Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 67.86 kDa 
• Atom Count: 4917 
• Modelled Residue Count: 592 
• Deposited Residue Count: 610 
• Unique protein chains: 1

3FXQ

Crystal structure of the LysR-type transcriptional regulator TsaR

• PDB DOI: 10.2210/pdb3FXQ/pdb

• Classification: Transcription regulator
• Organism(s): Comamonas testosteroni
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-01-21 Released: 2010-01-26 
• Deposition Author(s): Monferrer, D., Tralau, T., Kertesz, M.A., Kikhney, A., Svergun, D., Uson, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.213 
• R-Value Work: 0.180 
• R-Value Observed: 0.182 

Literature

Structural studies on the full-length LysR-type regulator TsaR from Comamonas testosteroni T-2 reveal a novel open conformation of the tetrameric LTTR fold

Monferrer, D., Tralau, T., Kertesz, M.A., Dix, I., Sola, M., Uson, I.

(2010) Mol Microbiol 75: 1199-1214

• PubMed: 20059681 
• DOI: 10.1111/j.1365-2958.2010.07043.x
• Primary Citation of Related Structures:  
  3FXQ, 3FXR, 3FXU, 3FZJ


• PubMed Abstract: 
  

LysR-type transcriptional regulators (LTTRs) constitute the largest family of regulators in prokaryotes. The full-length structures of the LTTR TsaR from Comamonas testosteroni T-2 and its complex with the natural inducer para-toluensulfonate have been characterized by X-ray diffraction. Both ligand-free and complexed forms reveal a dramatically different quaternary structure from that of CbnR from Ralstonia eutropha, or a putative LysR-type regulator from Pseudomonas aeruginosa, the only other determined full-length structures of tetrameric LTTRs. Although all three show a head-to-head tetrameric ring, TsaR displays an open conformation, whereas CbnR and PA01-PR present additional contacts in opposing C-terminal domains that close the ring. Such large differences may be due to a broader structural versatility than previously assumed or either, reflect the intrinsic flexibility of tetrameric LTTRs. On the grounds of the sliding dimer hypothesis of LTTR activation, we propose a structural model in which the closed structures could reflect the conformation of a ligand-free LTTR, whereas inducer binding would bring about local changes to disrupt the interface linking the two compact C-terminal domains. This could lead to a TsaR-like, open structure, where the pairs of recognition helices are closer to each other by more than 10 A.

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Related Citations: 

• High crystallizability under air-exclusion conditions of the full-length LysR-type transcriptional regulator TsaR from Comamonas testosteroni T-2 and data-set analysis for a MIRAS structure-solution approach
  Monferrer, D., Tralau, T., Kertesz, M.A., Panjikar, S., Uson, I.
  (2008) Acta Crystallogr Sect F Struct Biol Cryst Commun 64: 764

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Organizational Affiliation: 

IBMB-CSIC, Baldiri Reixach 15, Barcelona Science Park, 08028, Barcelona, Spain.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LysR type regulator of tsaMBCD	A, B	305	Comamonas testosteroni	Mutation(s): 0  Gene Names: tsaR
UniProt
Find proteins for P94678 (Comamonas testosteroni) Explore P94678  Go to UniProtKB:  P94678

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	F [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
BME	C [auth A], D [auth A], E [auth A], J [auth B]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N
FMT	G [auth A], H [auth A]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N
CL	I [auth A], K [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.213 
• R-Value Work: 0.180 
• R-Value Observed: 0.182 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 136.496	α = 90
b = 51.489	β = 110.35
c = 107.754	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
PROTEUM PLUS	data collection
XDS	data reduction
PROTEUM	data reduction
XSCALE	data scaling
SADABS	data scaling
SHARP	phasing
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-01-21 
• Released Date: 2010-01-26 
Deposition Author(s): Monferrer, D., Tralau, T., Kertesz, M.A., Kikhney, A., Svergun, D., Uson, I.

Revision History  

• Version 1.0: 2010-01-26
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-11-01
  Changes: Refinement description