C:B120 2.8 14.8 1.0 C11 C:B120 2.9 19.4 1.0 C4 C:B120 2.9 10.2 1.0 C19 C:B120 2.9 11.4 1.0 C1 C:B120 2.9 7.5 1.0 CE1 C:HIS175 2.9 33.9 1.0 C16 C:B120 3.0 14.1 1.0 C6 C:B120 3.0 11.8 1.0 C14 C:B120 3.0 18.1 1.0 C2B C:B120 3.0 14.9 1.0 C10 C:B120 3.2 16.4 1.0 C9B C:B120 3.2 13.3 1.0 CD2 C:HIS175 3.3 34.8 1.0 C5 C:B120 3.3 9.9 1.0 C15 C:B120 3.4 18.5 1.0 C20 C:B120 3.5 7.5 1.0 C4B C:B120 3.8 11.2 1.0 C2 C:B120 4.1 8.6 1.0 ND1 C:HIS175 4.1 36.9 1.0 C18 C:B120 4.1 11.3 1.0 C8 C:B120 4.1 13.0 1.0 C3 C:B120 4.2 8.9 1.0 C12 C:B120 4.2 22.6 1.0 N1B C:B120 4.2 16.7 1.0 C13 C:B120 4.2 23.5 1.0 C17 C:B120 4.2 14.0 1.0 C7 C:B120 4.3 13.8 1.0 CG C:HIS175 4.3 38.4 1.0 C8B C:B120 4.3 16.2 1.0 C26 C:B120 4.5 9.2 1.0 C35 C:B120 4.8 8.1 1.0 C46 C:B120 4.9 22.4 1.0 C53 C:B120 4.9 23.1 1.0 C41 C:B120 4.9 13.5 1.0 C48 C:B120 5.0 26.3 1.0

Cobalt binding site 4 out of 4 in the Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Structure of Cobalamin-Complexed Bovine Transcobalamin in Monoclinic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ D:Co0 b:12.9 occ:1.00 CO D:B120 0.0 12.9 1.0 N21 D:B120 1.9 10.2 1.0 N24 D:B120 1.9 11.9 1.0 N22 D:B120 1.9 10.3 1.0 N23 D:B120 2.0 14.2 1.0 N3B D:B120 2.1 11.3 1.0 NE2 D:HIS175 2.1 30.1 1.0 C9 D:B120 2.8 13.4 1.0 C19 D:B120 2.9 12.1 1.0 C1 D:B120 2.9 9.6 1.0 CE1 D:HIS175 2.9 34.0 1.0 C11 D:B120 2.9 16.0 1.0 C4 D:B120 2.9 10.8 1.0 C6 D:B120 3.0 12.1 1.0 C16 D:B120 3.0 12.2 1.0 C14 D:B120 3.0 15.9 1.0 C2B D:B120 3.0 13.8 1.0 C9B D:B120 3.2 12.5 1.0 C10 D:B120 3.2 12.7 1.0 CD2 D:HIS175 3.3 34.6 1.0 C5 D:B120 3.4 11.0 1.0 C15 D:B120 3.4 17.5 1.0 C20 D:B120 3.5 9.2 1.0 C4B D:B120 3.7 10.2 1.0 C2 D:B120 4.1 10.4 1.0 ND1 D:HIS175 4.1 36.8 1.0 C18 D:B120 4.1 11.4 1.0 C8 D:B120 4.1 13.0 1.0 C3 D:B120 4.2 11.3 1.0 N1B D:B120 4.2 14.7 1.0 C17 D:B120 4.2 13.5 1.0 C7 D:B120 4.2 14.2 1.0 C12 D:B120 4.3 18.4 1.0 C13 D:B120 4.3 19.8 1.0 C8B D:B120 4.3 13.7 1.0 CG D:HIS175 4.3 38.1 1.0 C26 D:B120 4.5 12.0 1.0 C41 D:B120 4.8 15.2 1.0 C35 D:B120 4.9 10.2 1.0 C46 D:B120 4.9 19.4 1.0 C53 D:B120 4.9 19.7 1.0 C37 D:B120 5.0 15.5 1.0

J.Wuerges, G.Garau, S.Geremia, S.N.Fedosov, T.E.Petersen, L.Randaccio. Structural Basis For Mammalian Vitamin B12 Transport By Transcobalamin. Proc.Natl.Acad.Sci.Usa V. 103 4386 2006.
ISSN: ISSN 0027-8424
PubMed: 16537422
DOI: 10.1073/PNAS.0509099103