4TRQ

Crystal structure of Sac3/Thp1/Sem1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The Nuclear Pore-Associated TREX-2 Complex Employs Mediator to Regulate Gene Expression.

Schneider, M.Hellerschmied, D.Schubert, T.Amlacher, S.Vinayachandran, V.Reja, R.Pugh, B.F.Clausen, T.Kohler, A.

(2015) Cell 162: 1016-1028

  • DOI: 10.1016/j.cell.2015.07.059

  • PubMed Abstract: 
  • Nuclear pore complexes (NPCs) influence gene expression besides their established function in nuclear transport. The TREX-2 complex localizes to the NPC basket and affects gene-NPC interactions, transcription, and mRNA export. How TREX-2 regulates th ...

    Nuclear pore complexes (NPCs) influence gene expression besides their established function in nuclear transport. The TREX-2 complex localizes to the NPC basket and affects gene-NPC interactions, transcription, and mRNA export. How TREX-2 regulates the gene expression machinery is unknown. Here, we show that TREX-2 interacts with the Mediator complex, an essential regulator of RNA Polymerase (Pol) II. Structural and biochemical studies identify a conserved region on TREX-2, which directly binds the Mediator Med31/Med7N submodule. TREX-2 regulates assembly of Mediator with the Cdk8 kinase and is required for recruitment and site-specific phosphorylation of Pol II. Transcriptome and phenotypic profiling confirm that TREX-2 and Med31 are functionally interdependent at specific genes. TREX-2 additionally uses its Mediator-interacting surface to regulate mRNA export suggesting a mechanism for coupling transcription initiation and early steps of mRNA processing. Our data provide mechanistic insight into how an NPC-associated adaptor complex accesses the core transcription machinery.


    Organizational Affiliation

    Max F. Perutz Laboratories, Medical University of Vienna, Vienna Biocenter Campus (VBC), Dr. Bohr-Gasse 9/3, 1030 Vienna, Austria.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Nuclear mRNA export protein SAC3
A, D
299Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: SAC3 (LEP1)
Find proteins for P46674 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P46674
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Nuclear mRNA export protein THP1
B, E
286Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: THP1 (BUD29)
Find proteins for Q08231 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q08231
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
26S proteasome complex subunit SEM1
C, F
60Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: SEM1 (DSH1)
Find proteins for O94742 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: SEM1
Go to UniProtKB:  O94742
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.194 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 125.741α = 90.00
b = 125.741β = 90.00
c = 268.367γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata reduction
PHENIXrefinement
PHASERphasing
SCALAdata scaling
Omodel building
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-08-26
    Type: Initial release
  • Version 1.1: 2015-09-09
    Type: Database references