Publications of V Alva

Journal Article (42)

1.
Journal Article
Bharat, T.; Tocheva, E.; Alva, V.: The cell envelope architecture of Deinococcus: HPI forms the S-layer and SlpA tethers the outer membrane to peptidoglycan. Proceedings of the National Academy of Sciences of the United States of America 120 (51), e2305338120 (2023)
2.
Journal Article
Kaminski, K.; Ludwiczak, J.; Pawlicki, K.; Alva, V.; Dunin-Horkawicz, S.: pLM-BLAST: distant homology detection based on direct comparison of sequence representations from protein language models. Bioinformatics 39 (10), btad579 (2023)
3.
Journal Article
Böhning, J.; Dobbelstein, A.; Sulkowski, N.; Eilers, K.; von Kügelgen, A.; Tarafder, A.; Peak-Chew, S.-Y.; Skehel, M.; Alva, V.; Filloux, A. et al.; Bharat, T.: Architecture of the biofilm-associated archaic Chaperone-Usher pilus CupE from Pseudomonas aeruginosa. PLoS Pathogens 19 (4), e1011177 (2023)
4.
Journal Article
von Kügelgen, A.; van Dorst, S.; Yamashita, K.; Sexton, D.; Tocheva, E.; Murshudov, G.; Alva, V.; Bharat, T.: Interdigitated immunoglobulin arrays form the hyperstable surface layer of the extremophilic bacterium Deinococcus radiodurans. Proceedings of the National Academy of Sciences of the United States of America 120 (16), e2215808120 (2023)
5.
Journal Article
von Kügelgen, A.; van Dorst, S.; Alva, V.; Bharat, T.: A multidomain connector links the outer membrane and cell wall in phylogenetically deep-branching bacteria. Proceedings of the National Academy of Sciences of the United States of America 119 (33), e2203156119 (2022)
6.
Journal Article
Elhabashy, H.; Merino, F.; Alva, V.; Kohlbacher, O.; Lupas, A.: Exploring protein-protein interactions at the proteome level. Structure 30 (4), pp. 462 - 475 (2022)
7.
Journal Article
von Kügelgen, A.; Alva, V.; Bharat, T.: Complete atomic structure of a native archaeal cell surface. Cell Reports 37 (8), 110052 (2021)
8.
Journal Article
Pereira, J.; Alva, V.: How do I get the most out of my protein sequence using bioinformatics tools? Acta Crystallographica Section D: Structural Biology 77 (9), pp. 1116 - 1126 (2021)
9.
Journal Article
Fuchs, A.; Alva, V.; Lupas, A.: An astonishing wealth of new proteasome homologs. Bioinformatics 37 (24), pp. 4694 - 4703 (2021)
10.
Journal Article
Bharat, T.; von Kügelgen, A.; Alva, V.: Molecular Logic of Prokaryotic Surface Layer Structures. Trends in Microbiology 29 (5), pp. 405 - 415 (2021)
11.
Journal Article
Lupas, A.; Pereira, J.; Alva, V.; Merino, F.; Coles, M.; Hartmann, M.: The breakthrough in protein structure prediction. Biochemical Journal 478 (10), pp. 1885 - 1890 (2021)
12.
Journal Article
Selim, K.; Tremiño, L.; Marco-Marín, C.; Alva, V.; Espinosa, J.; Contreras, A.; Hartmann, M.; Forchhammer, K.; Rubio, V.: Functional and structural characterization of PII-like protein CutA does not support involvement in heavy metal tolerance and hints at a small-molecule carrying/signaling role. The FEBS Journal 288 (4), pp. 1142 - 1162 (2021)
13.
Journal Article
Gabler, F.; Nam, S.-Z.; Till, S.; Mirdita, M.; Steinegger, M.; Söding, J.; Lupas, A.; Alva, V.: Protein sequence analysis using the MPI Bioinformatics Toolkit. Current Protocols in Bioinformatics 72 (1), e108 (2020)
14.
Journal Article
Seefelder, M.; Alva, V.; Huang, B.; Engler, T.; Baumeister, W.; Guo, Q.; Fernandez-Busnadiego, R.; Lupas, A.; Kochanek, S.: The evolution of the huntingtin-associated protein 40 (HAP40) in conjunction with huntingtin. BMC Evolutionary Biology 20 (1), 162 (2020)
15.
Journal Article
Narunsky, A.; Kessel, A.; Solan, R.; Alva, V.; Kolodny, R.; Ben-Tal, N.: On the evolution of protein-adenine binding. Proceedings of the National Academy of Sciences of the United States of America 117 (9), pp. 4701 - 4709 (2020)
16.
Journal Article
Lauer, J.; Segeletz, S.; Cezanne, A.; Guaitoli, G.; Raimondi, F.; Gentzel, M.; Alva, V.; Habeck, M.; Kalaidzidis, Y.; Ueffing, M. et al.; Lupas, A.; Gloeckner, C.; Zerial, M.: Auto-regulation of Rab5 GEF activity in Rabex5 by allosteric structural changes, catalytic core dynamics and ubiquitin binding. eLife 8, e46302 (2019)
17.
Journal Article
Afanasieva, E.; Chaudhuri, I.; Martin, J.; Hertle, E.; Ursinus, A.; Alva, V.; Hartmann, M.; Lupas, A.: Structural diversity of oligomeric β-propellers with different numbers of identical blades. eLife 8, e49853 (2019)
18.
Journal Article
Brault, M.; Petit, J.; Immel, F.; Nicolas, W.; Glavier, M.; Brocard, L.; Gaston, A.; Fouché, M.; Hawkins, T.; Crowet, J.-M. et al.; Grison, M.; Germain, V.; Rocher, M.; Kraner, M.; Alva, V.; Claverol, S.; Paterlini, A.; Helariutta, Y.; Deleu, M.; Lins, L.; Tilsner, J.; Bayer, E.: Multiple C2 domains and transmembrane region proteins (MCTPs) tether membranes at plasmodesmata. EMBO Reports 20 (8), e47182 (2019)
19.
Journal Article
Ludwiczak, J.; Winski, A.; Szczepaniak , A.; Alva, V.; Dunin-Horkawicz, S.: DeepCoil: a fast and accurate prediction of coiled-coil domains in protein sequences. Bioinformatics 35 (16), pp. 2790 - 2795 (2019)
20.
Journal Article
Alva, V.; Lupas, A.: Histones Predate the Split Between Bacteria and Archaea. Bioinformatics 35 (14), pp. 2349 - 2353 (2019)
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