4RBQ | pdb_00004rbq

32 base pair oligo(U) RNA

• PDB DOI: https://doi.org/10.2210/pdb4RBQ/pdb
• NAKB: 4RBQ

• Classification: RNA
• Organism(s): synthetic construct
• Mutation(s): No 


• Deposited: 2014-09-12 Released: 2015-11-11 
• Deposition Author(s): Mooers, B.H.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.05 Å
• R-Value Free: 
  0.154 (Depositor), 0.160 (DCC) 
• R-Value Work: 
  0.131 (Depositor), 0.136 (DCC) 
• R-Value Observed: 
  0.131 (Depositor) 

Starting Model: in silico

Literature

Structure of the Trypanosome RNA Editing U-Helix with 16 Contiguous Us

Mooers, B.H.M.

To be published.

Biological Assembly 1  

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

Macromolecule Content 

• Total Structure Weight: 10.41 kDa 
• Atom Count: 944 
• Modeled Residue Count: 32 
• Deposited Residue Count: 32 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
U-Helix RNA from Trypanosome editing	A	32	synthetic construct

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
K	B [auth A], C [auth A], D [auth A], E [auth A], F [auth A]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.05 Å
• R-Value Free:  0.154 (Depositor), 0.160 (DCC) 
• R-Value Work:  0.131 (Depositor), 0.136 (DCC) 
• R-Value Observed: 0.131 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.89	α = 90
b = 42.89	β = 90
c = 266.936	γ = 120

Software Package:

Software Name	Purpose
Blu-Ice	data collection
MOLREP	phasing
PHENIX	refinement
MOSFLM	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-11-11 
Deposition Author(s): Mooers, B.H.M.

Revision History  

• Version 1.0: 2015-11-11
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Refinement description
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations
• Version 1.3: 2024-04-03
  Changes: Refinement description