Zinc in PDB 5vjt: De Novo Photosynthetic Reaction Center Protein Equipped with Heme B and Zn(II) Cations

The structure of De Novo Photosynthetic Reaction Center Protein Equipped with Heme B and Zn(II) Cations, PDB code: 5vjt was solved by N.M.Ennist, S.E.Stayrook, P.L.Dutton, C.C.Moser, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.21 / 1.45
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	43.747, 43.747, 245.522, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 23.6

The structure of De Novo Photosynthetic Reaction Center Protein Equipped with Heme B and Zn(II) Cations also contains other interesting chemical elements:

Iron	(Fe)	2 atoms
Chlorine	(Cl)	3 atoms

The binding sites of Zinc atom in the De Novo Photosynthetic Reaction Center Protein Equipped with Heme B and Zn(II) Cations (pdb code 5vjt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the De Novo Photosynthetic Reaction Center Protein Equipped with Heme B and Zn(II) Cations, PDB code: 5vjt:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the De Novo Photosynthetic Reaction Center Protein Equipped with Heme B and Zn(II) Cations


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of De Novo Photosynthetic Reaction Center Protein Equipped with Heme B and Zn(II) Cations within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:15.1 occ:0.90 NE2 A:HIS138 1.8 12.3 1.0 OD1 A:ASP134 2.0 16.2 1.0 OD2 A:ASP63 2.0 17.2 1.0 CL A:CL205 2.3 18.9 1.0 CG A:ASP134 2.8 16.2 1.0 CD2 A:HIS138 2.8 14.9 1.0 CE1 A:HIS138 2.9 15.1 1.0 OD2 A:ASP134 2.9 18.1 1.0 CG A:ASP63 3.0 17.0 1.0 CB A:ASP63 3.3 15.5 1.0 O A:HOH353 3.9 33.6 1.0 CG A:HIS138 4.0 14.3 1.0 ND1 A:HIS138 4.0 16.1 1.0 O A:HOH419 4.0 49.5 1.0 OD1 A:ASP63 4.1 18.4 1.0 O A:ASP134 4.1 12.9 1.0 CB A:ASP134 4.2 13.4 1.0 CE A:LYS59 4.4 21.4 1.0 NZ A:LYS59 4.6 22.0 1.0 CA A:ASP134 4.7 14.1 1.0 CB A:LYS137 4.7 18.2 1.0 C A:ASP134 4.7 11.4 1.0 CD A:LYS59 4.8 19.3 1.0 CA A:ASP63 4.8 12.7 1.0 O A:HOH462 4.9 48.6 1.0 O A:LYS59 4.9 13.7 1.0 O A:HOH359 5.0 39.4 1.0

Zinc binding site 2 out of 2 in the De Novo Photosynthetic Reaction Center Protein Equipped with Heme B and Zn(II) Cations


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of De Novo Photosynthetic Reaction Center Protein Equipped with Heme B and Zn(II) Cations within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn202 b:16.9 occ:0.60 ND1 A:HIS67 1.9 15.3 1.0 OE2 A:GLU34 1.9 22.9 1.0 OE1 A:GLU64 2.0 16.2 1.0 OE1 A:GLU135 2.0 21.1 1.0 CD A:GLU34 2.7 27.0 1.0 CE1 A:HIS67 2.8 16.4 1.0 CD A:GLU135 2.9 24.5 1.0 CD A:GLU64 2.9 16.7 1.0 OE1 A:GLU34 2.9 37.2 1.0 CG A:HIS67 3.0 14.9 1.0 OE2 A:GLU135 3.0 37.5 1.0 OE2 A:GLU64 3.1 20.6 1.0 CB A:HIS67 3.6 14.5 1.0 O A:HOH304 3.6 29.3 1.0 OH A:TYR168 3.9 20.1 1.0 NE2 A:HIS67 4.0 16.7 1.0 CD2 A:HIS67 4.1 14.8 1.0 CG A:GLU64 4.2 16.0 1.0 CG A:GLU34 4.2 24.0 1.0 CG A:GLU135 4.3 20.7 1.0 CE2 A:TYR168 4.3 18.9 1.0 OE2 A:GLU161 4.5 24.9 0.7 O A:HOH397 4.5 27.2 1.0 CG2 A:ILE131 4.5 18.3 1.0 CA A:GLU64 4.5 12.9 1.0 CZ A:TYR168 4.5 19.5 1.0 CB A:GLU64 4.6 15.3 1.0 CB A:GLU135 4.6 18.9 1.0 O A:GLU64 5.0 14.1 1.0

N.M.Ennist, Z.Zhao, S.E.Stayrook, P.L.Dutton, C.C.Moser. Design, Structure, and Action of An Artificial Photosynthetic Reaction Center Protein To Be Published.