6F9K

Tryptophan Repressor TrpR from E.coli with 5-methyl-L-tryptophan as ligand

• PDB DOI: https://doi.org/10.2210/pdb6F9K/pdb

• Classification: TRANSCRIPTION
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2017-12-14 Released: 2019-01-30 
• Deposition Author(s): Stiel, A.C., Shanmugaratnam, S., Hocker, B.
• Funding Organization(s): German Research Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.206 
• R-Value Work: 0.193 
• R-Value Observed: 0.194 

Starting Model: experimental

Literature

Tryptophan Repressor TrpR from E.coli: A ligand binding study

Stiel, A.C., Shanmugaratnam, S., Hocker, B.

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: 14.7 kDa 
• Atom Count: 1,021 
• Modelled Residue Count: 106 
• Deposited Residue Count: 116 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Trp operon repressor	A	116	Escherichia coli K-12	Mutation(s): 0  Gene Names: trpR, rtrY, b4393, JW4356
UniProt
Find proteins for P0A881 (Escherichia coli (strain K12)) Explore P0A881  Go to UniProtKB:  P0A881

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
D0Q	B [auth A], G [auth A], H [auth A], I [auth A]	5-methyl-L-tryptophan C12 H14 N2 O2 HUNCSWANZMJLPM-JTQLQIEISA-N
SO4	C [auth A], D [auth A], E [auth A], F [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.206 
• R-Value Work: 0.193 
• R-Value Observed: 0.194 
• Space Group: P 4₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.146	α = 90
b = 53.146	β = 90
c = 90.823	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-01-30 
Deposition Author(s): Stiel, A.C., Shanmugaratnam, S., Hocker, B.

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

Revision History  

• Version 1.0: 2019-01-30
  Type: Initial release
  
• Version 2.0: 2023-11-15
  Changes: Atomic model, Data collection, Database references
• Version 2.1: 2024-01-17
  Changes: Refinement description