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Crystal structure of de novo designed coiled-coil protein origami triangle
ID
Satler, Tadej
(
Author
),
ID
Hadži, San
(
Author
),
ID
Jerala, Roman
(
Author
)
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https://pubs.acs.org/doi/10.1021/jacs.3c05531
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Abstract
Coiled-coil protein origami (CCPO) uses modular coiled-coil building blocks and topological principles to design polyhedral structures distinct from those of natural globular proteins. While the CCPO strategy has proven successful in designing diverse protein topologies, no high-resolution structural information has been available about these novel protein folds. Here we report the crystal structure of a single-chain CCPO in the shape of a triangle. While neither cyclization nor the addition of nanobodies enabled crystallization, it was ultimately facilitated by the inclusion of a GCN$_2$ homodimer. Triangle edges are formed by the orthogonal parallel coiled-coil dimers P1:P2, P3:P4, and GCN$_2$ connected by short linkers. A triangle has a large central cavity and is additionally stabilized by side-chain interactions between neighboring segments at each vertex. The crystal lattice is densely packed and stabilized by a large number of contacts between triangles. Interestingly, the polypeptide chain folds into a trefoil-type protein knot topology, and AlphaFold2 fails to predict the correct fold. The structure validates the modular CC-based protein design strategy, providing molecular insight underlying CCPO stabilization and new opportunities for the design.
Language:
English
Keywords:
crystal structure
,
crystals
,
noncovalent interactions
,
oligomers
,
peptides
,
proteins
Work type:
Article
Typology:
1.01 - Original Scientific Article
Organization:
FKKT - Faculty of Chemistry and Chemical Technology
Publication status:
Published
Publication version:
Version of Record
Year:
2023
Number of pages:
Str. 16995–17000
Numbering:
Vol. 145, iss. 31
PID:
20.500.12556/RUL-152674
UDC:
577
ISSN on article:
1520-5126
DOI:
10.1021/jacs.3c05531
COBISS.SI-ID:
169812995
Publication date in RUL:
04.12.2023
Views:
438
Downloads:
102
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Record is a part of a journal
Title:
Journal of the American Chemical Society
Shortened title:
J. Am. Chem. Soc.
Publisher:
American Chemical Society
ISSN:
1520-5126
COBISS.SI-ID:
512805913
Licences
License:
CC BY 4.0, Creative Commons Attribution 4.0 International
Link:
http://creativecommons.org/licenses/by/4.0/
Description:
This is the standard Creative Commons license that gives others maximum freedom to do what they want with the work as long as they credit the author.
Secondary language
Language:
Slovenian
Keywords:
biokemija
,
proteinski origami
,
obvite vijačnice
,
CCPO
,
DNK
Projects
Funder:
ARRS - Slovenian Research Agency
Funding programme:
Young researchers
Funder:
ARRS - Slovenian Research Agency
Project number:
P4-0176
Name:
Sintezna biologija in imunologija
Funder:
ARRS - Slovenian Research Agency
Project number:
P1-0201
Name:
Fizikalna kemija
Funder:
EC - European Commission
Funding programme:
H2020
Project number:
787115
Name:
Molecular machines based on coiled-coil protein origami
Acronym:
MaCChines
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