A de novo designed nonameric coiled coil, CC-Type2-(GgLaId)4

Experimental Data Snapshot

  • Resolution: 1.64 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.183 

wwPDB Validation   3D Report Full Report

This is version 1.1 of the entry. See complete history


Coiled coils 9-to-5: rational de novo design of alpha-helical barrels with tunable oligomeric states.

Dawson, W.M.Martin, F.J.O.Rhys, G.G.Shelley, K.L.Brady, R.L.Woolfson, D.N.

(2021) Chem Sci 12: 6923-6928

  • DOI: https://doi.org/10.1039/d1sc00460c
  • Primary Citation of Related Structures:  
    7A1T, 7BAS, 7BAT, 7BAU, 7BAV, 7BAW, 7BIM

  • PubMed Abstract: 

    The rational design of linear peptides that assemble controllably and predictably in water is challenging. Short sequences must encode unique target structures and avoid alternative states. However, the non-covalent forces that stabilize and discriminate between states are weak. Nonetheless, for α-helical coiled-coil assemblies considerable progress has been made in rational de novo design. In these, sequence repeats of nominally hydrophobic ( h ) and polar ( p ) residues, hpphppp , direct the assembly of amphipathic helices into dimeric to tetrameric bundles. Expanding this pattern to hpphhph can produce larger α-helical barrels. Here, we show that pentameric to nonameric barrels are accessed by varying the residue at one of the h sites. In peptides with four L/I-K-E-I-A-x-Z repeats, decreasing the size of Z from threonine to serine to alanine to glycine gives progressively larger oligomers. X-ray crystal structures of the resulting α-helical barrels rationalize this: side chains at Z point directly into the helical interfaces, and smaller residues allow closer helix contacts and larger assemblies.

  • Organizational Affiliation

    School of Chemistry, University of Bristol Cantock's Close Bristol BS8 1TS UK w.dawson@bristol.ac.uk d.n.woolfson@bristol.ac.uk.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nonameric de novo coiled coil CC-Type2-(GgLaId)432synthetic constructMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on GOL

Download Ideal Coordinates CCD File 
AB [auth M]
AC [auth g]
BB [auth N]
BC [auth h]
CB [auth N]
AB [auth M],
AC [auth g],
BB [auth N],
BC [auth h],
CB [auth N],
CC [auth j],
DB [auth N],
EB [auth N],
GB [auth P],
HB [auth R],
JB [auth S],
KA [auth A],
KB [auth S],
LA [auth A],
LB [auth T],
MA [auth A],
MB [auth U],
NA [auth B],
NB [auth V],
OB [auth V],
PA [auth D],
PB [auth Y],
QA [auth E],
QB [auth Z],
RB [auth Z],
SB [auth a],
TA [auth F],
TB [auth c],
UA [auth H],
UB [auth d],
VA [auth I],
VB [auth e],
WA [auth J],
WB [auth f],
XA [auth J],
YA [auth K],
YB [auth g],
ZA [auth K],
ZB [auth g]
C3 H8 O3
Query on IPA

Download Ideal Coordinates CCD File 
DC [auth j]
FB [auth N]
IB [auth R]
OA [auth C]
RA [auth E]
DC [auth j],
FB [auth N],
IB [auth R],
OA [auth C],
RA [auth E],
SA [auth E],
XB [auth f]
C3 H8 O
Experimental Data & Validation

Experimental Data

  • Resolution: 1.64 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.183 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 71.21α = 90
b = 128.08β = 110.67
c = 71.45γ = 90
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
xia2data reduction
xia2data scaling

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/R00661X/1

Revision History  (Full details and data files)

  • Version 1.0: 2021-04-21
    Type: Initial release
  • Version 1.1: 2021-11-17
    Changes: Data collection, Database references, Structure summary