3NI7

Crystal structure of the TetR transcriptional regulator from Nitrosomonas europaea ATCC 19718

• PDB DOI: https://doi.org/10.2210/pdb3NI7/pdb

• Classification: TRANSCRIPTION REGULATOR
• Organism(s): Nitrosomonas europaea
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-06-15 Released: 2010-08-11 
• Deposition Author(s): Knapik, A., Chruszcz, M., Cymborowski, M., Xu, X., Savchenko, A., Edwards, A., Joachimiak, A., Minor, W., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.78 Å
• R-Value Free: 0.279 
• R-Value Work: 0.249 
• R-Value Observed: 0.250 

Literature

Crystal structure of the TetR transcriptional regulator from Nitrosomonas europaea ATCC 19718

Knapik, A., Chruszcz, M., Cymborowski, M., Xu, X., Savchenko, A., Edwards, A., Joachimiak, A., Minor, 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: 51.21 kDa 
• Atom Count: 2,735 
• Modelled Residue Count: 347 
• Deposited Residue Count: 426 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bacterial regulatory proteins, TetR family	A, B	213	Nitrosomonas europaea	Mutation(s): 0  Gene Names: NE0300
UniProt
Find proteins for Q82XH4 (Nitrosomonas europaea (strain ATCC 19718 / CIP 103999 / KCTC 2705 / NBRC 14298)) Explore Q82XH4  Go to UniProtKB:  Q82XH4

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: 2.78 Å
• R-Value Free: 0.279 
• R-Value Work: 0.249 
• R-Value Observed: 0.250 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.222	α = 90
b = 75.378	β = 90
c = 98.079	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
HKL-3000	phasing
MLPHARE	phasing
DM	model building
SHELXD	phasing
RESOLVE	model building
ARP/wARP	model building
BUCCANEER	model building
REFMAC	refinement
Coot	model building
HKL-2000	data reduction
HKL-2000	data scaling
DM	phasing
RESOLVE	phasing
BUCCANEER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-08-11 
Deposition Author(s): Knapik, A., Chruszcz, M., Cymborowski, M., Xu, X., Savchenko, A., Edwards, A., Joachimiak, A., Minor, W., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2010-08-11
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-06-20
  Changes: Database references
• Version 1.3: 2022-04-13
  Changes: Database references, Derived calculations, Structure summary
• Version 1.4: 2024-10-30
  Changes: Data collection, Structure summary