The DOI matches its Crossref record; 34 of the 34 references it cites were found in a registry or an index.
Efficient backbone cyclization of linear peptides by a recombinant asparaginyl endopeptidase
Open accessAbstract
Cyclotides are diverse plant backbone cyclized peptides that have attracted interest as pharmaceutical scaffolds, but fundamentals of their biosynthetic origin remain elusive. Backbone cyclization is a key enzyme-mediated step of cyclotide biosynthesis and confers a measure of stability on the resultant cyclotide. Furthermore, cyclization would be desirable for engineered peptides. Here we report the identification of four asparaginyl endopeptidases (AEPs), proteases implicated in cyclization, from the cyclotide-producing plant Oldenlandia affinis. We recombinantly express Oa AEP1 b and find it functions preferably as a cyclase by coupling C-terminal cleavage of propeptide substrates with backbone cyclization. Interestingly, Oa AEP1 b cannot cleave at the N-terminal site of O. affinis cyclotide precursors, implicating additional proteases in cyclotide biosynthesis. Finally, we demonstrate the broad utility of this enzyme by cyclization of peptides unrelated to cyclotides. We propose that recombinant Oa AEP1 b is a powerful tool for use in peptide engineering applications where increased stability of peptide products is desired.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Basic local alignment search tool
Altschul, S. F., Gish, W., Miller, W., Myers, E. W., & Lipman, D. J. (1990) · Journal of Molecular Biology · doi:10.1006/jmbi.1990.9999 · Cited by 98,669
Fast and accurate short read alignment with Burrows-Wheeler transform
Li, H., & Durbin, R. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp324 · Cited by 58,607
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
Li, W., & Godzik, A. (2006) · Bioinformatics · doi:10.1093/bioinformatics/btl158 · Cited by 11,410
Enhancements and modifications of primer design program Primer3
Koressaar, T., & Remm, M. (2007) · Bioinformatics · doi:10.1093/bioinformatics/btm091 · Cited by 2,603
Oases:robust de novo RNA-seq assembly across the dynamic range of expression levels
Schulz, M. H., Zerbino, D. R., Vingron, M., & Birney, E. (2012) · Bioinformatics · doi:10.1093/bioinformatics/bts094 · Cited by 1,424
Staphylococcus aureus Sortase, an Enzyme that Anchors Surface Proteins to the Cell Wall
Mazmanian, S. K., Liu, G., Ton-That, H., & Schneewind, O. (1999) · Science · doi:10.1126/science.285.5428.760 · Cited by 1,053
A Plant Vacuolar Protease, VPE, Mediates Virus-Induced Hypersensitive Cell Death
Hatsugai, N., Kuroyanagi, M., Yamada, K., Meshi, T., Tsuda, S., Kondo, M., Nishimura, M., & Hara-Nishimura, I. (2004) · Science · doi:10.1126/science.1099859 · Cited by 621
Jennings, C., West, J., Waine, C., Craik, D., & Anderson, M. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.191366898 · Cited by 523
Self-citationButelase 1 is an Asx-specific ligase enabling peptide macrocyclization and synthesis
Nguyen, G. K. T., Wang, S., Qiu, Y., Hemu, X., Lian, Y., & Tam, J. P. (2014) · Nature Chemical Biology · doi:10.1038/nchembio.1586 · Cited by 431
Immune recognition of a human renal cancer antigen through post-translational protein splicing
Hanada, K.-I., Yewdell, J. W., & Yang, J. C. (2004) · Nature · doi:10.1038/nature02240 · Cited by 336
Cloning, isolation, and characterization of mammalian legumain, an asparaginyl endopeptidase.
Chen, J.-M., Dando, P. M., Rawlings, N. D., Brown, M. A., Young, N. E., Stevens, R. A., Hewitt, E., Watts, C., & Barrett, A. J. (1997) · Journal of Biological Chemistry · doi:10.1074/jbc.272.12.8090 · Cited by 320
The Engineering of an Orally Active Conotoxin for the Treatment of Neuropathic Pain
Clark, R. J., Jensen, J., Nevin, S. T., Callaghan, B. P., Adams, D. J., & Craik, D. J. (2010) · Angewandte Chemie International Edition · doi:10.1002/anie.201000620 · Cited by 313
Self-citationCatanzariti, A., Soboleva, T. A., Jans, D. A., Board, P. G., & Baker, R. T. (2004) · Protein Science · doi:10.1110/ps.04618904 · Cited by 298
Clark, R. J., Fischer, H., Dempster, L., Daly, N. L., Rosengren, K. J., Nevin, S. T., Meunier, F. A., Adams, D. J., & Craik, D. J. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0504613102 · Cited by 234
Self-citationAn Asparaginyl Endopeptidase Mediates in Vivo Protein Backbone Cyclization
Saska, I., Gillon, A. D., Hatsugai, N., Dietzgen, R. G., Hara-Nishimura, I., Anderson, M. A., & Craik, D. J. (2007) · Journal of Biological Chemistry · doi:10.1074/jbc.m705185200 · Cited by 224
