6ENN | pdb_00006enn

Tryptophan Repressor TrpR from E.coli variant T44L T81M N87G S88Y with Indole-3-acetic acid as ligand

• PDB DOI: https://doi.org/10.2210/pdb6ENN/pdb

• Classification: TRANSCRIPTION
• Organism(s): Escherichia coli
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2017-10-05 Released: 2019-02-06 
• Deposition Author(s): Stiel, A.C., Shanmugaratnam, S., Herud-Sikimic, O., Juergens, G., Hocker, B.
• Funding Organization(s): German Research Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.17 Å
• R-Value Free: 
  0.180 (Depositor), 0.180 (DCC) 
• R-Value Work: 
  0.148 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.150 (Depositor) 

Starting Model: experimental

Literature

A biosensor for the direct visualization of auxin

Herud-Sikimic, O., Stiel, A.C., Kolb, M., Shanmugaratnam, S., Berendzen, K.W., Feldhaus, C., Hocker, B., Juergens, G.

(2021) Nature 

• DOI: https://doi.org/10.1038/s41586-021-03425-2

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: 27.36 kDa 
• Atom Count: 2,208 
• Modelled Residue Count: 210 
• Deposited Residue Count: 232 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Trp operon repressor	A, B	116	Escherichia coli	Mutation(s): 4  Gene Names: trpR, rtrY, b4393, JW4356
UniProt
Find proteins for P0A881 (Escherichia coli (strain K12)) Explore P0A881  Go to UniProtKB:  P0A881

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IAC	C [auth A], D [auth B]	1H-INDOL-3-YLACETIC ACID C10 H9 N O2 SEOVTRFCIGRIMH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.17 Å
• R-Value Free:  0.180 (Depositor), 0.180 (DCC) 
• R-Value Work:  0.148 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.150 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.577	α = 90
b = 63.185	β = 90
c = 64.904	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-02-06 
Deposition Author(s): Stiel, A.C., Shanmugaratnam, S., Herud-Sikimic, O., Juergens, G., Hocker, B.

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Funding Organization	Location	Grant Number
German Research Foundation	Germany	HO 4022/2-3

Revision History  

• Version 1.0: 2019-02-06
  Type: Initial release
  
• Version 1.1: 2021-04-07
  Changes: Database references
• Version 1.2: 2024-01-17
  Changes: Data collection, Database references, Refinement description