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lunchtime_byte_2023 [2022/12/21 15:40] maly CCP4i2 interface screenshot |
lunchtime_byte_2023 [2023/01/04 23:29] maly old revision restored (2022/12/22 09:04) |
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| - | ====== PAIREF in CCP4 - lunchtime byte ====== | + | ====== PAIREF in CCP4 - CCP4SW Lunchtime Byte ====== |
| - | 5 Jan 2023 | + | 5th Jan 2023 |
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| + | [[https://pairef.fjfi.cvut.cz/docs/pairef_poli_ccp4sw2023/20230105_ccp4sw_pairef.pdf|{{pdf_icon.png?30x35}}]] [[https://pairef.fjfi.cvut.cz/docs/pairef_poli_ccp4sw2023/20230105_ccp4sw_pairef.pdf|Download presentation in PDF]] | ||
| In this short tutorial, we submit a paired refinement job using the //PAIREF// program, now distributed in the [[http://www.ccp4.ac.uk/|CCP4 suite]]. You can use our example data from interferon gamma from //Paralichthys olivaceus// (POLI) (([[https://www.sciencedirect.com/science/article/pii/S1050464818302651|Zahradnik et al. (2018). Fish Shellfish Immunol. 79:140–152]])), PDB entry [[https://www.rcsb.org/structure/6F1E|6F1E]]. | In this short tutorial, we submit a paired refinement job using the //PAIREF// program, now distributed in the [[http://www.ccp4.ac.uk/|CCP4 suite]]. You can use our example data from interferon gamma from //Paralichthys olivaceus// (POLI) (([[https://www.sciencedirect.com/science/article/pii/S1050464818302651|Zahradnik et al. (2018). Fish Shellfish Immunol. 79:140–152]])), PDB entry [[https://www.rcsb.org/structure/6F1E|6F1E]]. | ||
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| The results should look similar to ours: [[https://pairef.fjfi.cvut.cz/docs/pairef_poli_ccp4sw2023/PAIREF_poli_ccp4sw2023.html]]. | The results should look similar to ours: [[https://pairef.fjfi.cvut.cz/docs/pairef_poli_ccp4sw2023/PAIREF_poli_ccp4sw2023.html]]. | ||
| - | //PAIREF// ran all the calculation and did also an automatic suggestion of an optimal high-resolution cut off. Let's check the table in the top of the HTML log file: | + | //PAIREF// ran all the calculation and did also an automatic suggestion of an optimal high-resolution cut off. Let's check the table on top of the HTML log file: |
| {{ :poli_ccp4sw2023_verdict_table.png?nolink |}} | {{ :poli_ccp4sw2023_verdict_table.png?nolink |}} | ||
