Copper in PDB 6nfq: Copc From Pseudomonas Fluorescens

The structure of Copc From Pseudomonas Fluorescens, PDB code: 6nfq was solved by M.J.Maher, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.00 / 2.00
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	77.730, 111.319, 82.222, 90.00, 90.00, 90.00
R / Rfree (%)	22.8 / 26

The structure of Copc From Pseudomonas Fluorescens also contains other interesting chemical elements:

Yttrium

(Y)

1 atom

The binding sites of Copper atom in the Copc From Pseudomonas Fluorescens (pdb code 6nfq). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 3 binding sites of Copper where determined in the Copc From Pseudomonas Fluorescens, PDB code: 6nfq:
Jump to Copper binding site number: 1; 2; 3;

Copper binding site 1 out of 3 in the Copc From Pseudomonas Fluorescens


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Copc From Pseudomonas Fluorescens within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu201 b:19.4 occ:1.00 ND1 A:HIS109 1.8 55.5 1.0 N A:HIS25 2.2 52.0 1.0 ND1 A:HIS25 2.3 52.8 1.0 OD2 A:ASP107 2.6 56.1 1.0 CG A:HIS109 2.8 55.6 1.0 CE1 A:HIS109 2.8 59.1 1.0 CA A:HIS25 3.0 46.6 1.0 CG A:HIS25 3.1 50.3 1.0 CE1 A:HIS25 3.1 50.6 1.0 CB A:HIS109 3.2 50.5 1.0 CG A:ASP107 3.3 54.9 1.0 OD1 A:ASP107 3.4 62.0 1.0 CB A:HIS25 3.4 47.0 1.0 NE2 A:HIS109 3.9 60.3 1.0 CD2 A:HIS109 3.9 58.5 1.0 NE2 A:HIS25 4.0 53.4 1.0 CD2 A:HIS25 4.0 50.4 1.0 C A:HIS25 4.4 40.6 1.0 CA A:HIS109 4.6 46.3 1.0 OE1 A:GLU51 4.7 57.4 1.0 OE2 A:GLU51 4.8 59.4 1.0 CB A:ASP107 4.8 55.5 1.0 OG A:SER105 4.9 56.8 1.0 O A:HIS25 4.9 43.1 1.0 N A:HIS109 5.0 45.5 1.0

Copper binding site 2 out of 3 in the Copc From Pseudomonas Fluorescens


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Copc From Pseudomonas Fluorescens within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu201 b:15.5 occ:1.00 ND1 B:HIS109 2.1 41.1 1.0 OD2 B:ASP107 2.1 49.5 1.0 N B:HIS25 2.1 39.1 1.0 ND1 B:HIS25 2.3 44.6 1.0 CG B:HIS109 2.9 36.3 1.0 CA B:HIS25 3.0 39.9 1.0 CE1 B:HIS25 3.0 49.0 1.0 CB B:HIS109 3.0 31.0 1.0 CG B:HIS25 3.1 46.7 1.0 CE1 B:HIS109 3.2 38.3 1.0 CG B:ASP107 3.3 47.0 1.0 CB B:HIS25 3.5 46.3 1.0 NE2 B:HIS25 3.9 46.0 1.0 CD2 B:HIS25 3.9 46.3 1.0 CB B:ASP107 4.0 44.2 1.0 CD2 B:HIS109 4.1 37.6 1.0 NE2 B:HIS109 4.2 38.9 1.0 OE1 B:GLU51 4.2 38.8 1.0 OD1 B:ASP107 4.2 68.4 1.0 C B:HIS25 4.4 40.5 1.0 CA B:HIS109 4.5 31.9 1.0 N B:HIS109 4.9 28.9 1.0 O B:HIS25 4.9 38.3 1.0

Copper binding site 3 out of 3 in the Copc From Pseudomonas Fluorescens


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Copc From Pseudomonas Fluorescens within 5.0Å range: probe atom residue distance (Å) B Occ C:Cu201 b:15.2 occ:1.00 ND1 C:HIS25 1.9 43.2 1.0 N C:HIS25 2.2 43.6 1.0 ND1 C:HIS109 2.3 45.5 1.0 OD2 C:ASP107 2.4 42.8 1.0 CE1 C:HIS25 2.7 51.2 1.0 CG C:HIS109 2.9 42.0 1.0 CG C:HIS25 3.0 43.9 1.0 CB C:HIS109 3.1 38.8 1.0 CA C:HIS25 3.1 37.6 1.0 CE1 C:HIS109 3.3 49.5 1.0 CG C:ASP107 3.3 46.8 1.0 CB C:HIS25 3.4 37.2 1.0 OD1 C:ASP107 3.5 40.7 1.0 NE2 C:HIS25 3.9 52.0 1.0 CD2 C:HIS25 4.0 43.3 1.0 CD2 C:HIS109 4.0 46.2 1.0 NE2 C:HIS109 4.2 49.3 1.0 C C:HIS25 4.5 36.5 1.0 CA C:HIS109 4.5 39.6 1.0 OE2 C:GLU51 4.5 51.7 1.0 CB C:ASP107 4.7 42.2 1.0 N C:HIS109 4.9 41.1 1.0

S.R.Udagedara, C.J.K.Wijekoon, Z.Xiao, A.G.Wedd, M.J.Maher. The Crystal Structure of the Copc Protein From Pseudomonas Fluorescens Reveals Amended Classifications For the Copc Protein Family. J. Inorg. Biochem. V. 195 194 2019.
ISSN: ISSN 1873-3344
PubMed: 30981030
DOI: 10.1016/J.JINORGBIO.2019.03.007