4DBG

Crystal structure of HOIL-1L-UBL complexed with a HOIP-UBA derivative


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.71 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.218 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

A non-canonical UBA-UBL interaction forms the linear-ubiquitin-chain assembly complex

Yagi, H.Ishimoto, K.Hiromoto, T.Fujita, H.Mizushima, T.Uekusa, Y.Yagi-Utsumi, M.Kurimoto, E.Noda, M.Uchiyama, S.Tokunaga, F.Iwai, K.Kato, K.

(2012) Embo Rep. 13: 462-468

  • DOI: 10.1038/embor.2012.24

  • PubMed Abstract: 
  • HOIL-1L and its binding partner HOIP are essential components of the E3-ligase complex that generates linear ubiquitin (Ub) chains, which are critical regulators of NF-κB activation. Using crystallographic and mutational approaches, we characterize t ...

    HOIL-1L and its binding partner HOIP are essential components of the E3-ligase complex that generates linear ubiquitin (Ub) chains, which are critical regulators of NF-κB activation. Using crystallographic and mutational approaches, we characterize the unexpected structural basis for the specific interaction between the Ub-like domain (UBL) of HOIL-1L and the Ub-associated domain (UBA) of HOIP. Our data indicate the functional significance of this non-canonical mode of UBA-UBL interaction in E3 complex formation and subsequent NF-κB activation. This study highlights the versatility and specificity of protein-protein interactions involving Ub/UBLs and their cognate proteins.


    Organizational Affiliation

    Graduate School of Pharmaceutical Sciences, Nagoya City University, 3-1 Tanabe-dori, Mizuho-ku, Nagoya 467-8603, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
RanBP-type and C3HC4-type zinc finger-containing protein 1
A
105Homo sapiensGene Names: RBCK1 (C20orf18, RNF54, UBCE7IP3, XAP3, XAP4)
EC: 6.3.2.-
Find proteins for Q9BYM8 (Homo sapiens)
Go to Gene View: RBCK1
Go to UniProtKB:  Q9BYM8
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
RING finger protein 31
B
162Homo sapiensGene Names: RNF31 (ZIBRA)
EC: 6.3.2.-
Find proteins for Q96EP0 (Homo sapiens)
Go to Gene View: RNF31
Go to UniProtKB:  Q96EP0
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.71 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.218 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 64.973α = 90.00
b = 64.973β = 90.00
c = 161.291γ = 120.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
SHARPphasing
REFMACrefinement
SCALEPACKdata scaling
HKL-2000data reduction
HKL-2000data collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-04-04
    Type: Initial release
  • Version 1.1: 2012-04-11
    Type: Structure summary
  • Version 1.2: 2012-05-16
    Type: Database references