2QHB | pdb_00002qhb

Crystal structure of NgTRF complexed with telomeric DNA

• PDB DOI: https://doi.org/10.2210/pdb2QHB/pdb
• NAKB: 2QHB

• Classification: DNA BINDING PROTEIN/DNA
• Organism(s): synthetic construct, Nicotiana glutinosa
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-07-02 Released: 2008-07-15 
• Deposition Author(s): Cho, H.-S., Byun, J.-S., Jun, S.-H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.264 (Depositor), 0.242 (DCC) 
• R-Value Work: 
  0.251 (Depositor), 0.247 (DCC) 

Starting Model: experimental

Literature

Complex structure of plant telomere bindig protein, NgTRF and telomere DNA

Cho, H.-S., Byun, J.-S., Jun, S.-H., Han, W., Lee, W.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 28.57 kDa 
• Atom Count: 2,091 
• Modeled Residue Count: 199 
• Deposited Residue Count: 200 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Telomere binding protein TBP1	E [auth A], F [auth B]	86	Nicotiana glutinosa	Mutation(s): 0  Gene Names: NgTRF
UniProt
Find proteins for Q84ZU4 (Nicotiana glutinosa) Explore Q84ZU4  Go to UniProtKB:  Q84ZU4

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-D(P*TP*TP*TP*AP*GP*GP*G)-3'	A [auth C], C [auth E]	7	synthetic construct

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5'-D(P*CP*CP*CP*TP*AP*AP*A)-3'	B [auth D], D [auth F]	7	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.264 (Depositor), 0.242 (DCC) 
• R-Value Work:  0.251 (Depositor), 0.247 (DCC) 

Space Group: P 3₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.844	α = 90
b = 70.844	β = 90
c = 68.712	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-07-15 
Deposition Author(s): Cho, H.-S., Byun, J.-S., Jun, S.-H.

Revision History  

• Version 1.0: 2008-07-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-11
  Changes: Refinement description
• Version 1.3: 2021-02-17
  Changes: Derived calculations, Source and taxonomy
• Version 1.4: 2023-10-25
  Changes: Data collection, Database references, Refinement description