Self-citationLiu, Y., Kati, W., Chen, C.-M., Tripathi, R., Molla, A., & Kohlbrenner, W. (1999) · Analytical Biochemistry · doi:10.1006/abio.1998.3014 · Cited by 193
Dall, E., & Brandstetter, H. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1300686110 · Cited by 193
Colgrave, M. L., Kotze, A. C., Huang, Y.-H., O’Grady, J., Simonsen, S. M., & Craik, D. J. (2008) · Biochemistry · doi:10.1021/bi800223y · Cited by 183
Self-citationKembhavi, A. A., Buttle, D. J., Knight, C. G., & Barrett, A. J. (1993) · Archives of Biochemistry and Biophysics · doi:10.1006/abbi.1993.1274 · Cited by 183
Albumins and their processing machinery are hijacked for cyclic peptides in sunflower
Mylne, J. S., Colgrave, M. L., Daly, N. L., Benfield, A. H., Elliott, A. G., McCallum, E. J., Jones, A., & Craik, D. J. (2011) · Nature Chemical Biology · doi:10.1038/nchembio.542 · Cited by 155
Self-citationKoehnke, J., Bent, A., Houssen, W. E., Zollman, D., Morawitz, F., Shirran, S. L., Vendôme, J., Nneoyi-Egbe, A. F., Trembleau, L., Botting, C. H., et al. (2012) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.2340 · Cited by 147
Lee, J., McIntosh, J. A., Hathaway, B. J., & Schmidt, E. W. (2009) · Journal of the American Chemical Society · doi:10.1021/ja8092168 · Cited by 140
Cloning and expression of mouse legumain, a lysosomal endopeptidase
Chen, J.-M., Dando, P. M., STEVENS, R. A. E., et al. (1998) · Biochemical Journal · doi:10.1042/bj3350111 · Cited by 138
Abe, Y., Shirane, K., Yokosawa, H., Matsushita, H., Mitta, M., Kato, I., & Ishii, S. (1993) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)53726-1 · Cited by 133
Peptide Macrocyclization Catalyzed by a Prolyl Oligopeptidase Involved in α-Amanitin Biosynthesis
Luo, H., Hong, S.-Y., Sgambelluri, R. M., Angelos, E. R., Li, X., & Walton, J. D. (2014) · Chemistry & Biology · doi:10.1016/j.chembiol.2014.10.015 · Cited by 113
Harris, K. S., Casey, J. L., Coley, A. M., Masciantonio, R., Sabo, J. K., Keizer, D. W., Lee, E. F., McMahon, A., Norton, R. S., Anders, R. F., et al. (2005) · Infection and Immunity · doi:10.1128/iai.73.10.6981-6989.2005 · Cited by 106
Self-citationAnthelmintic activity of cyclotides: In vitro studies with canine and human hookworms
Colgrave, M. L., Kotze, A. C., Kopp, S. R., McCarthy, J. S., Coleman, G. T., & Craik, D. J. (2008) · Acta Tropica · doi:10.1016/j.actatropica.2008.11.003 · Cited by 102
Self-citationCircular Logic: Nonribosomal Peptide-like Macrocyclization with a Ribosomal Peptide Catalyst
McIntosh, J. A., Robertson, C. R., Agarwal, V., Nair, S. K., Bulaj, G. W., & Schmidt, E. W. (2010) · Journal of the American Chemical Society · doi:10.1021/ja1067806 · Cited by 100
Barber, C. J. S., Pujara, P. T., Reed, D. W., Chiwocha, S., Zhang, H., & Covello, P. S. (2013) · Journal of Biological Chemistry · doi:10.1074/jbc.m112.437947 · Cited by 96
Dall, E., & Brandstetter, H. (2011) · Acta Crystallographica Section F Structural Biology and Crystallization Communications · doi:10.1107/s1744309111048020 · Cited by 90
Chan, L. Y., Zhang, V. M., Huang, Y., Waters, N. C., Bansal, P. S., Craik, D. J., & Daly, N. L. (2013) · ChemBioChem · doi:10.1002/cbic.201300034 · Cited by 88
Self-citationPeptide Macrocyclization by a Bifunctional Endoprotease
Bernath-Levin, K., Nelson, C. J., Elliott, A. G., Jayasena, A. S., Millar, A. H., Craik, D. J., & Mylne, J. S. (2015) · Chemistry & Biology · doi:10.1016/j.chembiol.2015.04.010 · Cited by 86
Self-citationStructure and Mechanism of an Aspartimide‐Dependent Peptide Ligase in Human Legumain
Dall, E., Fegg, J. C., Briza, P., & Brandstetter, H. (2015) · Angewandte Chemie International Edition · doi:10.1002/anie.201409135 · Cited by 84
Qin, Q., McCallum, E. J., Kaas, Q., Suda, J., Saska, I., Craik, D. J., & Mylne, J. S. (2010) · BMC Genomics · doi:10.1186/1471-2164-11-111 · Cited by 34
Self-citation
Cited by
New developments in RiPP discovery, enzymology and engineering
Montalbán-López, M., Scott, T. A., Ramesh, S., Rahman, I. R., van Heel, A. J., Viel, J. H., Bandarian, V., Dittmann, E., Genilloud, O., Goto, Y., et al. (2021) · Natural Product Reports · doi:10.1039/d0np00027b · Cited by 787
Metadata
- Authors
- Harris, K. S., Durek, T., Kaas, Q., Poth, A. G., Gilding, E. K., Conlan, B. F., Saska, I., Daly, N. L., van der Weerden, N. L., Craik, D. J., & Anderson, M. A.
- Venue
- Nature Communications
- Published
- 2015-12-18
- Volume
- 6
- Issue
- 1
- Pages
- 10199-10199
- ISSN
- 2041-1723 (ISSN-L)
- OpenAlex
- W2267190811
- Cited by
- 257
- References
- 34
- FWCI
- 6.95
- Type
- journal article
- Language
- en
- Open access
- gold
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.