6AVA

Exploring Cystine Dense Peptide Space to Open a Unique Molecular Toolbox

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.172 
  • R-Value Observed: 0.175 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Screening, large-scale production and structure-based classification of cystine-dense peptides.

Correnti, C.E., Gewe, M.M., Mehlin, C., Bandaranayake, A.D., Johnsen, W.A., Rupert, P.B., Brusniak, M.Y., Clarke, M., Burke, S.E., De Van Der Schueren, W., Pilat, K., Turnbaugh, S.M., May, D., Watson, A., Chan, M.K., Bahl, C.D., Olson, J.M., Strong, R.K.

(2018) Nat Struct Mol Biol 25: 270-278

  • DOI: 10.1038/s41594-018-0033-9
  • Primary Citation of Related Structures:  
    6ATL, 6ATN, 6ATS, 6ATU, 6ATW, 6AU7, 6AUP, 6AV8, 6AVA, 6AVC, 6AVD

  • PubMed Abstract: 

    • Peptides folded through interwoven disulfides display extreme biochemical properties and unique medicinal potential. However, their exploitation has been hampered by the limited amounts isolatable from natural sources and the expense of chemical synthesis ...

    Peptides folded through interwoven disulfides display extreme biochemical properties and unique medicinal potential. However, their exploitation has been hampered by the limited amounts isolatable from natural sources and the expense of chemical synthesis. We developed reliable biological methods for high-throughput expression, screening and large-scale production of these peptides: 46 were successfully produced in multimilligram quantities, and >600 more were deemed expressible through stringent screening criteria. Many showed extreme resistance to temperature, proteolysis and/or reduction, and all displayed inhibitory activity against at least 1 of 20 ion channels tested, thus confirming their biological functionality. Crystal structures of 12 confirmed proper cystine topology and the utility of crystallography to study these molecules but also highlighted the need for rational classification. Previous categorization attempts have focused on limited subsets featuring distinct motifs. Here we present a global definition, classification and analysis of >700 structures of cystine-dense peptides, providing a unifying framework for these molecules.

    Organizational Affiliation: 

    Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA. rstrong@fredhutch.org.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Insectotoxin-I1A, B38Mesobuthus eupeusMutation(s): 0 
UniProt
Find proteins for P15220 (Mesobuthus eupeus)
Explore P15220 
Go to UniProtKB:  P15220
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP15220
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.172 
  • R-Value Observed: 0.175 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 41.437α = 90
b = 41.437β = 90
c = 88.093γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-02-28
    Type: Initial release
  • Version 1.1: 2018-03-14
    Changes: Database references