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Nature of the protein universe
Open accessAbstract
The protein universe is the set of all proteins of all organisms. Here, all currently known sequences are analyzed in terms of families that have single-domain or multidomain architectures and whether they have a known three-dimensional structure. Growth of new single-domain families is very slow: Almost all growth comes from new multidomain architectures that are combinations of domains characterized by ≈15,000 sequence profiles. Single-domain families are mostly shared by the major groups of organisms, whereas multidomain architectures are specific and account for species diversity. There are known structures for a quarter of the single-domain families, and >70% of all sequences can be partially modeled thanks to their membership in these families.
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Cited by
The evolutionary origin of orphan genes
Tautz, D., & Domazet-Lošo, T. (2011) · Nature Reviews Genetics · doi:10.1038/nrg3053 · Cited by 764
Structure-based prediction of protein–protein interactions on a genome-wide scale
Zhang, Q. C., Petrey, D., Deng, L., Qiang, L., Shi, Y., Thu, C. A., Bisikirska, B., Lefebvre, C., Accili, D., Hunter, T., et al. (2012) · Nature · doi:10.1038/nature11503 · Cited by 723
Protein structure prediction from sequence variation
Marks, D. S., Hopf, T. A., & Sander, C. (2012) · Nature Biotechnology · doi:10.1038/nbt.2419 · Cited by 622
Protein-Protein Docking: From Interaction to Interactome
Vakser, I. A. (2014) · Biophysical Journal · doi:10.1016/j.bpj.2014.08.033 · Cited by 318
Templates are available to model nearly all complexes of structurally characterized proteins
Kundrotas, P. J., Zhu, Z., Janin, J., & Vakser, I. A. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1200678109 · Cited by 179
Metadata
- Authors
- Levitt, M.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 2009-07-07
- Volume
- 106
- Issue
- 27
- Pages
- 11079-11084
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W1986347357
- Cited by
- 315
- References
- 0
- FWCI
- 8.16
- Type
- journal article
- Language
- en
- Open access
- green
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