2LXP

NMR structure of two domains in ubiquitin ligase gp78, RING and G2BR, bound to its conjugating enzyme Ube2g


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 20 
  • Selection Criteria: Lowest Haddock Scores 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Allosteric regulation of E2:E3 interactions promote a processive ubiquitination machine.

Das, R.Liang, Y.H.Mariano, J.Li, J.Huang, T.King, A.Tarasov, S.G.Weissman, A.M.Ji, X.Byrd, R.A.

(2013) Embo J. 32: 2504-2516

  • DOI: 10.1038/emboj.2013.174
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • RING finger proteins constitute the large majority of ubiquitin ligases (E3s) and function by interacting with ubiquitin-conjugating enzymes (E2s) charged with ubiquitin. How low-affinity RING-E2 interactions result in highly processive substrate ubi ...

    RING finger proteins constitute the large majority of ubiquitin ligases (E3s) and function by interacting with ubiquitin-conjugating enzymes (E2s) charged with ubiquitin. How low-affinity RING-E2 interactions result in highly processive substrate ubiquitination is largely unknown. The RING E3, gp78, represents an excellent model to study this process. gp78 includes a high-affinity secondary binding region for its cognate E2, Ube2g2, the G2BR. The G2BR allosterically enhances RING:Ube2g2 binding and ubiquitination. Structural analysis of the RING:Ube2g2:G2BR complex reveals that a G2BR-induced conformational effect at the RING:Ube2g2 interface is necessary for enhanced binding of RING to Ube2g2 or Ube2g2 conjugated to Ub. This conformational effect and a key ternary interaction with conjugated ubiquitin are required for ubiquitin transfer. Moreover, RING:Ube2g2 binding induces a second allosteric effect, disrupting Ube2g2:G2BR contacts, decreasing affinity and facilitating E2 exchange. Thus, gp78 is a ubiquitination machine where multiple E2-binding sites coordinately facilitate processive ubiquitination.


    Organizational Affiliation

    Structural Biophysics Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, MD, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ubiquitin-conjugating enzyme E2 G2
A
164Homo sapiensMutation(s): 0 
Gene Names: UBE2G2
EC: 2.3.2.23
Find proteins for P60604 (Homo sapiens)
Go to Gene View: UBE2G2
Go to UniProtKB:  P60604
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
E3 ubiquitin-protein ligase AMFR
B
27Homo sapiensMutation(s): 0 
Gene Names: AMFR (RNF45)
EC: 2.3.2.27
Find proteins for Q9UKV5 (Homo sapiens)
Go to Gene View: AMFR
Go to UniProtKB:  Q9UKV5
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
E3 ubiquitin-protein ligase AMFR
C
58Homo sapiensMutation(s): 0 
Gene Names: AMFR (RNF45)
EC: 2.3.2.27
Find proteins for Q9UKV5 (Homo sapiens)
Go to Gene View: AMFR
Go to UniProtKB:  Q9UKV5
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
C
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 20 
  • Selection Criteria: Lowest Haddock Scores 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-08-28
    Type: Initial release
  • Version 1.1: 2013-10-02
    Type: Database references