4Q70 | pdb_00004q70

Light Harvesting Protein Phycocyanin in high resolution using a femtosecond X-Ray laser

• PDB DOI: https://doi.org/10.2210/pdb4Q70/pdb

• Classification: PHOTOSYNTHESIS
• Organism(s): Thermosynechococcus vestitus BP-1
• Mutation(s): No 


• Deposited: 2014-04-23 Released: 2015-05-06 
• Deposition Author(s): Fromme, R., Roy-Chowdhury, S., Basu, S., Yoon, C., Fromme, P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.275 (Depositor), 0.273 (DCC) 
• R-Value Work: 
  0.204 (Depositor), 0.209 (DCC) 
• R-Value Observed: 
  0.208 (Depositor) 

Literature

Observations on the Light Harvesting Protein Phycocyanin structure in high resolution using a femtosecond X-Ray laser

Fromme, R., Roy-Chowdhury, S., Basu, S., Yoon, C., Brune, D., Fromme, P.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A3B3 Pseudo Symmetry: Cyclic - C3  (Explore in 3D)
Pseudo Stoichiometry: Homo 6-mer - A6 

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

Biological Assembly 2  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Hetero 12-mer - A6B6 Pseudo Symmetry: Dihedral - D3  (Explore in 3D)
Pseudo Stoichiometry: Homo 12-mer - A12 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 37.44 kDa 
• Atom Count: 2,815 
• Modeled Residue Count: 334 
• Deposited Residue Count: 334 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
C-phycocyanin alpha chain	A	162	Thermosynechococcus vestitus BP-1	Mutation(s): 0
UniProt
Find proteins for P50032 (Thermosynechococcus vestitus (strain NIES-2133 / IAM M-273 / BP-1)) Explore P50032  Go to UniProtKB:  P50032

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
C-phycocyanin beta chain	B	172	Thermosynechococcus vestitus BP-1	Mutation(s): 0
UniProt
Find proteins for P50033 (Thermosynechococcus vestitus (strain NIES-2133 / IAM M-273 / BP-1)) Explore P50033  Go to UniProtKB:  P50033

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CYC	C [auth A], D [auth B], E [auth B]	PHYCOCYANOBILIN C33 H40 N4 O6 VXTXPYZGDQPMHK-GMXXPEQVSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MEN	B	L-PEPTIDE LINKING	C5 H10 N2 O3		ASN

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free:  0.275 (Depositor), 0.273 (DCC) 
• R-Value Work:  0.204 (Depositor), 0.209 (DCC) 
• R-Value Observed: 0.208 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 192.8	α = 90
b = 192.8	β = 90
c = 62.5	γ = 120

Software Package:

Software Name	Purpose
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
Cheetah	data collection
CrystFEL	data reduction
CrystFEL	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-05-06 
Deposition Author(s): Fromme, R., Roy-Chowdhury, S., Basu, S., Yoon, C., Fromme, P.

Revision History  

• Version 1.0: 2015-05-06
  Type: Initial release
  
• Version 1.1: 2018-02-14
  Changes: Data collection
• Version 1.2: 2025-03-26
  Changes: Data collection, Database references, Derived calculations, Structure summary