6G6X

14-3-3sigma in complex with a P129beta3P mutated YAP pS127 phosphopeptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.13 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.150 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

A study on the effect of synthetic alpha-to-beta3-amino acid mutations on the binding of phosphopeptides to 14-3-3 proteins.

Andrei, S.A.Thijssen, V.Brunsveld, L.Ottmann, C.Milroy, L.G.

(2019) Chem.Commun.(Camb.) --: --

  • DOI: 10.1039/c9cc07982c
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Here we describe the synthesis of a series of α,β-phosphopeptides, based on the phosphoepitope site on YAP1 (yes-associated protein 1), and the biochemical, biophysical and structural characterization of their binding to 14-3-3 proteins. The impact o ...

    Here we describe the synthesis of a series of α,β-phosphopeptides, based on the phosphoepitope site on YAP1 (yes-associated protein 1), and the biochemical, biophysical and structural characterization of their binding to 14-3-3 proteins. The impact of systematic mono- and di-substitution of α → β3 amino acid residues around the phosphoserine residue are discussed. Our results confirm the important role played by the +2 proline residue in the thermodynamics and structure of the phosphoepitope/14-3-3 interaction.


    Organizational Affiliation

    Laboratory of Chemical Biology, Department of Biomedical Engineering and Institute for Complex Molecular Systems (ICMS), Eindhoven University of Technology, 5600 MB Eindhoven, The Netherlands. l.brunsveld@tue.nl c.ottmann@tue.nl l.milroy@cantab.net and Department of Chemistry, University of Duisburg-Essen, 47057 Essen, Germany.,Laboratory of Chemical Biology, Department of Biomedical Engineering and Institute for Complex Molecular Systems (ICMS), Eindhoven University of Technology, 5600 MB Eindhoven, The Netherlands. l.brunsveld@tue.nl c.ottmann@tue.nl l.milroy@cantab.net.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
14-3-3 protein sigma
A
236Homo sapiensMutation(s): 0 
Gene Names: SFN (HME1)
Find proteins for P31947 (Homo sapiens)
Go to Gene View: SFN
Go to UniProtKB:  P31947
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Transcriptional coactivator YAP1
P
11Homo sapiensMutation(s): 1 
Gene Names: YAP1 (YAP65)
Find proteins for P46937 (Homo sapiens)
Go to Gene View: YAP1
Go to UniProtKB:  P46937
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
EOE
Query on EOE
P
L-peptide linkingC6 H11 N O2

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SEP
Query on SEP
P
L-PEPTIDE LINKINGC3 H8 N O6 PSER
ACE
Query on ACE
P
NON-POLYMERC2 H4 O

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.13 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.150 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 82.118α = 90.00
b = 111.849β = 90.00
c = 62.630γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
PDB_EXTRACTdata extraction
Aimlessdata scaling
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Netherlands Organisation for Scientific ResearchNetherlandsECHO-STIP 717.014.001
Netherlands Organisation for Scientific ResearchNetherlandsGravity program 024.001.035

Revision History 

  • Version 1.0: 2019-04-10
    Type: Initial release
  • Version 1.1: 2019-12-04
    Type: Database references