5SUQ

Structure of mRNA export factors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 6 Å
  • R-Value Free: 0.434 
  • R-Value Work: 0.436 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural and biochemical analyses of the DEAD-box ATPase Sub2 in association with THO or Yra1.

Ren, Y.Schmiege, P.Blobel, G.

(2017) Elife 6: --

  • DOI: 10.7554/eLife.20070
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • mRNA is cotranscrptionally processed and packaged into messenger ribonucleoprotein particles (mRNPs) in the nucleus. Prior to export through the nuclear pore, mRNPs undergo several obligatory remodeling reactions. In yeast, one of these reactions inv ...

    mRNA is cotranscrptionally processed and packaged into messenger ribonucleoprotein particles (mRNPs) in the nucleus. Prior to export through the nuclear pore, mRNPs undergo several obligatory remodeling reactions. In yeast, one of these reactions involves loading of the mRNA-binding protein Yra1 by the DEAD-box ATPase Sub2 as assisted by the hetero-pentameric THO complex. To obtain molecular insights into reaction mechanisms, we determined crystal structures of two relevant complexes: a THO hetero-pentamer bound to Sub2 at 6.0 Å resolution; and Sub2 associated with an ATP analogue, RNA, and a C-terminal fragment of Yra1 (Yra1-C) at 2.6 Å resolution. We found that the 25 nm long THO clamps Sub2 in a half-open configuration; in contrast, when bound to the ATP analogue, RNA and Yra1-C, Sub2 assumes a closed conformation. Both THO and Yra1-C stimulated Sub2's intrinsic ATPase activity. We propose that THO surveys common landmarks in each nuclear mRNP to localize Sub2 for targeted loading of Yra1.


    Organizational Affiliation

    Laboratory of Cell Biology, Howard Hughes Medical Institute, The Rockefeller University, New York, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ATP-dependent RNA helicase SUB2
A, C
446Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SUB2
EC: 3.6.4.13
Find proteins for Q07478 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q07478
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Tex1
B, D
400N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Tho2, Hpr1, Mft1, and Thp2
M, N
2300N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
KEG
Query on KEG

Download SDF File 
Download CCD File 
A, M, N
12-TUNGSTOPHOSPHATE
O40 P W12
WLQKSSFZMDTTCM-YEFKIAJVAA
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
B, D, M, N
L-PEPTIDE LINKINGC4 H9 N O2

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 6 Å
  • R-Value Free: 0.434 
  • R-Value Work: 0.436 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 153.339α = 90.00
b = 319.534β = 100.96
c = 176.444γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXphasing
HKL-2000data scaling
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2016-08-03 
  • Released Date: 2017-01-18 
  • Deposition Author(s): Ren, Y., Blobel, G.

Revision History 

  • Version 1.0: 2017-01-18
    Type: Initial release