4HKU | pdb_00004hku

The crystal structure of TetR transcriptional regulator (lmo2814) from Listeria monocytogenes EGD-e

• PDB DOI: https://doi.org/10.2210/pdb4HKU/pdb

• Classification: TRANSCRIPTION
• Organism(s): Listeria monocytogenes EGD-e
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-10-15 Released: 2012-10-31 
• Deposition Author(s): Tan, K., Mack, J.C., Endres, M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.257 (Depositor), 0.251 (DCC) 
• R-Value Work: 
  0.195 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.198 (Depositor) 

Literature

The crystal structure of TetR transcriptional regulator (lmo2814) from Listeria monocytogenes EGD-e

Tan, K., Mack, J.C., Endres, M., Joachimiak, A.

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: 42.52 kDa 
• Atom Count: 2,932 
• Modeled Residue Count: 347 
• Deposited Residue Count: 356 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TetR transcriptional regulator	A, B	178	Listeria monocytogenes EGD-e	Mutation(s): 0  Gene Names: lmo2814
UniProt
Find proteins for Q8Y3M1 (Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)) Explore Q8Y3M1  Go to UniProtKB:  Q8Y3M1

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.257 (Depositor), 0.251 (DCC) 
• R-Value Work:  0.195 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.198 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.668	α = 90
b = 81.56	β = 90
c = 105.425	γ = 90

Software Package:

Software Name	Purpose
SBC-Collect	data collection
SHELXD	phasing
MLPHARE	phasing
DM	model building
ARP	model building
WARP	model building
HKL-3000	phasing
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
DM	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-10-31 
Deposition Author(s): Tan, K., Mack, J.C., Endres, M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2012-10-31
  Type: Initial release
  
• Version 1.1: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary