The evolutionary history of topological variations in the CPA/AT transporters.
CPA/AT transporters are made up of scaffold and a core domain. The core domain contains two non-canonical helices (broken or reentrant) that mediate the transport of ions, amino acids or other charged compounds. During evolution, these transporters have undergone substantial changes in structure, to...
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Public Library of Science (PLoS)
2021
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oai:doaj.org-article:f962e7ca6d774f08888af5e65cb3b7742021-12-02T19:58:04ZThe evolutionary history of topological variations in the CPA/AT transporters.1553-734X1553-735810.1371/journal.pcbi.1009278https://doaj.org/article/f962e7ca6d774f08888af5e65cb3b7742021-08-01T00:00:00Zhttps://doi.org/10.1371/journal.pcbi.1009278https://doaj.org/toc/1553-734Xhttps://doaj.org/toc/1553-7358CPA/AT transporters are made up of scaffold and a core domain. The core domain contains two non-canonical helices (broken or reentrant) that mediate the transport of ions, amino acids or other charged compounds. During evolution, these transporters have undergone substantial changes in structure, topology and function. To shed light on these structural transitions, we create models for all families using an integrated topology annotation method. We find that the CPA/AT transporters can be classified into four fold-types based on their structure; (1) the CPA-broken fold-type, (2) the CPA-reentrant fold-type, (3) the BART fold-type, and (4) a previously not described fold-type, the Reentrant-Helix-Reentrant fold-type. Several topological transitions are identified, including the transition between a broken and reentrant helix, one transition between a loop and a reentrant helix, complete changes of orientation, and changes in the number of scaffold helices. These transitions are mainly caused by gene duplication and shuffling events. Structural models, topology information and other details are presented in a searchable database, CPAfold (cpafold.bioinfo.se).Govindarajan SudhaClaudio BassotJohn LambNanjiang ShuYan HuangArne ElofssonPublic Library of Science (PLoS)articleBiology (General)QH301-705.5ENPLoS Computational Biology, Vol 17, Iss 8, p e1009278 (2021) |
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DOAJ |
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DOAJ |
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| topic |
Biology (General) QH301-705.5 |
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Biology (General) QH301-705.5 Govindarajan Sudha Claudio Bassot John Lamb Nanjiang Shu Yan Huang Arne Elofsson The evolutionary history of topological variations in the CPA/AT transporters. |
| description |
CPA/AT transporters are made up of scaffold and a core domain. The core domain contains two non-canonical helices (broken or reentrant) that mediate the transport of ions, amino acids or other charged compounds. During evolution, these transporters have undergone substantial changes in structure, topology and function. To shed light on these structural transitions, we create models for all families using an integrated topology annotation method. We find that the CPA/AT transporters can be classified into four fold-types based on their structure; (1) the CPA-broken fold-type, (2) the CPA-reentrant fold-type, (3) the BART fold-type, and (4) a previously not described fold-type, the Reentrant-Helix-Reentrant fold-type. Several topological transitions are identified, including the transition between a broken and reentrant helix, one transition between a loop and a reentrant helix, complete changes of orientation, and changes in the number of scaffold helices. These transitions are mainly caused by gene duplication and shuffling events. Structural models, topology information and other details are presented in a searchable database, CPAfold (cpafold.bioinfo.se). |
| format |
article |
| author |
Govindarajan Sudha Claudio Bassot John Lamb Nanjiang Shu Yan Huang Arne Elofsson |
| author_facet |
Govindarajan Sudha Claudio Bassot John Lamb Nanjiang Shu Yan Huang Arne Elofsson |
| author_sort |
Govindarajan Sudha |
| title |
The evolutionary history of topological variations in the CPA/AT transporters. |
| title_short |
The evolutionary history of topological variations in the CPA/AT transporters. |
| title_full |
The evolutionary history of topological variations in the CPA/AT transporters. |
| title_fullStr |
The evolutionary history of topological variations in the CPA/AT transporters. |
| title_full_unstemmed |
The evolutionary history of topological variations in the CPA/AT transporters. |
| title_sort |
evolutionary history of topological variations in the cpa/at transporters. |
| publisher |
Public Library of Science (PLoS) |
| publishDate |
2021 |
| url |
https://doaj.org/article/f962e7ca6d774f08888af5e65cb3b774 |
| work_keys_str_mv |
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