6RX9 | pdb_00006rx9

Crystal structure of TetR from Acinetobacter baumannii AYE

• PDB DOI: https://doi.org/10.2210/pdb6RX9/pdb

• Classification: TRANSCRIPTION
• Organism(s): Acinetobacter baumannii AYE
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-06-07 Released: 2020-07-15 
• Deposition Author(s): Tam, H.K., Sumyk, M., Pos, K.M.
• Funding Organization(s): German Research Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.237 (Depositor), 0.247 (DCC) 
• R-Value Work: 
  0.208 (Depositor), 0.216 (DCC) 
• R-Value Observed: 
  0.209 (Depositor) 

Starting Model: experimental

Literature

Binding of Tetracyclines to Acinetobacter baumannii TetR Involves Two Arginines as Specificity Determinants

Sumyk, M., Himpich, S., Foong, W.E., Herrmann, A., Pos, K.M., Tam, H.K.

(2021) Front Microbiol 

• DOI: https://doi.org/10.3389/fmicb.2021.711158

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)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 48.54 kDa 
• Atom Count: 3,217 
• Modeled Residue Count: 379 
• Deposited Residue Count: 428 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tetracycline repressor protein class G	A, B	214	Acinetobacter baumannii AYE	Mutation(s): 0  Gene Names: tetR, ABAYE3639

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.237 (Depositor), 0.247 (DCC) 
• R-Value Work:  0.208 (Depositor), 0.216 (DCC) 
• R-Value Observed: 0.209 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.33	α = 90
b = 85.11	β = 109.46
c = 62.35	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MrBUMP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-07-15 
Deposition Author(s): Tam, H.K., Sumyk, M., Pos, K.M.

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Funding Organization	Location	Grant Number
German Research Foundation	Germany	--

Revision History  

• Version 1.0: 2020-07-15
  Type: Initial release
  
• Version 1.1: 2021-07-28
  Changes: Database references
• Version 1.2: 2021-08-11
  Changes: Database references
• Version 1.3: 2024-01-24
  Changes: Data collection, Refinement description