5EHB

A de novo designed hexameric coiled-coil peptide with iodotyrosine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.19 Å
  • R-Value Free: 0.434 
  • R-Value Work: 0.326 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

A De Novo Designed Coiled-Coil Peptide with a Reversible pH-Induced Oligomerization Switch.

Lizatovic, R.Aurelius, O.Stenstrom, O.Drakenberg, T.Akke, M.Logan, D.T.Andre, I.

(2016) Structure 24: 946-955

  • DOI: 10.1016/j.str.2016.03.027

  • PubMed Abstract: 
  • Protein conformational switches have many useful applications but are difficult to design rationally. Here we demonstrate how the isoenergetic energy landscape of higher-order coiled coils can enable the formation of an oligomerization switch by inse ...

    Protein conformational switches have many useful applications but are difficult to design rationally. Here we demonstrate how the isoenergetic energy landscape of higher-order coiled coils can enable the formation of an oligomerization switch by insertion of a single destabilizing element into an otherwise stable computationally designed scaffold. We describe a de novo designed peptide that was discovered to switch between a parallel symmetric pentamer at pH 8 and a trimer of antiparallel dimers at pH 6. The transition between pentamer and hexamer is caused by changes in the protonation states of glutamatic acid residues with highly upshifted pKa values in both oligomer forms. The drastic conformational change coupled with the narrow pH range makes the peptide sequence an attractive candidate for introduction of pH sensing into other proteins. The results highlight the remarkable ability of simple-α helices to self-assemble into a vast range of structural states.


    Organizational Affiliation

    Department of Biochemistry and Structural Biology, Center for Molecular Protein Science, Lund University, PO Box 124, 221 00 Lund, Sweden.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
pHiosYI
A, B
32N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
IYR
Query on IYR
A, B
L-PEPTIDE LINKINGC9 H10 I N O3TYR
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.19 Å
  • R-Value Free: 0.434 
  • R-Value Work: 0.326 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 53.068α = 90.00
b = 53.068β = 90.00
c = 136.114γ = 120.00
Software Package:
Software NamePurpose
XDSdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
AutoSolphasing
REFMACrefinement
MxCuBEdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-06-15
    Type: Initial release
  • Version 1.1: 2018-01-17
    Type: Data collection