2XB3

The Structure of Cyanobacterial PsbP

• PDB DOI: https://doi.org/10.2210/pdb2XB3/pdb

• Classification: PHOTOSYNTHESIS
• Organism(s): Thermosynechococcus vestitus BP-1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-04-03 Released: 2010-08-25 
• Deposition Author(s): Michoux, F., Takasaka, K., Nixon, P., Murray, J.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.238 
• R-Value Work: 0.192 
• R-Value Observed: 0.194 

Literature

The Structure of Cyanop at 2.8A: Implications for the Evolution and Function of the Psbp Subunit of Photosystem II.

Michoux, F., Takasaka, K., Boehm, M., Nixon, P., Murray, J.W.

(2010) Biochemistry 49: 7411

• PubMed: 20698571 
• DOI: https://doi.org/10.1021/bi1011145
• Primary Citation of Related Structures:  
  2XB3


• PubMed Abstract: 
  

  We present here the crystal structure of CyanoP (Tlr2075) from Thermosynechococcus elongatus at 2.8 A. CyanoP is a substoichiometric component of the isolated cyanobacterial Photosystem II (PSII) complex, distantly related to the PsbP extrinsic subunit of the oxygen-evolving PSII complex in higher plants and green algae. Despite the relatively low degree of sequence similarity, we have found that CyanoP adopts the same beta-sandwich fold as higher-plant PsbP and contains a well-conserved metal (zinc)-binding site that is also present in plant PsbP. Our results support the idea that CyanoP represents the basal structural fold of the PsbP superfamily.

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Organizational Affiliation: 

Division of Biology, Wolfson Biochemistry Building, Imperial College London,South Kensington Campus, London SW7 2AZ, UK.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 18.41 kDa 
• Atom Count: 1,229 
• Modelled Residue Count: 155 
• Deposited Residue Count: 165 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PSBP PROTEIN	A	165	Thermosynechococcus vestitus BP-1	Mutation(s): 0
UniProt
Find proteins for Q8DH84 (Thermosynechococcus vestitus (strain NIES-2133 / IAM M-273 / BP-1)) Explore Q8DH84  Go to UniProtKB:  Q8DH84

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A], C [auth A], D [auth A], E [auth A], F [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.238 
• R-Value Work: 0.192 
• R-Value Observed: 0.194 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.946	α = 90
b = 64.946	β = 90
c = 81.806	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-08-25 
Deposition Author(s): Michoux, F., Takasaka, K., Nixon, P., Murray, J.W.

Revision History  

• Version 1.0: 2010-08-25
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Other