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Cited by 935

The DOI matches its Crossref record; 10 of the 10 references it cites were found in a registry or an index.

Dali server: structural unification of protein families

Open access
Holm, Liisa·2022·Nucleic Acids Research
DOI 10.1093/nar/gkac387
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Abstract

Protein structure is key to understanding biological function. Structure comparison deciphers deep phylogenies, providing insight into functional conservation and functional shifts during evolution. Until recently, structural coverage of the protein universe was limited by the cost and labour involved in experimental structure determination. Recent breakthroughs in deep learning revolutionized structural bioinformatics by providing accurate structural models of numerous protein families for which no structural information existed. The Dali server for 3D protein structure comparison is widely used by crystallographers to relate new structures to pre-existing ones. Here, we report two most recent upgrades to the web server: (i) the foldomes of key organisms in the AlphaFold Database (version 1) are searchable by Dali, (ii) structural alignments are annotated with protein families. Using these new features, we discovered a novel functionally diverse subgroup within the WRKY/GCM1 clan. This was accomplished by linking the structurally characterized SWI/SNF and NAM families as well as the structural models of the CG-1 family and uncharacterized proteins to the structure of Gti1/Pac2, a previously known member of the WRKY/GCM1 clan. The Dali server is available at http://ekhidna2.biocenter.helsinki.fi/dali. This website is free and open to all users and there is no login requirement.

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Research works printed but not linked: 28

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Metadata

Authors
Holm, L.
Venue
Nucleic Acids Research
Publisher
Oxford University Press (OUP)
Published
2022-05-24
Volume
50
Issue
W1
Pages
W210-W215
ISSN
  • 0305-1048 (ISSN-L)
  • 1362-4962
DOI
10.1093/nar/gkac387
OpenAlex
W4282922306
Cited by
935
References
10
FWCI
53.17
Type
journal article
Language
en
Open access
gold
Licence
creativecommons.org/licenses/by/4.0/ (vor, 1 d)
Funders
Novo Nordisk Foundation

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Holm, L. (2022). Dali server: structural unification of protein families. Nucleic Acids Research. https://doi.org/10.1093/nar/gkac387

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