9RVP | pdb_00009rvp

Protein 2A from Theiler's murine encephalomyelitis virus (TMEV) bound to RNA pseudoknot

• PDB DOI: https://doi.org/10.2210/pdb9RVP/pdb
• NAKB: 9RVP

• Classification: RNA
• Organism(s): Theiler's encephalomyelitis virus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-07-08 Released: 2025-07-30 
• Deposition Author(s): Betts, J.K., Jeffries, C.M., Passchier, T.C., Kung, H.C.Y., Graham, S.P., Abdelhamid, M.A.S., Howard, J.A.L., Craggs, T.D., Graham, S.C., Brierley, I., Leake, M.C., Quinn, S.D., Hill, C.H.
• Funding Organization(s): Wellcome Trust, The Lister Institute of Preventive Medicine, Biotechnology and Biological Sciences Research Council (BBSRC), Medical Research Council (MRC, United Kingdom), Engineering and Physical Sciences Research Council, iNEXT-Discovery, Alzheimers Research UK (ARUK)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.230 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.193 (Depositor), 0.196 (DCC) 
• R-Value Observed: 
  0.195 (Depositor) 

Starting Models: experimental, in silico

Literature

A new protein-dependent riboswitch activates ribosomal frameshifting

Betts, J.K., Jeffries, C.M., Passchier, T.C., Kung, H.C.Y., Graham, S.P., Abdelhamid, M.A., Howard, J.A.L., Craggs, T.D., Graham, S.C., Brierley, I., Leake, M.C., Quinn, S.D., Hill, C.H.

(2025) bioRxiv 

• DOI: https://doi.org/10.1101/2025.07.17.665365

Biological Assembly 1  

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

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

Biological Assembly Evidence: SAXS, light scattering, gel filtration

Macromolecule Content 

• Total Structure Weight: 26.8 kDa 
• Atom Count: 1,914 
• Modeled Residue Count: 153 
• Deposited Residue Count: 171 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Genome polyprotein	A	137	Theiler's encephalomyelitis virus	Mutation(s): 0
UniProt
Find proteins for B4YYP2 (Theiler's encephalomyelitis virus) Explore B4YYP2  Go to UniProtKB:  B4YYP2

Entity ID: 2
Molecule	Chains	Length	Organism	Image
RNA pseudoknot	B	34	Theiler's encephalomyelitis virus

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.230 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.193 (Depositor), 0.196 (DCC) 
• R-Value Observed: 0.195 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 104.191	α = 90
b = 45.931	β = 127.34
c = 65.72	γ = 90

Software Package:

Software Name	Purpose
GDA	data collection
xia2	data reduction
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-07-30 
Deposition Author(s): Betts, J.K., Jeffries, C.M., Passchier, T.C., Kung, H.C.Y., Graham, S.P., Abdelhamid, M.A.S., Howard, J.A.L., Craggs, T.D., Graham, S.C., Brierley, I., Leake, M.C., Quinn, S.D., Hill, C.H.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	221818/Z/20/Z
The Lister Institute of Preventive Medicine	United Kingdom	--
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/V000306/1
Medical Research Council (MRC, United Kingdom)	United Kingdom	MR/W006944/1
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/T017805/1
Wellcome Trust	United Kingdom	098406/Z/12/B
Engineering and Physical Sciences Research Council	United Kingdom	EP/X525856/1
Engineering and Physical Sciences Research Council	United Kingdom	EP/V034030/1
Engineering and Physical Sciences Research Council	United Kingdom	EP/T518025/1
iNEXT-Discovery	European Union	871037
Alzheimers Research UK (ARUK)	United Kingdom	RF2019A-001

Revision History  

• Version 1.0: 2025-07-30
  Type: Initial release