3BRP | pdb_00003brp

Crystal Structure of C-Phycocyanin from Galdieria sulphuraria

• PDB DOI: https://doi.org/10.2210/pdb3BRP/pdb

• Classification: PHOTOSYNTHESIS
• Organism(s): Galdieria sulphuraria
• Mutation(s): No 


• Deposited: 2007-12-21 Released: 2009-02-24 
• Deposition Author(s): Fromme, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.231 (Depositor), 0.241 (DCC) 
• R-Value Work: 
  0.182 (Depositor), 0.191 (DCC) 
• R-Value Observed: 
  0.185 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of C-Phycocyanin from Galdieria sulphuraria at 1.85 A

Fromme, R., Thangaraj, B., Vanselow, C., Fromme, P.

To be published.

Biological Assembly 1  

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 1 generated by PISA (software)

Biological Assembly 2  

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 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 37.52 kDa 
• Atom Count: 2,933 
• Modeled Residue Count: 329 
• 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	Galdieria sulphuraria	Mutation(s): 0
UniProt
Find proteins for P00306 (Galdieria sulphuraria) Explore P00306  Go to UniProtKB:  P00306

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
C-phycocyanin beta chain	B	172	Galdieria sulphuraria	Mutation(s): 0
UniProt
Find proteins for P00311 (Galdieria sulphuraria) Explore P00311  Go to UniProtKB:  P00311

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BLA	C [auth A], D [auth B], E [auth B]	BILIVERDINE IX ALPHA C33 H34 N4 O6 GWZYPXHJIZCRAJ-SRVCBVSDSA-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:  0.231 (Depositor), 0.241 (DCC) 
• R-Value Work:  0.182 (Depositor), 0.191 (DCC) 
• R-Value Observed: 0.185 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.818	α = 90
b = 102.818	β = 90
c = 172.883	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-3000	data collection
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing
ARP	model building
WARP	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-02-24 
Deposition Author(s): Fromme, R.

Revision History  

• Version 1.0: 2009-02-24
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description