4NWR

Computationally Designed Two-Component Self-Assembling Tetrahedral Cage T33-28


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.262 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Accurate design of co-assembling multi-component protein nanomaterials.

King, N.P.Bale, J.B.Sheffler, W.McNamara, D.E.Gonen, S.Gonen, T.Yeates, T.O.Baker, D.

(2014) Nature 510: 103-108

  • DOI: 10.1038/nature13404
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The self-assembly of proteins into highly ordered nanoscale architectures is a hallmark of biological systems. The sophisticated functions of these molecular machines have inspired the development of methods to engineer self-assembling protein nanost ...

    The self-assembly of proteins into highly ordered nanoscale architectures is a hallmark of biological systems. The sophisticated functions of these molecular machines have inspired the development of methods to engineer self-assembling protein nanostructures; however, the design of multi-component protein nanomaterials with high accuracy remains an outstanding challenge. Here we report a computational method for designing protein nanomaterials in which multiple copies of two distinct subunits co-assemble into a specific architecture. We use the method to design five 24-subunit cage-like protein nanomaterials in two distinct symmetric architectures and experimentally demonstrate that their structures are in close agreement with the computational design models. The accuracy of the method and the number and variety of two-component materials that it makes accessible suggest a route to the construction of functional protein nanomaterials tailored to specific applications.


    Organizational Affiliation

    1] Department of Biochemistry, University of Washington, Seattle, Washington 98195, USA [2] Institute for Protein Design, University of Washington, Seattle, Washington 98195, USA [3].




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
integron gene cassette protein
A, C, E, G, I, K, M, O, Q, S, U, W, Y, a, c, e, g, i, k, m, o, q, s, u, w, y, 0, 2, 4, 6, 8, AA, AC, AE, AG, AI, AK, AM, AO, AQ, AS, AU, AW, AY, BA, BC, BE, BG
158uncultured bacteriumMutation(s): 10 
Gene Names: ORF1
Find proteins for B0BGB0 (uncultured bacterium)
Go to UniProtKB:  B0BGB0
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Macrophage migration inhibitory factor-like protein
B, D, F, H, J, L, N, P, R, T, V, X, Z, b, d, f, h, j, l, n, p, r, t, v, x, z, 1, 3, 5, 7, 9, AB, AD, AF, AH, AJ, AL, AN, AP, AR, AT, AV, AX, AZ, BB, BD, BF, BH
121Leishmania majorMutation(s): 8 
Gene Names: MIF1
Find proteins for Q4Q413 (Leishmania major)
Go to UniProtKB:  Q4Q413
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.262 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 124.910α = 90.00
b = 189.250β = 90.02
c = 376.830γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
PHASERphasing
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-05-28
    Type: Initial release
  • Version 1.1: 2014-06-04
    Type: Database references
  • Version 1.2: 2014-06-11
    Type: Database references
  • Version 1.3: 2014-12-10
    Type: Other