3QFW | pdb_00003qfw

Crystal structure of Rubisco-like protein from Rhodopseudomonas palustris

• PDB DOI: https://doi.org/10.2210/pdb3QFW/pdb

• Classification: LYASE
• Organism(s): Rhodopseudomonas palustris BisB18
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-01-23 Released: 2011-02-09 
• Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Gerlt, J.A., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 
  0.284 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.244 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.246 (Depositor) 

Literature

Crystal structure of Rubisco-like protein from Rhodopseudomonas palustris

Fedorov, A.A., Fedorov, E.V., Gerlt, J.A., Burley, S.K., Almo, S.C.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 79.91 kDa 
• Atom Count: 5,427 
• Modeled Residue Count: 699 
• Deposited Residue Count: 756 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit	A, B	378	Rhodopseudomonas palustris BisB18	Mutation(s): 0  Gene Names: RPC_2184 EC: 4.1.1.39
UniProt
Find proteins for Q216E8 (Rhodopseudomonas palustris (strain BisB18)) Explore Q216E8  Go to UniProtKB:  Q216E8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A], E [auth A], F [auth B], G [auth B], H [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free:  0.284 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.244 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.246 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.44	α = 90
b = 119.217	β = 115.46
c = 66.856	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
PHENIX	model building
PHENIX	refinement
DENZO	data reduction
SCALEPACK	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-02-09 
Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Gerlt, J.A., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2011-02-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-02-10
  Changes: Database references, Derived calculations, Structure summary
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references