PlzR regulates type IV pili assembly in Pseudomonas aeruginosa via PilZ binding - ColabFold models
Authors/Creators
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Hendrix, Hanne
(Researcher)1
-
Itterbeek, Annabel
(Researcher)1, 2
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Longin, Hannelore
(Researcher)1, 3
- Delanghe, Lize (Researcher)1
- Vriens, Eveline (Researcher)1
- Vallino, Marta (Researcher)4
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Lammens, Eveline-Marie
(Researcher)1
- Haque, Farhana (Researcher)5
- Yusuf, Ahmed (Researcher)5
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Noben, Jean-Paul
(Researcher)6
- et al. Show all 14 authors
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Hendrix, Hanne
(Researcher)1
-
Itterbeek, Annabel
(Researcher)1, 2
-
Longin, Hannelore
(Researcher)1, 3
- Delanghe, Lize (Researcher)1
- Vriens, Eveline (Researcher)1
- Vallino, Marta (Researcher)4
-
Lammens, Eveline-Marie
(Researcher)1
- Haque, Farhana (Researcher)5
- Yusuf, Ahmed (Researcher)5
-
Noben, Jean-Paul
(Researcher)6
-
Boon, Maarten
(Researcher)1
-
Koch, Matthias
(Researcher)5
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van Noort, Vera
(Researcher)3, 7
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Lavigne, Rob
(Researcher)1
- 1. Laboratory of Gene Technology, Department of Biosystems, KU Leuven, Heverlee, Belgium
- 2. Laboratory for host pathogen interactions in livestock, Department of Biosystems, KU Leuven, Heverlee, Belgium
- 3. Computational Systems Biology, Department of Microbial and Molecular Systems, KU Leuven, Heverlee, Belgium
- 4. Institute for Sustainable Plant Protection, National Research Council of Italy, IPSP-CNR Headquarter, Turin, Italy
- 5. Department of Biology, Texas A&M University, College Station, Texas, USA
- 6. Biomedical Research Institute and Transnational University Limburg, School of Life Sciences, Hasselt University, Diepenbeek, Belgium
- 7. Institute of Biology Leiden, Leiden University, Leiden, The Netherlands
Description
This dataset contains the ColabFold models from the article 'PlzR regulates type IV pili assembly in Pseudomonas aeruginosa via PilZ binding' by Hendrix, H. et al (Nat. Comm., doi: 10.1038/s41467-024-52732-5).
The dataset consists of two zips (a_PlzR_PilZ_models.zip, b_PlzR_PilZ_PilB_models.zip), which contain the direct output of the different ColabFold runs for the PlzR:PilZ protein complex, and the PlzR:PilZ:PilB protein complex, respectively.
All models were predicted using ColabFold's AlphaFold2_mmseqs2 v1.2 notebook. For PlzR:PilZ models, models were generated with relaxation and templates enabled and 3, 6 and 48 recycles (folders PA2560_PilZ_auto_rec3_AMBER_templ_4e025.result, PA2560_PilZ_auto_rec6_AMBER_templ_4e025.result and PA2560_PilZ_auto_rec48_AMBER_templ_4e025.result, respectively). For PlzR:PilZ:PilB models, models were generated with templates enabled and 3 recycles (folder PA2560_PilZ_PilB_auto_rec3_templ_6ea29.result). For PlzR:PilZ:PilB models with only the first 200 amino acids of PilB modeled, models were generated with relaxation and templates enabled and 3 and 6 recycles (folders PA2560_PilZ_PilB200_auto_rec3_AMBER_templ_cd74d.result and PA2560_PilZ_PilB200_auto_rec6_AMBER_templ_cd74d.result, respectively).