5YQG

The structure of 14-3-3 and pNumb peptide

  • Classification: PEPTIDE BINDING PROTEIN
  • Organism(s): Mus musculus
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2017-11-06 Released: 2018-02-07 
  • Deposition Author(s): Chen, X., Liu, Z., Wen, W.
  • Funding Organization(s): Ministry of Science and Technology of the People's Republic of China, the National Natural Science Foundation of China, the Shanghai Municipal Education Commission

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.186 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural determinants controlling 14-3-3 recruitment to the endocytic adaptor Numb and dissociation of the Numb/alpha-adaptin complex.

Chen, X.Liu, Z.Shan, Z.Yao, W.Gu, A.Wen, W.

(2018) J Biol Chem 293: 4149-4158

  • DOI: 10.1074/jbc.RA117.000897
  • Primary Citation of Related Structures:  
    5YQG

  • PubMed Abstract: 
  • Traffic of cargo across membranes helps establish, maintain, and reorganize distinct cellular compartments and is fundamental to many metabolic processes. The cargo-selective endocytic adaptor Numb participates in clathrin-dependent endocytosis by at ...

    Traffic of cargo across membranes helps establish, maintain, and reorganize distinct cellular compartments and is fundamental to many metabolic processes. The cargo-selective endocytic adaptor Numb participates in clathrin-dependent endocytosis by attaching cargoes to the clathrin adaptor α-adaptin. The phosphorylation of Numb at Ser 265 and Ser 284 recruits the regulatory protein 14-3-3, accompanied by the dissociation of Numb from α-adaptin and Numb's translocation from the cortical membrane to the cytosol. However, the molecular mechanisms underlying the Numb-α-adaptin interaction and its regulation by Numb phosphorylation and 14-3-3 recruitment remain poorly understood. Here, biochemical and structural analyses of the Numb·14-3-3 complex revealed that Numb phosphorylation at both Ser 265 and Ser 284 is required for Numb's efficient interaction with 14-3-3. We also discovered that an RQFRF motif surrounding Ser 265 in Numb functions together with the canonical C-terminal DPF motif, required for Numb's interaction with α-adaptin, to form a stable complex with α-adaptin. Of note, we provide evidence that the phosphorylation-induced binding of 14-3-3 to Numb directly competes with the binding of α-adaptin to Numb. Our findings suggest a potential mechanism governing the dynamic assembly of Numb with α-adaptin or 14-3-3. This dual-site recognition of Numb by α-adaptin may have implications for other α-adaptin targets. We propose that the newly identified α-adaptin-binding site surrounding Ser 265 in Numb functions as a triggering mechanism for the dynamic dissociation of the Numb·α-adaptin complex.


    Organizational Affiliation

    From the Department of Neurosurgery, Huashan Hospital, Institutes of Biomedical Sciences, State Key Laboratory of Medical Neurobiology and Department of Systems Biology for Medicine, School of Basic Medical Sciences, Shanghai Medical College of Fudan University, Shanghai 200032, China wywen@fudan.edu.cn.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
14-3-3 protein etaA, B, C, D252Mus musculusMutation(s): 0 
Gene Names: Ywhah
Find proteins for P68510 (Mus musculus)
Explore P68510 
Go to UniProtKB:  P68510
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Peptide from Protein numb homologE, F31Mus musculusMutation(s): 0 
Gene Names: Numb
Find proteins for Q9QZS3 (Mus musculus)
Explore Q9QZS3 
Go to UniProtKB:  Q9QZS3
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
SEP
Query on SEP
E,FL-PEPTIDE LINKINGC3 H8 N O6 PSER
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.186 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.26α = 90
b = 74.626β = 90.07
c = 134.136γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology of the People's Republic of ChinaChina2014CB910201
the National Natural Science Foundation of ChinaChina31422015, 31670730, 31270778
the Shanghai Municipal Education CommissionChina14SG06

Revision History 

  • Version 1.0: 2018-02-07
    Type: Initial release
  • Version 1.1: 2018-05-02
    Changes: Data collection, Database references