3OQ5

Crystal structure of the 3-MBT domain from human L3MBTL1 in complex with p53K382me1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5005 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The MBT Repeats of L3MBTL1 Link SET8-mediated p53 Methylation at Lysine 382 to Target Gene Repression.

West, L.E.Roy, S.Lachmi-Weiner, K.Hayashi, R.Shi, X.Appella, E.Kutateladze, T.G.Gozani, O.

(2010) J.Biol.Chem. 285: 37725-37732

  • DOI: 10.1074/jbc.M110.139527

  • PubMed Abstract: 
  • The p53 tumor suppressor protein is regulated by multiple post-translational modifications, including lysine methylation. We previously found that monomethylation of p53 at lysine 382 (p53K382me1) by the protein lysine methyltransferase (PKMT) SET8/P ...

    The p53 tumor suppressor protein is regulated by multiple post-translational modifications, including lysine methylation. We previously found that monomethylation of p53 at lysine 382 (p53K382me1) by the protein lysine methyltransferase (PKMT) SET8/PR-Set7 represses p53 transactivation of target genes. However, the molecular mechanism linking p53K382 monomethylation to repression is not known. Here we show in biochemical and crystallographic studies the preferential recognition of p53K382me1 by the triple malignant brain tumor (MBT) repeats of the chromatin compaction factor L3MBTL1. We demonstrate that SET8-mediated methylation of p53 at Lys-382 promotes the interaction between L3MBTL1 and p53 in cells, and the chromatin occupancy of L3MBTL1 at p53 target promoters. In the absence of DNA damage, L3MBTL1 interacts with p53K382me1 and p53-target genes are repressed, whereas depletion of L3MBTL1 results in a p53-dependent increase in p21 and PUMA transcript levels. Activation of p53 by DNA damage is coupled to a decrease in p53K382me1 levels, abrogation of the L3MBTL1-p53 interaction, and disassociation of L3MBTL1 from p53-target promoters. Together, we identify L3MBTL1 as the second known methyl-p53 effector protein, and provide a molecular explanation for the mechanism by which p53K382me1 is transduced to regulate p53 activity.


    Organizational Affiliation

    Department of Biology, Stanford University, Stanford, California 94305, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Lethal(3)malignant brain tumor-like protein
A, B, C
345Homo sapiensMutation(s): 0 
Gene Names: L3MBTL1 (KIAA0681, L3MBT, L3MBTL)
Find proteins for Q9Y468 (Homo sapiens)
Go to Gene View: L3MBTL1
Go to UniProtKB:  Q9Y468
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Cellular tumor antigen p53
D, E
10Homo sapiensMutation(s): 0 
Gene Names: TP53 (P53)
Find proteins for P04637 (Homo sapiens)
Go to Gene View: TP53
Go to UniProtKB:  P04637
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MLZ
Query on MLZ
D, E
L-PEPTIDE LINKINGC7 H16 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5005 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.205 
  • Space Group: P 32
Unit Cell:
Length (Å)Angle (°)
a = 109.080α = 90.00
b = 109.080β = 90.00
c = 90.050γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement
d*TREKdata scaling
PHASERphasing
d*TREKdata reduction
CrystalCleardata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-09-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance