9EQ2 | pdb_00009eq2

Arabidopsis thaliana R2T complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.68 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The structure of the R2T complex reveals a different architecture from the related HSP90 cochaperone R2TP.

Palacios-Abella, A.Lopez-Perrote, A.Boskovic, J.Fonseca, S.Urbez, C.Rubio, V.Llorca, O.Alabadi, D.

(2025) Structure 33: 740

  • DOI: https://doi.org/10.1016/j.str.2025.01.023
  • Primary Citation of Related Structures:  
    9EQ2

  • PubMed Abstract: 

    The R2TP complex is a specialized HSP90 cochaperone essential for the maturation of macromolecular complexes such as RNAPII and TORC1. R2TP is formed by a hetero-hexameric ring of AAA-ATPases RuvBL1 and RuvBL2, which interact with RPAP3 and PIH1D1. Several R2TP-like complexes have been described, but these are less well characterized. Here, we identified, characterized and determined the cryo-electron microscopy (cryo-EM) structure of R2T from Arabidopsis thaliana, which lacks PIH1D1 and is probably the only form of the complex in seed plants. In contrast to R2TP, R2T is organized as two rings of AtRuvBL1-AtRuvBL2a interacting back-to-back, with one AtRPAP3 anchored per ring. AtRPAP3 has no effect on the ATPase activity of AtRuvBL1-AtRuvBL2a and binds with a different stoichiometry than in human R2TP. We show that the interaction of AtRPAP3 with AtRuvBL2a and AtHSP90 occurs via a conserved mechanism. However, the distinct architectures of R2T and R2TP suggest differences in their functions and mechanisms.


  • Organizational Affiliation

    Instituto de Biología Molecular y Celular de Plantas (CSIC-UPV), Ingeniero Fausto Elio s/n, 46022 Valencia, Spain.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
RuvB-like protein 1A,
C,
D [auth B]
487Arabidopsis thalianaMutation(s): 0 
Gene Names: RIN1RVB1TIP49aAt5g22330
EC: 3.6.4.12
UniProt
Find proteins for Q9FMR9 (Arabidopsis thaliana)
Explore Q9FMR9 
Go to UniProtKB:  Q9FMR9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9FMR9
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
RuvB-like helicaseB [auth D],
E [auth F],
F [auth E]
487Arabidopsis thalianaMutation(s): 0 
Gene Names: ISE4At5g67630K9I9.20K9I9_20
EC: 3.6.4.12
UniProt
Find proteins for Q9FJW0 (Arabidopsis thaliana)
Explore Q9FJW0 
Go to UniProtKB:  Q9FJW0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9FJW0
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
At1g56440522Arabidopsis thalianaMutation(s): 0 
Gene Names: TPR5tetratricopeptide repeat 5At1g56440F13N6.2F13N6_2
UniProt
Find proteins for Q5XF05 (Arabidopsis thaliana)
Explore Q5XF05 
Go to UniProtKB:  Q5XF05
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5XF05
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.68 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION4.0
MODEL REFINEMENTISOLDE1.7
MODEL REFINEMENTPHENIX1.20.1-4487
MODEL REFINEMENTCoot0.9.8.5

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agencia Estatal de Investigacion (AEI)SpainPID2020-114429RB-I00

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-29
    Type: Initial release
  • Version 1.1: 2025-03-12
    Changes: Data collection, Database references
  • Version 1.2: 2025-04-16
    Changes: Data collection, Database references