6NHT image
Deposition Date 2018-12-23
Release Date 2019-05-08
Last Version Date 2024-03-20
Entry Detail
PDB ID:
6NHT
Title:
Single particle reconstruction of the symmetric core an engineered protein scaffold
Biological Source:
Method Details:
Experimental Method:
Resolution:
2.90 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:DARP14 - Subunit A with DARPin
Chain IDs:A, B, C, D, I, J, K, L, Q, R, S, T
Chain Length:319
Number of Molecules:12
Biological Source:Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Polymer Type:polypeptide(L)
Molecule:DARP14 - Subunit B
Gene (Uniprot):PA1966
Chain IDs:E, F, G, H, M, N, O, P, U, V, W, X
Chain Length:131
Number of Molecules:12
Biological Source:Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
Ligand Molecules
Primary Citation
A 3.8 angstrom resolution cryo-EM structure of a small protein bound to an imaging scaffold.
Nat Commun 10 1864 1864 (2019)
PMID: 31015551 DOI: 10.1038/s41467-019-09836-0

Abstact

Proteins smaller than about 50 kDa are currently too small to be imaged at high resolution by cryo-electron microscopy (cryo-EM), leaving most protein molecules in the cell beyond the reach of this powerful structural technique. Here we use a designed protein scaffold to bind and symmetrically display 12 copies of a small 26 kDa protein, green fluorescent protein (GFP). We show that the bound cargo protein is held rigidly enough to visualize it at a resolution of 3.8 Å by cryo-EM, where specific structural features of the protein are visible. The designed scaffold is modular and can be modified through modest changes in its amino acid sequence to bind and display diverse proteins for imaging, thus providing a general method to break through the lower size limitation in cryo-EM.

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Primary Citation of related structures