3RTR

A RING E3-substrate complex poised for ubiquitin-like protein transfer: structural insights into cullin-RING ligases


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.238 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

A RING E3-substrate complex poised for ubiquitin-like protein transfer: structural insights into cullin-RING ligases.

Calabrese, M.F.Scott, D.C.Duda, D.M.Grace, C.R.Kurinov, I.Kriwacki, R.W.Schulman, B.A.

(2011) Nat Struct Mol Biol 18: 947-949

  • DOI: 10.1038/nsmb.2086
  • Primary Citation of Related Structures:  
    3RTR

  • PubMed Abstract: 
  • How RING E3 ligases mediate E2-to-substrate ubiquitin-like protein (UBL) transfer remains unknown. Here we address how the RING E3 RBX1 positions NEDD8's E2 (UBC12) and substrate (CUL1). We find that existing structures are incompatible with CUL1 NEDD8ylation and report a new conformation of RBX1 that places UBC12 adjacent to CUL1 ...

    How RING E3 ligases mediate E2-to-substrate ubiquitin-like protein (UBL) transfer remains unknown. Here we address how the RING E3 RBX1 positions NEDD8's E2 (UBC12) and substrate (CUL1). We find that existing structures are incompatible with CUL1 NEDD8ylation and report a new conformation of RBX1 that places UBC12 adjacent to CUL1. We propose RING domain rotation as a general mechanism for UBL transfer for the largest family of E3s.


    Organizational Affiliation

    Department of Structural Biology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA. matthew.calabrese@stjude.org



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Cullin-1A, C, E, G368Homo sapiensMutation(s): 4 
Gene Names: CUL1
Find proteins for Q13616 (Homo sapiens)
Explore Q13616 
Go to UniProtKB:  Q13616
NIH Common Fund Data Resources
PHAROS:  Q13616
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase RBX1B, D, F, H106Homo sapiensMutation(s): 0 
Gene Names: RBX1RNF75ROC1
EC: 6.3.2 (PDB Primary Data), 2.3.2.27 (UniProt), 2.3.2.32 (UniProt)
Find proteins for P62877 (Homo sapiens)
Explore P62877 
Go to UniProtKB:  P62877
NIH Common Fund Data Resources
PHAROS:  P62877
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.238 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.475α = 90
b = 119.796β = 90
c = 231.861γ = 90
Software Package:
Software NamePurpose
PHASERphasing
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-07-20
    Type: Initial release
  • Version 1.1: 2011-08-24
    Changes: Database references