5NJJ

PTB domain of human Numb isoform-1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.303 
  • R-Value Work: 0.269 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

A Numb-Mdm2 fuzzy complex reveals an isoform-specific involvement of Numb in breast cancer.

Colaluca, I.N.Basile, A.Freiburger, L.D'Uva, V.Disalvatore, D.Vecchi, M.Confalonieri, S.Tosoni, D.Cecatiello, V.Malabarba, M.G.Yang, C.J.Kainosho, M.Sattler, M.Mapelli, M.Pece, S.Di Fiore, P.P.

(2018) J. Cell Biol. 217: 745-762

  • DOI: 10.1083/jcb.201709092
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Numb functions as an oncosuppressor by inhibiting Notch signaling and stabilizing p53. This latter effect depends on the interaction of Numb with Mdm2, the E3 ligase that ubiquitinates p53 and commits it to degradation. In breast cancer (BC), loss of ...

    Numb functions as an oncosuppressor by inhibiting Notch signaling and stabilizing p53. This latter effect depends on the interaction of Numb with Mdm2, the E3 ligase that ubiquitinates p53 and commits it to degradation. In breast cancer (BC), loss of Numb results in a reduction of p53-mediated responses including sensitivity to genotoxic drugs and maintenance of homeostasis in the stem cell compartment. In this study, we show that the Numb-Mdm2 interaction represents a fuzzy complex mediated by a short Numb sequence encompassing its alternatively spliced exon 3 (Ex3), which is necessary and sufficient to inhibit Mdm2 and prevent p53 degradation. Alterations in the Numb splicing pattern are critical in BC as shown by increased chemoresistance of tumors displaying reduced levels of Ex3-containing isoforms, an effect that could be mechanistically linked to diminished p53 levels. A reduced level of Ex3-less Numb isoforms independently predicts poor outcome in BCs harboring wild-type p53. Thus, we have uncovered an important mechanism of chemoresistance and progression in p53-competent BCs.


    Organizational Affiliation

    The FIRC Institute for Molecular Oncology Foundation, Milan, Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein numb homolog
A, B, C, D
156Homo sapiensMutation(s): 0 
Gene Names: NUMB (C14orf41)
Find proteins for P49757 (Homo sapiens)
Go to Gene View: NUMB
Go to UniProtKB:  P49757
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ALA-TYR-ILE-GLY-PRO-PTR-LEU
E, F, G, H
7N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
D
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
PTR
Query on PTR
E, F, G, H
L-PEPTIDE LINKINGC9 H12 N O6 PTYR
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.303 
  • R-Value Work: 0.269 
  • Space Group: F 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 113.770α = 90.00
b = 120.440β = 90.00
c = 237.440γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
XDSdata scaling
PHENIXrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Italian Association for Cancer ResearchItalyIG18629, IG14404, IG11904

Revision History 

  • Version 1.0: 2017-12-13
    Type: Initial release
  • Version 1.1: 2018-01-03
    Type: Database references
  • Version 1.2: 2018-02-21
    Type: Database references