Hidden Sequence Repeats: Additional Evidence for the Origin of TIM-Barrel Family Article Swipe
Xiaofeng Ji
,
Zheng Yuan
,
Zhipeng Wang
,
Jun Sheng
·
YOU?
·
· 2016
· Open Access
·
· DOI: https://doi.org/10.4236/jbise.2016.96025
YOU?
·
· 2016
· Open Access
·
· DOI: https://doi.org/10.4236/jbise.2016.96025
Most proteins adopt an approximate structural symmetry. However, they have no symmetry detectable in their sequences and it is unclear for most of these proteins whether their structural symmetry originates from duplication. As one of the six popular folds (super-folds) possessing an approximate structural symmetry, the triosephosphate isomerase barrel (TIM-barrel) domain has been widely studied. Using modified recurrent quantification analysis of primary sequences, we identified the same 2-, 3-, and 4-fold symmetry pattern as their tertiary structures. This result indicates that the symmetry in tertiary structure is coded by symmetry in the primary sequence and that the TIM-barrel adopts a 2-, 3-, or 4-fold repeat pattern during evolution. This discovery will be useful for understanding the evolutionary mechanisms of this protein family and the symmetry pattern that may be a clue into the ancient origin of duplication of half-barrels or the β a unit.
Related Topics
Concepts
Triosephosphate isomerase
Symmetry (geometry)
Barrel (horology)
Gene duplication
Sequence (biology)
Biology
Computational biology
Protein structure
Structural motif
Protein tertiary structure
Physics
Evolutionary biology
Genetics
Mathematics
Geometry
Gene
Materials science
Biochemistry
Composite material
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.4236/jbise.2016.96025
- https://www.scirp.org/journal/PaperDownload.aspx?paperID=67017
- OA Status
- diamond
- References
- 31
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W2414737985
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W2414737985Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.4236/jbise.2016.96025Digital Object Identifier
- Title
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Hidden Sequence Repeats: Additional Evidence for the Origin of TIM-Barrel FamilyWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2016Year of publication
- Publication date
-
2016-01-01Full publication date if available
- Authors
-
Xiaofeng Ji, Zheng Yuan, Zhipeng Wang, Jun ShengList of authors in order
- Landing page
-
https://doi.org/10.4236/jbise.2016.96025Publisher landing page
- PDF URL
-
https://www.scirp.org/journal/PaperDownload.aspx?paperID=67017Direct link to full text PDF
- Open access
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YesWhether a free full text is available
- OA status
-
diamondOpen access status per OpenAlex
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https://www.scirp.org/journal/PaperDownload.aspx?paperID=67017Direct OA link when available
- Concepts
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Triosephosphate isomerase, Symmetry (geometry), Barrel (horology), Gene duplication, Sequence (biology), Biology, Computational biology, Protein structure, Structural motif, Protein tertiary structure, Physics, Evolutionary biology, Genetics, Mathematics, Geometry, Gene, Materials science, Biochemistry, Composite materialTop concepts (fields/topics) attached by OpenAlex
- Cited by
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0Total citation count in OpenAlex
- References (count)
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31Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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| referenced_works | https://openalex.org/W2045777307, https://openalex.org/W2013404472, https://openalex.org/W2074069606, https://openalex.org/W2121704271, https://openalex.org/W2170171070, https://openalex.org/W2195878577, https://openalex.org/W1966833977, https://openalex.org/W2145961091, https://openalex.org/W2153753805, https://openalex.org/W2146605886, https://openalex.org/W2000203435, https://openalex.org/W2114077379, https://openalex.org/W2019739888, https://openalex.org/W2147595457, https://openalex.org/W2046239250, https://openalex.org/W2132505033, https://openalex.org/W2008560636, https://openalex.org/W2103918159, https://openalex.org/W1976831054, https://openalex.org/W2020013321, https://openalex.org/W2136593531, https://openalex.org/W1985363608, https://openalex.org/W2090295525, https://openalex.org/W2144873995, https://openalex.org/W1999277606, https://openalex.org/W2059742859, https://openalex.org/W1982979699, https://openalex.org/W2101335101, https://openalex.org/W4285719527, https://openalex.org/W1902004182, https://openalex.org/W1491063910 |
| referenced_works_count | 31 |
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