3RW6 | pdb_00003rw6

Structure of nuclear RNA export factor TAP bound to CTE RNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 
    0.256 (Depositor), 0.249 (DCC) 
  • R-Value Work: 
    0.203 (Depositor), 0.198 (DCC) 
  • R-Value Observed: 
    0.206 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

Structure-function studies of nucleocytoplasmic transport of retroviral genomic RNA by mRNA export factor TAP.

Teplova, M.Wohlbold, L.Khin, N.W.Izaurralde, E.Patel, D.J.

(2011) Nat Struct Mol Biol 18: 990-998

  • DOI: https://doi.org/10.1038/nsmb.2094
  • Primary Citation Related Structures: 
    3RW6, 3RW7

  • PubMed Abstract: 

    mRNA export is mediated by the TAP-p15 heterodimer, which belongs to the family of NTF2-like export receptors. TAP-p15 heterodimers also bind to the constitutive transport element (CTE) present in simian type D retroviral RNAs, and they mediate the export of viral unspliced RNAs to the host cytoplasm. We have solved the crystal structure of the RNA recognition and leucine-rich repeat motifs of TAP bound to one symmetrical half of the CTE RNA. L-shaped conformations of protein and RNA are involved in a mutual molecular embrace on complex formation. We have monitored the impact of structure-guided mutations on binding affinities in vitro and transport assays in vivo. Our studies define the principles by which CTE RNA subverts the mRNA export receptor TAP, thereby facilitating the nuclear export of viral genomic RNAs, and, more generally, provide insights on cargo RNA recognition by mRNA export receptors.


  • Organizational Affiliation
    • Structural Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, USA.

Macromolecule Content 

  • Total Structure Weight: 101.59 kDa 
  • Atom Count: 6,786 
  • Modeled Residue Count: 613 
  • Deposited Residue Count: 658 
  • Unique protein chains: 1
  • Unique nucleic acid chains: 1

Macromolecules


Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Nuclear RNA export factor 1A,
D [auth B]
267Homo sapiensMutation(s): 0 
Gene Names: NXF1TAPTAP (NXF1)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UBU9 (Homo sapiens)
Explore Q9UBU9 
Go to UniProtKB:  Q9UBU9
PHAROS:  Q9UBU9
GTEx:  ENSG00000162231 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9UBU9
Sequence Annotations
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Reference Sequence
Find similar nucleic acids by:  (by identity cutoff) 
Entity ID: 2
MoleculeChains LengthOrganismImage
constitutive transport element(CTE)of Mason-Pfizer monkey virus RNAB [auth H],
C [auth F]
62N/A
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free:  0.256 (Depositor), 0.249 (DCC) 
  • R-Value Work:  0.203 (Depositor), 0.198 (DCC) 
  • R-Value Observed: 0.206 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.412α = 90
b = 117.048β = 106.4
c = 84.773γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction
CBASSdata collection

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-08-10
    Type: Initial release
  • Version 1.1: 2011-11-02
    Changes: Database references
  • Version 1.2: 2017-11-08
    Changes: Refinement description
  • Version 1.3: 2023-09-13
    Changes: Data collection, Database references, Derived calculations, Refinement description