2Q5B

High resolution structure of Plastocyanin from Phormidium laminosum

• PDB DOI: https://doi.org/10.2210/pdb2Q5B/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Phormidium laminosum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-05-31 Released: 2008-06-17 
• Deposition Author(s): Fromme, R., Bukhman-DeRuyter, Y.S., Grotjohann, I., Mi, H., Fromme, P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.210 
• R-Value Work: 0.190 
• R-Value Observed: 0.191 

Literature

Plastocyanin at high resolution from Phormidium laminosum and the double mutant D44A, D45A

Bukhman-DeRuyter, Y.S., Fromme, R., Grotjohann, I., Schlarb-Ridley, B., Mi, H., Fromme, P.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PQS (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA,PQS (software)

Biological Assembly 3  

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

Biological assembly 3 assigned by authors and generated by PQS (software)

Biological Assembly 4  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 4 generated by PISA (software)

Biological Assembly 5  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 5 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 35 kDa 
• Atom Count: 2,716 
• Modelled Residue Count: 315 
• Deposited Residue Count: 315 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Plastocyanin	A, B, C	105	Phormidium laminosum	Mutation(s): 0  Gene Names: petE
UniProt
Find proteins for Q51883 (Phormidium laminosum) Explore Q51883  Go to UniProtKB:  Q51883

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	E [auth A], J [auth B], M [auth C], N [auth C]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CU	D [auth A], I [auth B], L [auth C]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N
ACT	H [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
K	F [auth A], G [auth A], K [auth B], O [auth C], P [auth C]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.210 
• R-Value Work: 0.190 
• R-Value Observed: 0.191 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.329	α = 90
b = 84.329	β = 90
c = 90.536	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-06-17 
Deposition Author(s): Fromme, R., Bukhman-DeRuyter, Y.S., Grotjohann, I., Mi, H., Fromme, P.

Revision History  

• Version 1.0: 2008-06-17
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.2: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description