1OMI

Crystal structure of PrfA,the transcriptional regulator in Listeria monocytogenes

• PDB DOI: https://doi.org/10.2210/pdb1OMI/pdb

• Classification: TRANSCRIPTION
• Organism(s): Listeria monocytogenes
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2003-02-25 Released: 2003-03-11 
• Deposition Author(s): Thirumuruhan, R., Rajashankar, K., Fedorov, A.A., Dodatko, T., Chance, M.R., Cossart, P., Almo, S.C., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.278 
• R-Value Work: 0.244 
• R-Value Observed: 0.248 

Literature

Crystal structure of PrfA, the transcriptional regulator in Listeria monocytogenes

Thirumuruhan, R., Rajashankar, K., Fedorov, A.A., Dodatko, T., Chance, M.R., Cossart, P., Almo, S.C.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 56.88 kDa 
• Atom Count: 3,700 
• Modelled Residue Count: 451 
• Deposited Residue Count: 496 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Listeriolysin regulatory protein	A, B	248	Listeria monocytogenes	Mutation(s): 0  Gene Names: PRFA OR LMO0200
UniProt
Find proteins for P22262 (Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)) Explore P22262  Go to UniProtKB:  P22262

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.278 
• R-Value Work: 0.244 
• R-Value Observed: 0.248 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.43	α = 90
b = 72.091	β = 90
c = 114.335	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-03-11 
Deposition Author(s): Thirumuruhan, R., Rajashankar, K., Fedorov, A.A., Dodatko, T., Chance, M.R., Cossart, P., Almo, S.C., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2003-03-11
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2021-02-03
  Changes: Database references, Derived calculations, Structure summary
• Version 1.4: 2024-02-14
  Changes: Data collection, Database references