Cobalt in PDB 7dvr: Crystal Structure of Heme Sensor Protein Pefr From Streptococcus Agalactiae in Complex with Heme

The structure of Crystal Structure of Heme Sensor Protein Pefr From Streptococcus Agalactiae in Complex with Heme, PDB code: 7dvr was solved by M.Nishinaga, S.Nagai, Y.Nishitani, H.Sugimoto, Y.Shiro, H.Sawai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.13 / 1.70
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	68.899, 32.149, 76.654, 90, 95.07, 90
R / Rfree (%)	23.7 / 28.5

The structure of Crystal Structure of Heme Sensor Protein Pefr From Streptococcus Agalactiae in Complex with Heme also contains other interesting chemical elements:

Iron

(Fe)

1 atom

The binding sites of Cobalt atom in the Crystal Structure of Heme Sensor Protein Pefr From Streptococcus Agalactiae in Complex with Heme (pdb code 7dvr). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total only one binding site of Cobalt was determined in the Crystal Structure of Heme Sensor Protein Pefr From Streptococcus Agalactiae in Complex with Heme, PDB code: 7dvr:

Cobalt binding site 1 out of 1 in the Crystal Structure of Heme Sensor Protein Pefr From Streptococcus Agalactiae in Complex with Heme


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of Heme Sensor Protein Pefr From Streptococcus Agalactiae in Complex with Heme within 5.0Å range: probe atom residue distance (Å) B Occ A:Co202 b:48.2 occ:0.60 O A:HOH304 3.1 43.0 1.0 N A:LYS85 3.5 58.0 1.0 CA A:SER84 3.9 54.4 1.0 OH A:TYR94 4.1 39.1 1.0 CB A:LYS85 4.2 69.0 1.0 C A:SER84 4.2 56.1 1.0 CD2 A:TYR92 4.3 41.5 1.0 OG A:SER84 4.3 54.4 1.0 CA A:LYS85 4.5 62.4 1.0 CE2 A:TYR92 4.5 41.0 1.0 CB A:SER84 4.6 55.8 1.0 O A:PRO83 4.7 55.1 1.0 N A:SER84 4.9 55.2 1.0

M.Nishinaga, H.Sugimoto, Y.Nishitani, S.Nagai, S.Nagatoishi, N.Muraki, T.Tosha, K.Tsumoto, S.Aono, Y.Shiro, H.Sawai. Heme Controls the Structural Rearrangement of Its Sensor Protein Mediating the Hemolytic Bacterial Survival. Commun Biol V. 4 467 2021.
ISSN: ESSN 2399-3642
PubMed: 33850260
DOI: 10.1038/S42003-021-01987-5