SPR Analysis of SUMO-Murine Rap1-Interacting Factor 1 C-Terminal Domain Interaction with G4
One of the advantages of surface plasmon resonance is its sensitivity and real-time analyses performed by this method. These characteristics allow us to further investigate the interactions of challenging proteins like Rap1-interacting factor 1 (Rif1). Rif1 is a crucial protein responsible for regul...
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MDPI AG
2022-01-01
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| Series: | Biosensors |
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| Online Access: | https://www.mdpi.com/2079-6374/12/1/37 |
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| author | Sana Alavi Hamed Ghadiri Bahareh Dabirmanesh Khosro Khajeh |
| author_facet | Sana Alavi Hamed Ghadiri Bahareh Dabirmanesh Khosro Khajeh |
| author_sort | Sana Alavi |
| collection | DOAJ |
| description | One of the advantages of surface plasmon resonance is its sensitivity and real-time analyses performed by this method. These characteristics allow us to further investigate the interactions of challenging proteins like Rap1-interacting factor 1 (Rif1). Rif1 is a crucial protein responsible for regulating different cellular processes including DNA replication, repair, and transcription. Mammalian Rif1 is yet to be fully characterized, partly because it is predicted to be intrinsically disordered for a large portion of its polypeptide. This protein has recently been the target of research as a potential biomarker in many cancers. Therefore, finding its most potent interacting partner is of utmost importance. Previous studies showed Rif1’s affinity towards structured DNAs and amongst them, T<sub>6</sub>G<sub>24</sub> was superior. Recent studies have shown mouse Rif1 (muRif1) C-terminal domain’s (CTD) role in binding to G-quadruplexes (G4). There were many concerns in investigating the Rif1 and G4 interaction, which can be minimized using SPR. Therefore, for the first time, we have assessed its binding with G4 at nano-molar concentrations with SPR which seems to be crucial for its binding analyses. Our results indicate that muRif1-CTD has a high affinity for this G4 sequence as it shows a very low K<sub>D</sub> (6 ± 1 nM). |
| first_indexed | 2024-03-10T01:49:08Z |
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| id | doaj.art-76f56df2b6864de88ebcfd630afa8532 |
| institution | Directory Open Access Journal |
| issn | 2079-6374 |
| language | English |
| last_indexed | 2024-03-10T01:49:08Z |
| publishDate | 2022-01-01 |
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| spelling | doaj.art-76f56df2b6864de88ebcfd630afa85322023-11-23T13:08:21ZengMDPI AGBiosensors2079-63742022-01-011213710.3390/bios12010037SPR Analysis of SUMO-Murine Rap1-Interacting Factor 1 C-Terminal Domain Interaction with G4Sana Alavi0Hamed Ghadiri1Bahareh Dabirmanesh2Khosro Khajeh3Department of Nanobiotechnology, Faculty of Biological Sciences, Tarbiat Modares University, Tehran 14115-154, IranDepartment of Biochemistry, Faculty of Biological Sciences, Tarbiat Modares University, Tehran 14115-154, IranDepartment of Biochemistry, Faculty of Biological Sciences, Tarbiat Modares University, Tehran 14115-154, IranDepartment of Nanobiotechnology, Faculty of Biological Sciences, Tarbiat Modares University, Tehran 14115-154, IranOne of the advantages of surface plasmon resonance is its sensitivity and real-time analyses performed by this method. These characteristics allow us to further investigate the interactions of challenging proteins like Rap1-interacting factor 1 (Rif1). Rif1 is a crucial protein responsible for regulating different cellular processes including DNA replication, repair, and transcription. Mammalian Rif1 is yet to be fully characterized, partly because it is predicted to be intrinsically disordered for a large portion of its polypeptide. This protein has recently been the target of research as a potential biomarker in many cancers. Therefore, finding its most potent interacting partner is of utmost importance. Previous studies showed Rif1’s affinity towards structured DNAs and amongst them, T<sub>6</sub>G<sub>24</sub> was superior. Recent studies have shown mouse Rif1 (muRif1) C-terminal domain’s (CTD) role in binding to G-quadruplexes (G4). There were many concerns in investigating the Rif1 and G4 interaction, which can be minimized using SPR. Therefore, for the first time, we have assessed its binding with G4 at nano-molar concentrations with SPR which seems to be crucial for its binding analyses. Our results indicate that muRif1-CTD has a high affinity for this G4 sequence as it shows a very low K<sub>D</sub> (6 ± 1 nM).https://www.mdpi.com/2079-6374/12/1/37mouse Rap1-interacting factor 1G-quadruplexsurface plasmon resonancemolecular interactiondissociation constant (K<sub>D</sub>) |
| spellingShingle | Sana Alavi Hamed Ghadiri Bahareh Dabirmanesh Khosro Khajeh SPR Analysis of SUMO-Murine Rap1-Interacting Factor 1 C-Terminal Domain Interaction with G4 Biosensors mouse Rap1-interacting factor 1 G-quadruplex surface plasmon resonance molecular interaction dissociation constant (K<sub>D</sub>) |
| title | SPR Analysis of SUMO-Murine Rap1-Interacting Factor 1 C-Terminal Domain Interaction with G4 |
| title_full | SPR Analysis of SUMO-Murine Rap1-Interacting Factor 1 C-Terminal Domain Interaction with G4 |
| title_fullStr | SPR Analysis of SUMO-Murine Rap1-Interacting Factor 1 C-Terminal Domain Interaction with G4 |
| title_full_unstemmed | SPR Analysis of SUMO-Murine Rap1-Interacting Factor 1 C-Terminal Domain Interaction with G4 |
| title_short | SPR Analysis of SUMO-Murine Rap1-Interacting Factor 1 C-Terminal Domain Interaction with G4 |
| title_sort | spr analysis of sumo murine rap1 interacting factor 1 c terminal domain interaction with g4 |
| topic | mouse Rap1-interacting factor 1 G-quadruplex surface plasmon resonance molecular interaction dissociation constant (K<sub>D</sub>) |
| url | https://www.mdpi.com/2079-6374/12/1/37 |
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