2XPV

TetR(D) in complex with minocycline and magnesium.

• PDB DOI: https://doi.org/10.2210/pdb2XPV/pdb

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


• Deposited: 2010-08-30 Released: 2011-09-07 
• Deposition Author(s): Dalm, D., Proft, J., Palm, G.J., Hinrichs, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.49 Å
• R-Value Free: 0.201 
• R-Value Work: 0.185 
• R-Value Observed: 0.186 

Starting Model: experimental

Literature

Tetr(D) in Complex with Minocycline.

Dalm, D., Palm, G.J., Proft, J., Hinrichs, W.

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: 24.05 kDa 
• Atom Count: 1,987 
• Modelled Residue Count: 199 
• Deposited Residue Count: 207 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TETRACYCLINE REPRESSOR PROTEIN CLASS D	A	207	Escherichia coli	Mutation(s): 0
UniProt
Find proteins for P0ACT4 (Escherichia coli) Explore P0ACT4  Go to UniProtKB:  P0ACT4

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MIY	B [auth A]	(4S,4AS,5AR,12AS)-4,7-BIS(DIMETHYLAMINO)-3,10,12,12A-TETRAHYDROXY-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2- CARBOXAMIDE C23 H27 N3 O7 DYKFCLLONBREIL-KVUCHLLUSA-N
CL	D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.49 Å
• R-Value Free: 0.201 
• R-Value Work: 0.185 
• R-Value Observed: 0.186 
• Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.686	α = 90
b = 68.686	β = 90
c = 178.673	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-09-07 
Deposition Author(s): Dalm, D., Proft, J., Palm, G.J., Hinrichs, W.

Revision History  

• Version 1.0: 2011-09-07
  Type: Initial release
  
• Version 1.1: 2011-09-21
  Changes: Atomic model
• Version 1.2: 2019-07-24
  Changes: Data collection, Derived calculations
• Version 1.3: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description, Structure summary