3DCF

Crystal structure of transcriptional regulator of the TetR/AcrR family (YP_290855.1) from THERMOBIFIDA FUSCA YX-ER1 at 2.50 A resolution

• PDB DOI: https://doi.org/10.2210/pdb3DCF/pdb

• Classification: transcription regulator
• Organism(s): Thermobifida fusca YX
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-06-03 Released: 2008-07-15 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.277 
• R-Value Work: 0.241 
• R-Value Observed: 0.243 

Literature

Crystal structure of transcriptional regulator of the TetR/AcrR family (YP_290855.1) from THERMOBIFIDA FUSCA YX-ER1 at 2.50 A resolution

Joint Center for Structural Genomics (JCSG)

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: 50.19 kDa 
• Atom Count: 3,049 
• Modelled Residue Count: 368 
• Deposited Residue Count: 436 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
transcriptional regulator of the TetR/AcrR family	A, B	218	Thermobifida fusca YX	Mutation(s): 0  Gene Names: YP_290855.1, Tfu_2799
UniProt
Find proteins for Q47L40 (Thermobifida fusca (strain YX)) Explore Q47L40  Go to UniProtKB:  Q47L40

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: 2.50 Å
• R-Value Free: 0.277 
• R-Value Work: 0.241 
• R-Value Observed: 0.243 
• Space Group: P 1 2₁ 1
• Diffraction Data: https://doi.org/10.18430/M33DCF

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.87	α = 90
b = 67.62	β = 104.23
c = 72.98	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PHENIX	refinement
SOLVE	phasing
MolProbity	model building
XSCALE	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-07-15 
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Revision History  

• Version 1.0: 2008-07-15
  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: 2019-07-24
  Changes: Data collection, Derived calculations, Refinement description
• Version 1.4: 2023-02-01
  Changes: Database references
• Version 1.5: 2024-10-30
  Changes: Data collection, Refinement description, Structure summary