6SN1

Crystal structure of the human INTS13-INTS14 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.54 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.225 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

INTS10-INTS13-INTS14 form a functional module of Integrator that binds nucleic acids and the cleavage module.

Sabath, K.Staubli, M.L.Marti, S.Leitner, A.Moes, M.Jonas, S.

(2020) Nat Commun 11: 3422-3422

  • DOI: https://doi.org/10.1038/s41467-020-17232-2
  • Primary Citation of Related Structures:  
    6SN1

  • PubMed Abstract: 

    The Integrator complex processes 3'-ends of spliceosomal small nuclear RNAs (snRNAs). Furthermore, it regulates transcription of protein coding genes by terminating transcription after unstable pausing. The molecular basis for Integrator's functions remains obscure. Here, we show that INTS10, Asunder/INTS13 and INTS14 form a separable, functional Integrator module. The structure of INTS13-INTS14 reveals a strongly entwined complex with a unique chain interlink. Unexpected structural homology to the Ku70-Ku80 DNA repair complex suggests nucleic acid affinity. Indeed, the module displays affinity for DNA and RNA but prefers RNA hairpins. While the module plays an accessory role in snRNA maturation, it has a stronger influence on transcription termination after pausing. Asunder/INTS13 directly binds Integrator's cleavage module via a conserved C-terminal motif that is involved in snRNA processing and required for spermatogenesis. Collectively, our data establish INTS10-INTS13-INTS14 as a nucleic acid-binding module and suggest that it brings cleavage module and target transcripts into proximity.


  • Organizational Affiliation

    Institute of Molecular Biology and Biophysics, ETH Zurich, Otto-Stern-Weg 5, CH-8093, Zurich, Switzerland.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Integrator complex subunit 13763Homo sapiensMutation(s): 0 
Gene Names: INTS13ASUNC12orf11GCT1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NVM9 (Homo sapiens)
Explore Q9NVM9 
Go to UniProtKB:  Q9NVM9
PHAROS:  Q9NVM9
GTEx:  ENSG00000064102 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9NVM9
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Integrator complex subunit 14518Homo sapiensMutation(s): 0 
Gene Names: INTS14C15orf44VWA9
UniProt & NIH Common Fund Data Resources
Find proteins for Q96SY0 (Homo sapiens)
Explore Q96SY0 
Go to UniProtKB:  Q96SY0
PHAROS:  Q96SY0
GTEx:  ENSG00000138614 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96SY0
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.54 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.225 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 190.987α = 90
b = 115.354β = 90
c = 147.819γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
MLPHAREphasing
SHELXDphasing
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland182880

Revision History  (Full details and data files)

  • Version 1.0: 2020-07-22
    Type: Initial release