Zinc in PDB 2xb3: The Structure of Cyanobacterial Psbp

The structure of The Structure of Cyanobacterial Psbp, PDB code: 2xb3 was solved by F.Michoux, K.Takasaka, P.Nixon, J.W.Murray, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.08 / 2.80
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	64.946, 64.946, 81.806, 90.00, 90.00, 120.00
R / Rfree (%)	19.2 / 23.8

The binding sites of Zinc atom in the The Structure of Cyanobacterial Psbp (pdb code 2xb3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the The Structure of Cyanobacterial Psbp, PDB code: 2xb3:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the The Structure of Cyanobacterial Psbp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Structure of Cyanobacterial Psbp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:7.2 occ:0.96 OD2 A:ASP31 2.0 28.9 1.0 OD2 A:ASP34 2.2 37.6 1.0 OD2 A:ASP54 2.2 22.0 1.0 CG A:ASP31 2.8 31.0 1.0 OD1 A:ASP54 2.8 19.0 1.0 CG A:ASP54 2.9 21.3 1.0 OD1 A:ASP31 3.0 28.1 1.0 CG A:ASP34 3.0 36.0 1.0 CB A:ASP34 3.2 33.9 1.0 OH A:TYR36 4.0 26.4 1.0 OH A:TYR29 4.2 31.0 1.0 CB A:ASP31 4.2 31.8 1.0 OD1 A:ASP34 4.2 38.8 1.0 CE2 A:TYR36 4.4 26.8 1.0 CB A:ASP54 4.4 20.8 1.0 CA A:ASP34 4.5 35.1 1.0 N A:ASP34 4.5 37.0 1.0 CZ A:TYR36 4.5 26.2 1.0 O A:HOH2001 4.6 29.9 1.0 CB A:TYR33 4.9 41.8 1.0

Zinc binding site 2 out of 5 in the The Structure of Cyanobacterial Psbp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Structure of Cyanobacterial Psbp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1002 b:6.1 occ:0.91 OE2 A:GLU87 2.0 30.0 1.0 O A:HOH2019 2.2 15.0 1.0 OD2 A:ASP91 2.2 25.3 1.0 OD1 A:ASP91 2.5 16.8 1.0 CG A:ASP91 2.7 24.9 1.0 CD A:GLU87 2.8 31.9 1.0 OE1 A:GLU87 3.1 33.2 1.0 CB A:ASP91 4.2 27.0 1.0 CG A:GLU87 4.2 30.5 1.0 O A:GLU87 4.8 28.5 1.0

Zinc binding site 3 out of 5 in the The Structure of Cyanobacterial Psbp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The Structure of Cyanobacterial Psbp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1003 b:15.9 occ:0.50 OE2 A:GLU170 2.4 27.7 1.0 OE1 A:GLU170 2.5 34.1 1.0 CD A:GLU170 2.8 28.8 1.0 CG A:GLU170 4.3 26.4 1.0 O A:HOH2014 4.4 32.2 1.0 NZ A:LYS174 4.4 41.4 1.0

Zinc binding site 4 out of 5 in the The Structure of Cyanobacterial Psbp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of The Structure of Cyanobacterial Psbp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1004 b:14.8 occ:0.66 OE2 A:GLU163 1.9 39.0 1.0 ND1 A:HIS142 2.1 25.5 1.0 CD A:GLU163 2.5 33.9 1.0 O A:HOH2020 2.5 18.2 1.0 OE1 A:GLU163 2.6 31.6 1.0 CE1 A:HIS142 2.8 26.0 1.0 CG A:HIS142 3.2 24.4 1.0 CB A:HIS142 3.7 25.4 1.0 CG A:GLU163 4.0 30.6 1.0 NE2 A:HIS142 4.0 24.4 1.0 CD2 A:HIS142 4.2 23.4 1.0 O A:HOH2017 4.6 41.3 1.0 CD1 A:TRP166 4.6 23.6 1.0 CD1 A:ILE110 4.7 14.9 1.0 CG A:TRP166 4.7 22.0 1.0 CB A:TRP166 4.8 22.5 1.0 CA A:HIS142 4.8 25.8 1.0 CB A:GLU163 4.9 26.5 1.0 CA A:GLU163 4.9 24.1 1.0

Zinc binding site 5 out of 5 in the The Structure of Cyanobacterial Psbp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of The Structure of Cyanobacterial Psbp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1005 b:56.5 occ:1.00 OD1 A:ASP59 2.0 42.0 1.0 CG A:ASP59 3.0 37.2 1.0 OD2 A:ASP59 3.4 38.4 1.0 NE1 A:TRP44 4.2 23.5 1.0 CB A:ASP59 4.3 34.5 1.0 CD1 A:ILE61 4.5 56.7 1.0 CD1 A:TRP44 4.5 23.1 1.0

F.Michoux, K.Takasaka, M.Boehm, P.Nixon, J.W.Murray. The Structure of Cyanop at 2.8A: Implications For the Evolution and Function of the Psbp Subunit of Photosystem II. Biochemistry V. 49 7411 2010.
ISSN: ISSN 0006-2960
PubMed: 20698571
DOI: 10.1021/BI1011145