Analysis of tail-anchored protein translocation pathway in plants
Tail-anchored (TA) proteins are a special class of membrane proteins that carry out vital functions in all living cells. Targeting mechanisms of TA proteins are investigated as the best example for post-translational protein targeting in yeast. Of the several mechanisms, Guided Entry of Tail-anchore...
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| Format: | Article |
| Language: | English |
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Elsevier
2018-07-01
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| Series: | Biochemistry and Biophysics Reports |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2405580818301109 |
| _version_ | 1819096838571032576 |
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| author | M.S. Manu Deepanjan Ghosh Bhushan P. Chaudhari Sureshkumar Ramasamy |
| author_facet | M.S. Manu Deepanjan Ghosh Bhushan P. Chaudhari Sureshkumar Ramasamy |
| author_sort | M.S. Manu |
| collection | DOAJ |
| description | Tail-anchored (TA) proteins are a special class of membrane proteins that carry out vital functions in all living cells. Targeting mechanisms of TA proteins are investigated as the best example for post-translational protein targeting in yeast. Of the several mechanisms, Guided Entry of Tail-anchored protein (GET) pathway plays a major role in TA protein targeting. Many in silico and in vivo analyses are geared to identify TA proteins and their targeting mechanisms in different systems including Arabidopsis thaliana. Yet, crop plants that grow in specific and/or different conditions are not investigated for the presence of TA proteins and GET pathway. This study majorly investigates GET pathway in two crop plants, Oryza sativa subsp. Indica and Solanum tuberosum, through detailed in silico analysis. 508 and 912 TA proteins are identified in Oryza sativa subsp. Indica and Solanum tuberosum respectively and their localization with respect to endoplasmic reticulum (ER), mitochondria, and chloroplast has been delineated. Similarly, the associated GET proteins are identified (Get1, Get3 and Get4) and their structural inferences are elucidated using homology modelling. Get3 models are based on yeast Get3. The cytoplasmic Get3 from O. sativa is identified to be very similar to yeast Get3 with conserved P-loop and TA binding groove. Three cytoplasmic Get3s are identified for S. tuberosum. Taken together, this is the first study to identify TA proteins and GET components in Oryza sativa subsp. Indica and Solanum tuberosum, forming the basis for any further experimental characterization of TA targeting and GET pathway mechanisms in crop plants. |
| first_indexed | 2024-12-22T00:05:33Z |
| format | Article |
| id | doaj.art-c84781321ccc457f8b77bdb7ce5db119 |
| institution | Directory Open Access Journal |
| issn | 2405-5808 |
| language | English |
| last_indexed | 2024-12-22T00:05:33Z |
| publishDate | 2018-07-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Biochemistry and Biophysics Reports |
| spelling | doaj.art-c84781321ccc457f8b77bdb7ce5db1192022-12-21T18:45:34ZengElsevierBiochemistry and Biophysics Reports2405-58082018-07-0114C16116710.1016/j.bbrep.2018.05.001Analysis of tail-anchored protein translocation pathway in plantsM.S. Manu0Deepanjan Ghosh1Bhushan P. Chaudhari2Sureshkumar Ramasamy3Biochemical Sciences Division, CSIR-National Chemical Laboratory, Pune 411008 IndiaBiochemical Sciences Division, CSIR-National Chemical Laboratory, Pune 411008 IndiaBiochemical Sciences Division, CSIR-National Chemical Laboratory, Pune 411008 IndiaBiochemical Sciences Division, CSIR-National Chemical Laboratory, Pune 411008 IndiaTail-anchored (TA) proteins are a special class of membrane proteins that carry out vital functions in all living cells. Targeting mechanisms of TA proteins are investigated as the best example for post-translational protein targeting in yeast. Of the several mechanisms, Guided Entry of Tail-anchored protein (GET) pathway plays a major role in TA protein targeting. Many in silico and in vivo analyses are geared to identify TA proteins and their targeting mechanisms in different systems including Arabidopsis thaliana. Yet, crop plants that grow in specific and/or different conditions are not investigated for the presence of TA proteins and GET pathway. This study majorly investigates GET pathway in two crop plants, Oryza sativa subsp. Indica and Solanum tuberosum, through detailed in silico analysis. 508 and 912 TA proteins are identified in Oryza sativa subsp. Indica and Solanum tuberosum respectively and their localization with respect to endoplasmic reticulum (ER), mitochondria, and chloroplast has been delineated. Similarly, the associated GET proteins are identified (Get1, Get3 and Get4) and their structural inferences are elucidated using homology modelling. Get3 models are based on yeast Get3. The cytoplasmic Get3 from O. sativa is identified to be very similar to yeast Get3 with conserved P-loop and TA binding groove. Three cytoplasmic Get3s are identified for S. tuberosum. Taken together, this is the first study to identify TA proteins and GET components in Oryza sativa subsp. Indica and Solanum tuberosum, forming the basis for any further experimental characterization of TA targeting and GET pathway mechanisms in crop plants.http://www.sciencedirect.com/science/article/pii/S2405580818301109TA proteinsGET pathwayO. sativaS. tuberosumCrop plants |
| spellingShingle | M.S. Manu Deepanjan Ghosh Bhushan P. Chaudhari Sureshkumar Ramasamy Analysis of tail-anchored protein translocation pathway in plants Biochemistry and Biophysics Reports TA proteins GET pathway O. sativa S. tuberosum Crop plants |
| title | Analysis of tail-anchored protein translocation pathway in plants |
| title_full | Analysis of tail-anchored protein translocation pathway in plants |
| title_fullStr | Analysis of tail-anchored protein translocation pathway in plants |
| title_full_unstemmed | Analysis of tail-anchored protein translocation pathway in plants |
| title_short | Analysis of tail-anchored protein translocation pathway in plants |
| title_sort | analysis of tail anchored protein translocation pathway in plants |
| topic | TA proteins GET pathway O. sativa S. tuberosum Crop plants |
| url | http://www.sciencedirect.com/science/article/pii/S2405580818301109 |
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